-- dump date 20140618_194621 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1004785000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1004785000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1004785000003 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 1004785000004 Walker A motif; other site 1004785000005 ATP binding site [chemical binding]; other site 1004785000006 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 1004785000007 Walker B motif; other site 1004785000008 arginine finger; other site 1004785000009 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 1004785000010 DnaA box-binding interface [nucleotide binding]; other site 1004785000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1004785000012 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 1004785000013 putative DNA binding surface [nucleotide binding]; other site 1004785000014 dimer interface [polypeptide binding]; other site 1004785000015 beta-clamp/clamp loader binding surface; other site 1004785000016 beta-clamp/translesion DNA polymerase binding surface; other site 1004785000017 recombination protein F; Reviewed; Region: recF; PRK00064 1004785000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785000019 Walker A/P-loop; other site 1004785000020 ATP binding site [chemical binding]; other site 1004785000021 Q-loop/lid; other site 1004785000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785000023 ABC transporter signature motif; other site 1004785000024 Walker B; other site 1004785000025 D-loop; other site 1004785000026 H-loop/switch region; other site 1004785000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1004785000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1004785000029 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 1004785000030 anchoring element; other site 1004785000031 dimer interface [polypeptide binding]; other site 1004785000032 ATP binding site [chemical binding]; other site 1004785000033 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 1004785000034 active site 1004785000035 putative metal-binding site [ion binding]; other site 1004785000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1004785000037 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 1004785000038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1004785000039 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 1004785000040 dimer interface [polypeptide binding]; other site 1004785000041 motif 1; other site 1004785000042 active site 1004785000043 motif 2; other site 1004785000044 motif 3; other site 1004785000045 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1004785000046 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1004785000047 Der GTPase activator; Provisional; Region: PRK05244 1004785000048 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004785000049 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 1004785000050 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1004785000051 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1004785000052 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1004785000053 Cytochrome c; Region: Cytochrom_C; cl11414 1004785000054 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1004785000055 G1 box; other site 1004785000056 GTP/Mg2+ binding site [chemical binding]; other site 1004785000057 Switch I region; other site 1004785000058 G2 box; other site 1004785000059 G3 box; other site 1004785000060 Switch II region; other site 1004785000061 G4 box; other site 1004785000062 G5 box; other site 1004785000063 DNA polymerase I; Provisional; Region: PRK05755 1004785000064 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1004785000065 active site 1004785000066 metal binding site 1 [ion binding]; metal-binding site 1004785000067 putative 5' ssDNA interaction site; other site 1004785000068 metal binding site 3; metal-binding site 1004785000069 metal binding site 2 [ion binding]; metal-binding site 1004785000070 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1004785000071 putative DNA binding site [nucleotide binding]; other site 1004785000072 putative metal binding site [ion binding]; other site 1004785000073 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 1004785000074 active site 1004785000075 catalytic site [active] 1004785000076 substrate binding site [chemical binding]; other site 1004785000077 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1004785000078 active site 1004785000079 DNA binding site [nucleotide binding] 1004785000080 catalytic site [active] 1004785000081 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1004785000082 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1004785000083 conserved cys residue [active] 1004785000084 Cation transport protein; Region: TrkH; cl17365 1004785000085 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1004785000086 Homeodomain-like domain; Region: HTH_23; cl17451 1004785000087 HTH-like domain; Region: HTH_21; pfam13276 1004785000088 Integrase core domain; Region: rve; pfam00665 1004785000089 Integrase core domain; Region: rve_2; pfam13333 1004785000090 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1004785000091 TrkA-N domain; Region: TrkA_N; pfam02254 1004785000092 TrkA-C domain; Region: TrkA_C; pfam02080 1004785000093 TrkA-N domain; Region: TrkA_N; pfam02254 1004785000094 TrkA-C domain; Region: TrkA_C; pfam02080 1004785000095 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 1004785000096 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1004785000097 putative RNA binding site [nucleotide binding]; other site 1004785000098 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 1004785000099 S-adenosylmethionine binding site [chemical binding]; other site 1004785000100 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1004785000101 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1004785000102 putative active site [active] 1004785000103 substrate binding site [chemical binding]; other site 1004785000104 putative cosubstrate binding site; other site 1004785000105 catalytic site [active] 1004785000106 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1004785000107 substrate binding site [chemical binding]; other site 1004785000108 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 1004785000109 active site 1004785000110 catalytic residues [active] 1004785000111 metal binding site [ion binding]; metal-binding site 1004785000112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785000113 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1004785000114 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1004785000115 DNA protecting protein DprA; Region: dprA; TIGR00732 1004785000116 Protein of unknown function (DUF494); Region: DUF494; cl01103 1004785000117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004785000118 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004785000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004785000120 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1004785000121 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1004785000122 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1004785000123 OmpW family; Region: OmpW; cl17427 1004785000124 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 1004785000125 apolar tunnel; other site 1004785000126 heme binding site [chemical binding]; other site 1004785000127 dimerization interface [polypeptide binding]; other site 1004785000128 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1004785000129 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1004785000130 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1004785000131 shikimate binding site; other site 1004785000132 NAD(P) binding site [chemical binding]; other site 1004785000133 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1004785000134 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 1004785000135 trimer interface [polypeptide binding]; other site 1004785000136 putative metal binding site [ion binding]; other site 1004785000137 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1004785000138 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1004785000139 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785000140 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1004785000141 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1004785000142 putative active site [active] 1004785000143 putative PHP Thumb interface [polypeptide binding]; other site 1004785000144 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 1004785000145 generic binding surface II; other site 1004785000146 generic binding surface I; other site 1004785000147 DNA Polymerase Y-family; Region: PolY_like; cd03468 1004785000148 active site 1004785000149 DNA binding site [nucleotide binding] 1004785000150 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1004785000151 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004785000152 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1004785000153 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004785000154 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 1004785000155 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785000156 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1004785000157 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004785000158 metal binding site [ion binding]; metal-binding site 1004785000159 division inhibitor protein; Provisional; Region: slmA; PRK09480 1004785000160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785000161 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1004785000162 Flavoprotein; Region: Flavoprotein; pfam02441 1004785000163 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1004785000164 hypothetical protein; Reviewed; Region: PRK00024 1004785000165 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1004785000166 MPN+ (JAMM) motif; other site 1004785000167 Zinc-binding site [ion binding]; other site 1004785000168 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1004785000169 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1004785000170 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1004785000171 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1004785000172 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1004785000173 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1004785000174 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1004785000175 DNA binding site [nucleotide binding] 1004785000176 catalytic residue [active] 1004785000177 H2TH interface [polypeptide binding]; other site 1004785000178 putative catalytic residues [active] 1004785000179 turnover-facilitating residue; other site 1004785000180 intercalation triad [nucleotide binding]; other site 1004785000181 8OG recognition residue [nucleotide binding]; other site 1004785000182 putative reading head residues; other site 1004785000183 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1004785000184 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004785000185 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1004785000186 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1004785000187 active site 1004785000188 (T/H)XGH motif; other site 1004785000189 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1004785000190 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1004785000191 active site 1004785000192 ATP binding site [chemical binding]; other site 1004785000193 serine/threonine protein kinase; Provisional; Region: PRK14879 1004785000194 PBP superfamily domain; Region: PBP_like_2; cl17296 1004785000195 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004785000196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000198 metal binding site [ion binding]; metal-binding site 1004785000199 active site 1004785000200 I-site; other site 1004785000201 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 1004785000202 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1004785000203 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 1004785000204 substrate-cofactor binding pocket; other site 1004785000205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785000206 catalytic residue [active] 1004785000207 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1004785000208 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1004785000209 NAD(P) binding site [chemical binding]; other site 1004785000210 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 1004785000211 active site residue [active] 1004785000212 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1004785000213 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1004785000214 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1004785000215 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1004785000216 Chorismate lyase; Region: Chor_lyase; cl01230 1004785000217 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1004785000218 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004785000219 Membrane fusogenic activity; Region: BMFP; pfam04380 1004785000220 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1004785000221 Part of AAA domain; Region: AAA_19; pfam13245 1004785000222 Family description; Region: UvrD_C_2; pfam13538 1004785000223 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785000224 GAF domain; Region: GAF_2; pfam13185 1004785000225 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785000226 GAF domain; Region: GAF; pfam01590 1004785000227 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000229 metal binding site [ion binding]; metal-binding site 1004785000230 active site 1004785000231 I-site; other site 1004785000232 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 1004785000233 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1004785000234 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 1004785000235 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1004785000236 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1004785000237 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 1004785000238 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1004785000239 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1004785000240 cofactor binding site; other site 1004785000241 DNA binding site [nucleotide binding] 1004785000242 substrate interaction site [chemical binding]; other site 1004785000243 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1004785000244 additional DNA contacts [nucleotide binding]; other site 1004785000245 mismatch recognition site; other site 1004785000246 active site 1004785000247 zinc binding site [ion binding]; other site 1004785000248 DNA intercalation site [nucleotide binding]; other site 1004785000249 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1004785000250 Part of AAA domain; Region: AAA_19; pfam13245 1004785000251 Family description; Region: UvrD_C_2; pfam13538 1004785000252 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1004785000253 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 1004785000254 Walker A motif; other site 1004785000255 ATP binding site [chemical binding]; other site 1004785000256 Family description; Region: UvrD_C_2; pfam13538 1004785000257 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1004785000258 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 1004785000259 ATP-binding site [chemical binding]; other site 1004785000260 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1004785000261 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 1004785000262 ATP binding site [chemical binding]; other site 1004785000263 putative Mg++ binding site [ion binding]; other site 1004785000264 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 1004785000265 nucleotide binding region [chemical binding]; other site 1004785000266 ATP-binding site [chemical binding]; other site 1004785000267 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 1004785000268 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 1004785000269 S-adenosylmethionine binding site [chemical binding]; other site 1004785000270 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 1004785000271 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785000272 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1004785000273 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1004785000274 Walker A/P-loop; other site 1004785000275 ATP binding site [chemical binding]; other site 1004785000276 Q-loop/lid; other site 1004785000277 ABC transporter signature motif; other site 1004785000278 Walker B; other site 1004785000279 D-loop; other site 1004785000280 H-loop/switch region; other site 1004785000281 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1004785000282 Walker A/P-loop; other site 1004785000283 ATP binding site [chemical binding]; other site 1004785000284 Q-loop/lid; other site 1004785000285 ABC transporter signature motif; other site 1004785000286 Walker B; other site 1004785000287 D-loop; other site 1004785000288 H-loop/switch region; other site 1004785000289 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1004785000290 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1004785000291 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1004785000292 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1004785000293 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1004785000294 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 1004785000295 N-terminal plug; other site 1004785000296 ligand-binding site [chemical binding]; other site 1004785000297 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004785000298 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785000299 active site 1004785000300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785000301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785000302 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 1004785000303 substrate binding pocket [chemical binding]; other site 1004785000304 dimerization interface [polypeptide binding]; other site 1004785000305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785000306 YcjX-like family, DUF463; Region: DUF463; cl01193 1004785000307 hypothetical protein; Provisional; Region: PRK05415 1004785000308 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1004785000309 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1004785000310 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1004785000311 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1004785000312 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1004785000313 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 1004785000314 FeS/SAM binding site; other site 1004785000315 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1004785000316 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1004785000317 ThiS interaction site; other site 1004785000318 putative active site [active] 1004785000319 tetramer interface [polypeptide binding]; other site 1004785000320 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1004785000321 thiS-thiF/thiG interaction site; other site 1004785000322 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1004785000323 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 1004785000324 ATP binding site [chemical binding]; other site 1004785000325 substrate interface [chemical binding]; other site 1004785000326 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1004785000327 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1004785000328 substrate binding site [chemical binding]; other site 1004785000329 ATP binding site [chemical binding]; other site 1004785000330 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1004785000331 thiamine phosphate binding site [chemical binding]; other site 1004785000332 active site 1004785000333 pyrophosphate binding site [ion binding]; other site 1004785000334 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1004785000335 ThiC-associated domain; Region: ThiC-associated; pfam13667 1004785000336 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1004785000337 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1004785000338 HemY protein N-terminus; Region: HemY_N; pfam07219 1004785000339 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1004785000340 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1004785000341 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1004785000342 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 1004785000343 active site 1004785000344 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1004785000345 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 1004785000346 domain interfaces; other site 1004785000347 active site 1004785000348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000350 metal binding site [ion binding]; metal-binding site 1004785000351 active site 1004785000352 I-site; other site 1004785000353 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1004785000354 putative hydrolase; Provisional; Region: PRK11460 1004785000355 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1004785000356 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 1004785000357 catalytic site [active] 1004785000358 G-X2-G-X-G-K; other site 1004785000359 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1004785000360 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1004785000361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785000362 Zn2+ binding site [ion binding]; other site 1004785000363 Mg2+ binding site [ion binding]; other site 1004785000364 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1004785000365 synthetase active site [active] 1004785000366 NTP binding site [chemical binding]; other site 1004785000367 metal binding site [ion binding]; metal-binding site 1004785000368 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 1004785000369 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1004785000370 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 1004785000371 homotrimer interaction site [polypeptide binding]; other site 1004785000372 putative active site [active] 1004785000373 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1004785000374 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004785000375 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1004785000376 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1004785000377 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 1004785000378 ssDNA binding site; other site 1004785000379 generic binding surface II; other site 1004785000380 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 1004785000381 ATP binding site [chemical binding]; other site 1004785000382 putative Mg++ binding site [ion binding]; other site 1004785000383 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 1004785000384 nucleotide binding region [chemical binding]; other site 1004785000385 ATP-binding site [chemical binding]; other site 1004785000386 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 1004785000387 S-adenosylmethionine binding site [chemical binding]; other site 1004785000388 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 1004785000389 catalytic triad [active] 1004785000390 dimer interface [polypeptide binding]; other site 1004785000391 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1004785000392 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1004785000393 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 1004785000394 dimer interface [polypeptide binding]; other site 1004785000395 conserved gate region; other site 1004785000396 putative PBP binding loops; other site 1004785000397 ABC-ATPase subunit interface; other site 1004785000398 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 1004785000399 dimer interface [polypeptide binding]; other site 1004785000400 conserved gate region; other site 1004785000401 putative PBP binding loops; other site 1004785000402 ABC-ATPase subunit interface; other site 1004785000403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1004785000404 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1004785000405 Walker A/P-loop; other site 1004785000406 ATP binding site [chemical binding]; other site 1004785000407 Q-loop/lid; other site 1004785000408 ABC transporter signature motif; other site 1004785000409 Walker B; other site 1004785000410 D-loop; other site 1004785000411 H-loop/switch region; other site 1004785000412 TOBE domain; Region: TOBE_2; pfam08402 1004785000413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000415 metal binding site [ion binding]; metal-binding site 1004785000416 active site 1004785000417 I-site; other site 1004785000418 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 1004785000419 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1004785000420 Predicted flavoproteins [General function prediction only]; Region: COG2081 1004785000421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785000422 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1004785000423 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785000424 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1004785000425 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 1004785000426 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785000427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000429 metal binding site [ion binding]; metal-binding site 1004785000430 active site 1004785000431 I-site; other site 1004785000432 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1004785000433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785000434 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 1004785000435 dimerization interface [polypeptide binding]; other site 1004785000436 Lysine efflux permease [General function prediction only]; Region: COG1279 1004785000437 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1004785000438 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1004785000439 DNA-J related protein; Region: DNAJ_related; pfam12339 1004785000440 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 1004785000441 HSP70 interaction site [polypeptide binding]; other site 1004785000442 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1004785000443 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785000444 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785000445 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1004785000446 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785000447 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004785000448 Serine hydrolase; Region: Ser_hydrolase; cl17834 1004785000449 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1004785000450 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1004785000451 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1004785000452 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004785000453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785000454 Coenzyme A binding pocket [chemical binding]; other site 1004785000455 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1004785000456 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1004785000457 putative active site [active] 1004785000458 Zn binding site [ion binding]; other site 1004785000459 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1004785000460 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785000461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000462 dimer interface [polypeptide binding]; other site 1004785000463 putative CheW interface [polypeptide binding]; other site 1004785000464 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785000465 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1004785000466 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 1004785000467 dimerization interface [polypeptide binding]; other site 1004785000468 active site 1004785000469 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785000470 PAS domain S-box; Region: sensory_box; TIGR00229 1004785000471 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 1004785000472 putative active site [active] 1004785000473 heme pocket [chemical binding]; other site 1004785000474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000476 metal binding site [ion binding]; metal-binding site 1004785000477 active site 1004785000478 I-site; other site 1004785000479 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 1004785000480 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 1004785000481 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785000482 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 1004785000483 putative C-terminal domain interface [polypeptide binding]; other site 1004785000484 putative GSH binding site (G-site) [chemical binding]; other site 1004785000485 putative dimer interface [polypeptide binding]; other site 1004785000486 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1004785000487 putative N-terminal domain interface [polypeptide binding]; other site 1004785000488 putative dimer interface [polypeptide binding]; other site 1004785000489 putative substrate binding pocket (H-site) [chemical binding]; other site 1004785000490 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1004785000491 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 1004785000492 ATP binding site [chemical binding]; other site 1004785000493 putative Mg++ binding site [ion binding]; other site 1004785000494 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 1004785000495 nucleotide binding region [chemical binding]; other site 1004785000496 ATP-binding site [chemical binding]; other site 1004785000497 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1004785000498 HRDC domain; Region: HRDC; pfam00570 1004785000499 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 1004785000500 CoenzymeA binding site [chemical binding]; other site 1004785000501 subunit interaction site [polypeptide binding]; other site 1004785000502 PHB binding site; other site 1004785000503 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1004785000504 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1004785000505 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 1004785000506 Divalent cation transporter; Region: MgtE; cl00786 1004785000507 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1004785000508 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785000509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000510 active site 1004785000511 phosphorylation site [posttranslational modification] 1004785000512 intermolecular recognition site; other site 1004785000513 dimerization interface [polypeptide binding]; other site 1004785000514 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000516 metal binding site [ion binding]; metal-binding site 1004785000517 active site 1004785000518 I-site; other site 1004785000519 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1004785000520 Part of AAA domain; Region: AAA_19; pfam13245 1004785000521 Family description; Region: UvrD_C_2; pfam13538 1004785000522 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1004785000523 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1004785000524 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 1004785000525 trimer interface [polypeptide binding]; other site 1004785000526 active site 1004785000527 substrate binding site [chemical binding]; other site 1004785000528 CoA binding site [chemical binding]; other site 1004785000529 MASE1; Region: MASE1; cl17823 1004785000530 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785000531 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785000532 metal binding site [ion binding]; metal-binding site 1004785000533 active site 1004785000534 I-site; other site 1004785000535 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1004785000536 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 1004785000537 motif II; other site 1004785000538 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1004785000539 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 1004785000540 active site 1004785000541 DNA binding site [nucleotide binding] 1004785000542 Int/Topo IB signature motif; other site 1004785000543 Protein of unknown function, DUF484; Region: DUF484; cl17449 1004785000544 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1004785000545 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1004785000546 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1004785000547 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1004785000548 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1004785000549 active site 1004785000550 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004785000551 substrate binding site [chemical binding]; other site 1004785000552 catalytic residues [active] 1004785000553 dimer interface [polypeptide binding]; other site 1004785000554 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1004785000555 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1004785000556 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1004785000557 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1004785000558 active site 1004785000559 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1004785000560 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1004785000561 active site 1004785000562 Zn binding site [ion binding]; other site 1004785000563 aromatic acid decarboxylase; Validated; Region: PRK05920 1004785000564 Flavoprotein; Region: Flavoprotein; pfam02441 1004785000565 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1004785000566 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004785000567 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785000568 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004785000569 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 1004785000570 AMP binding site [chemical binding]; other site 1004785000571 metal binding site [ion binding]; metal-binding site 1004785000572 active site 1004785000573 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 1004785000574 dimer interface [polypeptide binding]; other site 1004785000575 substrate binding site [chemical binding]; other site 1004785000576 metal binding sites [ion binding]; metal-binding site 1004785000577 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1004785000578 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1004785000579 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1004785000580 inhibitor site; inhibition site 1004785000581 active site 1004785000582 dimer interface [polypeptide binding]; other site 1004785000583 catalytic residue [active] 1004785000584 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1004785000585 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 1004785000586 active site 1004785000587 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 1004785000588 DNA binding site [nucleotide binding] 1004785000589 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004785000590 nucleotide binding site [chemical binding]; other site 1004785000591 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1004785000592 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1004785000593 nucleotide binding site [chemical binding]; other site 1004785000594 SBD interface [polypeptide binding]; other site 1004785000595 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1004785000596 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004785000597 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004785000598 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1004785000599 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004785000600 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 1004785000601 putative substrate translocation pore; other site 1004785000602 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1004785000603 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 1004785000604 active site 1004785000605 motif I; other site 1004785000606 motif II; other site 1004785000607 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004785000608 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1004785000609 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785000610 DNA binding site [nucleotide binding] 1004785000611 domain linker motif; other site 1004785000612 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1004785000613 dimerization interface (closed form) [polypeptide binding]; other site 1004785000614 ligand binding site [chemical binding]; other site 1004785000615 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1004785000616 active site 1004785000617 catalytic residues [active] 1004785000618 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1004785000619 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1004785000620 dimer interface [polypeptide binding]; other site 1004785000621 active site 1004785000622 galactokinase; Provisional; Region: PRK05101 1004785000623 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1004785000624 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004785000625 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 1004785000626 Na binding site [ion binding]; other site 1004785000627 substrate binding site [chemical binding]; other site 1004785000628 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1004785000629 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 1004785000630 dimer interface [polypeptide binding]; other site 1004785000631 ssDNA binding site [nucleotide binding]; other site 1004785000632 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1004785000633 conserved hypothetical protein; Region: TIGR02285 1004785000634 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 1004785000635 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1004785000636 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1004785000637 NAD binding site [chemical binding]; other site 1004785000638 homodimer interface [polypeptide binding]; other site 1004785000639 active site 1004785000640 substrate binding site [chemical binding]; other site 1004785000641 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1004785000642 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1004785000643 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1004785000644 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785000645 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 1004785000646 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 1004785000647 ligand-binding site [chemical binding]; other site 1004785000648 glycerol kinase; Provisional; Region: glpK; PRK00047 1004785000649 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1004785000650 N- and C-terminal domain interface [polypeptide binding]; other site 1004785000651 active site 1004785000652 MgATP binding site [chemical binding]; other site 1004785000653 catalytic site [active] 1004785000654 metal binding site [ion binding]; metal-binding site 1004785000655 glycerol binding site [chemical binding]; other site 1004785000656 homotetramer interface [polypeptide binding]; other site 1004785000657 homodimer interface [polypeptide binding]; other site 1004785000658 FBP binding site [chemical binding]; other site 1004785000659 protein IIAGlc interface [polypeptide binding]; other site 1004785000660 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1004785000661 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1004785000662 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1004785000663 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1004785000664 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 1004785000665 rod shape-determining protein MreB; Provisional; Region: PRK13927 1004785000666 MreB and similar proteins; Region: MreB_like; cd10225 1004785000667 nucleotide binding site [chemical binding]; other site 1004785000668 Mg binding site [ion binding]; other site 1004785000669 putative protofilament interaction site [polypeptide binding]; other site 1004785000670 RodZ interaction site [polypeptide binding]; other site 1004785000671 rod shape-determining protein MreC; Provisional; Region: PRK13922 1004785000672 rod shape-determining protein MreC; Region: MreC; pfam04085 1004785000673 rod shape-determining protein MreD; Region: MreD; cl01087 1004785000674 Maf-like protein; Region: Maf; pfam02545 1004785000675 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 1004785000676 active site 1004785000677 dimer interface [polypeptide binding]; other site 1004785000678 ribonuclease G; Provisional; Region: PRK11712 1004785000679 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 1004785000680 homodimer interface [polypeptide binding]; other site 1004785000681 oligonucleotide binding site [chemical binding]; other site 1004785000682 TIGR02099 family protein; Region: TIGR02099 1004785000683 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1004785000684 nitrilase; Region: PLN02798 1004785000685 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1004785000686 putative active site [active] 1004785000687 catalytic triad [active] 1004785000688 dimer interface [polypeptide binding]; other site 1004785000689 protease TldD; Provisional; Region: tldD; PRK10735 1004785000690 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1004785000691 peptidase PmbA; Provisional; Region: PRK11040 1004785000692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785000693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785000694 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1004785000695 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1004785000696 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1004785000697 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1004785000698 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1004785000699 two-component response regulator; Provisional; Region: PRK11173 1004785000700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000701 active site 1004785000702 phosphorylation site [posttranslational modification] 1004785000703 intermolecular recognition site; other site 1004785000704 dimerization interface [polypeptide binding]; other site 1004785000705 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 1004785000706 DNA binding site [nucleotide binding] 1004785000707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785000708 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 1004785000709 dimer interface [polypeptide binding]; other site 1004785000710 phosphorylation site [posttranslational modification] 1004785000711 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 1004785000712 ATP binding site [chemical binding]; other site 1004785000713 Mg2+ binding site [ion binding]; other site 1004785000714 G-X-G motif; other site 1004785000715 glycogen synthase; Provisional; Region: glgA; PRK00654 1004785000716 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 1004785000717 ADP-binding pocket [chemical binding]; other site 1004785000718 homodimer interface [polypeptide binding]; other site 1004785000719 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1004785000720 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1004785000721 Methyltransferase small domain; Region: MTS; pfam05175 1004785000722 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1004785000723 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004785000724 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1004785000725 adenine DNA glycosylase; Provisional; Region: PRK10880 1004785000726 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1004785000727 minor groove reading motif; other site 1004785000728 helix-hairpin-helix signature motif; other site 1004785000729 substrate binding pocket [chemical binding]; other site 1004785000730 active site 1004785000731 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1004785000732 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 1004785000733 DNA binding and oxoG recognition site [nucleotide binding] 1004785000734 oxidative damage protection protein; Provisional; Region: PRK05408 1004785000735 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1004785000736 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 1004785000737 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 1004785000738 active site 1004785000739 DNA binding site [nucleotide binding] 1004785000740 Int/Topo IB signature motif; other site 1004785000741 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1004785000742 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1004785000743 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1004785000744 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1004785000745 catalytic residues [active] 1004785000746 catalytic nucleophile [active] 1004785000747 Presynaptic Site I dimer interface [polypeptide binding]; other site 1004785000748 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1004785000749 Synaptic Flat tetramer interface [polypeptide binding]; other site 1004785000750 Synaptic Site I dimer interface [polypeptide binding]; other site 1004785000751 DNA binding site [nucleotide binding] 1004785000752 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1004785000753 DNA-binding interface [nucleotide binding]; DNA binding site 1004785000754 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 1004785000755 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 1004785000756 active site 1004785000757 DNA binding site [nucleotide binding] 1004785000758 Int/Topo IB signature motif; other site 1004785000759 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1004785000760 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1004785000761 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785000762 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785000763 Coenzyme A binding pocket [chemical binding]; other site 1004785000764 Protein of unknown function, DUF; Region: DUF411; cl01142 1004785000765 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1004785000766 active site 1004785000767 substrate binding site [chemical binding]; other site 1004785000768 cosubstrate binding site; other site 1004785000769 catalytic site [active] 1004785000770 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1004785000771 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 1004785000772 dimerization interface [polypeptide binding]; other site 1004785000773 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 1004785000774 dimer interface [polypeptide binding]; other site 1004785000775 phosphorylation site [posttranslational modification] 1004785000776 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 1004785000777 ATP binding site [chemical binding]; other site 1004785000778 Mg2+ binding site [ion binding]; other site 1004785000779 G-X-G motif; other site 1004785000780 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1004785000781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000782 active site 1004785000783 phosphorylation site [posttranslational modification] 1004785000784 intermolecular recognition site; other site 1004785000785 dimerization interface [polypeptide binding]; other site 1004785000786 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 1004785000787 DNA binding site [nucleotide binding] 1004785000788 Protein of unknown function, DUF; Region: DUF411; cl01142 1004785000789 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1004785000790 Outer membrane efflux protein; Region: OEP; pfam02321 1004785000791 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1004785000792 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1004785000793 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785000794 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1004785000795 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1004785000796 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1004785000797 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1004785000798 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004785000799 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 1004785000800 NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; Region: nqrF; TIGR01941 1004785000801 catalytic loop [active] 1004785000802 iron binding site [ion binding]; other site 1004785000803 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1004785000804 FAD binding pocket [chemical binding]; other site 1004785000805 conserved FAD binding motif [chemical binding]; other site 1004785000806 phosphate binding motif [ion binding]; other site 1004785000807 beta-alpha-beta structure motif; other site 1004785000808 NAD binding pocket [chemical binding]; other site 1004785000809 CopC domain; Region: CopC; pfam04234 1004785000810 Copper resistance protein D; Region: CopD; cl00563 1004785000811 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1004785000812 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004785000813 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004785000814 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1004785000815 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 1004785000816 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1004785000817 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1004785000818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785000819 active site 1004785000820 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1004785000821 FAD binding domain; Region: FAD_binding_4; pfam01565 1004785000822 Berberine and berberine like; Region: BBE; pfam08031 1004785000823 potential frameshift: common BLAST hit: gi|332308840|ref|YP_004436690.1| phosphate-selective porin O and P 1004785000824 Cytochrome c; Region: Cytochrom_C; cl11414 1004785000825 Cytochrome c; Region: Cytochrom_C; pfam00034 1004785000826 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1004785000827 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 1004785000828 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1004785000829 FAD binding pocket [chemical binding]; other site 1004785000830 FAD binding motif [chemical binding]; other site 1004785000831 phosphate binding motif [ion binding]; other site 1004785000832 beta-alpha-beta structure motif; other site 1004785000833 NAD binding pocket [chemical binding]; other site 1004785000834 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 1004785000835 catalytic loop [active] 1004785000836 iron binding site [ion binding]; other site 1004785000837 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 1004785000838 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 1004785000839 nickel binding site [ion binding]; other site 1004785000840 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1004785000841 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 1004785000842 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1004785000843 DNA binding residues [nucleotide binding] 1004785000844 dimer interface [polypeptide binding]; other site 1004785000845 copper exporting ATPase; Provisional; Region: copA; PRK10671 1004785000846 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 1004785000847 metal-binding site [ion binding] 1004785000848 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1004785000849 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1004785000850 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1004785000851 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1004785000852 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1004785000853 glutamate dehydrogenase; Provisional; Region: PRK09414 1004785000854 Integrase core domain; Region: rve; pfam00665 1004785000855 High-affinity nickel-transport protein; Region: NicO; cl00964 1004785000856 Outer membrane efflux protein; Region: OEP; pfam02321 1004785000857 Outer membrane efflux protein; Region: OEP; pfam02321 1004785000858 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1004785000859 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1004785000860 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785000861 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1004785000862 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1004785000863 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1004785000864 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1004785000865 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1004785000866 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1004785000867 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1004785000868 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1004785000869 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1004785000870 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1004785000871 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1004785000872 Domain of unknown function (DUF305); Region: DUF305; cl17794 1004785000873 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1004785000874 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1004785000875 active site 1004785000876 catalytic residues [active] 1004785000877 DNA binding site [nucleotide binding] 1004785000878 Int/Topo IB signature motif; other site 1004785000879 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1004785000880 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785000881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785000882 Coenzyme A binding pocket [chemical binding]; other site 1004785000883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000884 dimer interface [polypeptide binding]; other site 1004785000885 putative CheW interface [polypeptide binding]; other site 1004785000886 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785000887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000888 active site 1004785000889 phosphorylation site [posttranslational modification] 1004785000890 intermolecular recognition site; other site 1004785000891 dimerization interface [polypeptide binding]; other site 1004785000892 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 1004785000893 putative binding surface; other site 1004785000894 active site 1004785000895 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1004785000896 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004785000897 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 1004785000898 ATP binding site [chemical binding]; other site 1004785000899 Mg2+ binding site [ion binding]; other site 1004785000900 G-X-G motif; other site 1004785000901 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 1004785000902 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 1004785000903 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 1004785000904 PAS domain; Region: PAS_9; pfam13426 1004785000905 putative active site [active] 1004785000906 heme pocket [chemical binding]; other site 1004785000907 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 1004785000908 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000909 putative active site [active] 1004785000910 heme pocket [chemical binding]; other site 1004785000911 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 1004785000912 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000913 putative active site [active] 1004785000914 heme pocket [chemical binding]; other site 1004785000915 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 1004785000916 putative active site [active] 1004785000917 heme pocket [chemical binding]; other site 1004785000918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000919 putative CheW interface [polypeptide binding]; other site 1004785000920 dimer interface [polypeptide binding]; other site 1004785000921 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785000922 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000923 dimer interface [polypeptide binding]; other site 1004785000924 putative CheW interface [polypeptide binding]; other site 1004785000925 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004785000926 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1004785000927 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004785000928 CheD chemotactic sensory transduction; Region: CheD; cl00810 1004785000929 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004785000930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000931 active site 1004785000932 phosphorylation site [posttranslational modification] 1004785000933 intermolecular recognition site; other site 1004785000934 dimerization interface [polypeptide binding]; other site 1004785000935 CheB methylesterase; Region: CheB_methylest; pfam01339 1004785000936 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1004785000937 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785000938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000939 active site 1004785000940 phosphorylation site [posttranslational modification] 1004785000941 intermolecular recognition site; other site 1004785000942 dimerization interface [polypeptide binding]; other site 1004785000943 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 1004785000944 putative binding surface; other site 1004785000945 active site 1004785000946 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1004785000947 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004785000948 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1004785000949 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 1004785000950 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 1004785000951 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000952 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000953 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 1004785000954 putative active site [active] 1004785000955 heme pocket [chemical binding]; other site 1004785000956 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 1004785000957 putative active site [active] 1004785000958 heme pocket [chemical binding]; other site 1004785000959 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1004785000960 dimerization interface [polypeptide binding]; other site 1004785000961 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 1004785000962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000964 dimer interface [polypeptide binding]; other site 1004785000965 putative CheW interface [polypeptide binding]; other site 1004785000966 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 1004785000967 PAS domain; Region: PAS_9; pfam13426 1004785000968 putative active site [active] 1004785000969 heme pocket [chemical binding]; other site 1004785000970 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000971 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 1004785000972 putative active site [active] 1004785000973 heme pocket [chemical binding]; other site 1004785000974 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 1004785000975 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785000976 putative active site [active] 1004785000977 heme pocket [chemical binding]; other site 1004785000978 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 1004785000979 putative active site [active] 1004785000980 heme pocket [chemical binding]; other site 1004785000981 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 1004785000982 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000983 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785000984 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785000985 dimer interface [polypeptide binding]; other site 1004785000986 putative CheW interface [polypeptide binding]; other site 1004785000987 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1004785000988 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004785000989 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004785000990 CheD chemotactic sensory transduction; Region: CheD; cl00810 1004785000991 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004785000992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785000993 active site 1004785000994 phosphorylation site [posttranslational modification] 1004785000995 intermolecular recognition site; other site 1004785000996 dimerization interface [polypeptide binding]; other site 1004785000997 CheB methylesterase; Region: CheB_methylest; pfam01339 1004785000998 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1004785000999 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1004785001000 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 1004785001001 motif II; other site 1004785001002 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785001003 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 1004785001004 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 1004785001005 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785001006 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785001007 DNA binding site [nucleotide binding] 1004785001008 domain linker motif; other site 1004785001009 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 1004785001010 putative dimerization interface [polypeptide binding]; other site 1004785001011 putative ligand binding site [chemical binding]; other site 1004785001012 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004785001013 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 1004785001014 putative substrate translocation pore; other site 1004785001015 Trehalase; Region: Trehalase; cl17346 1004785001016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785001017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785001018 metal binding site [ion binding]; metal-binding site 1004785001019 active site 1004785001020 I-site; other site 1004785001021 EamA-like transporter family; Region: EamA; pfam00892 1004785001022 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 1004785001023 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 1004785001024 active site 1004785001025 motif I; other site 1004785001026 motif II; other site 1004785001027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785001028 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 1004785001029 dimer interface [polypeptide binding]; other site 1004785001030 phosphorylation site [posttranslational modification] 1004785001031 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 1004785001032 ATP binding site [chemical binding]; other site 1004785001033 Mg2+ binding site [ion binding]; other site 1004785001034 G-X-G motif; other site 1004785001035 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785001036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001037 active site 1004785001038 phosphorylation site [posttranslational modification] 1004785001039 intermolecular recognition site; other site 1004785001040 dimerization interface [polypeptide binding]; other site 1004785001041 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004785001042 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1004785001043 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1004785001044 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785001045 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785001046 DNA binding site [nucleotide binding] 1004785001047 domain linker motif; other site 1004785001048 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1004785001049 dimerization interface [polypeptide binding]; other site 1004785001050 ligand binding site [chemical binding]; other site 1004785001051 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004785001052 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004785001053 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004785001054 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1004785001055 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1004785001056 Metal-binding active site; metal-binding site 1004785001057 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1004785001058 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1004785001059 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 1004785001060 putative substrate translocation pore; other site 1004785001061 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1004785001062 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1004785001063 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004785001064 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004785001065 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1004785001066 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1004785001067 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1004785001068 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1004785001069 active site 1004785001070 NAD binding site [chemical binding]; other site 1004785001071 metal binding site [ion binding]; metal-binding site 1004785001072 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1004785001073 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 1004785001074 homodimer interface [polypeptide binding]; other site 1004785001075 substrate-cofactor binding pocket; other site 1004785001076 catalytic residue [active] 1004785001077 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 1004785001078 catalytic core [active] 1004785001079 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 1004785001080 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 1004785001081 aconitate hydratase; Validated; Region: PRK09277 1004785001082 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1004785001083 substrate binding site [chemical binding]; other site 1004785001084 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1004785001085 ligand binding site [chemical binding]; other site 1004785001086 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 1004785001087 substrate binding site [chemical binding]; other site 1004785001088 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785001089 GAF domain; Region: GAF_2; pfam13185 1004785001090 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1004785001091 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1004785001092 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 1004785001093 Walker A motif; other site 1004785001094 ATP binding site [chemical binding]; other site 1004785001095 Walker B motif; other site 1004785001096 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1004785001097 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1004785001098 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1004785001099 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1004785001100 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1004785001101 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1004785001102 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1004785001103 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1004785001104 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 1004785001105 putative translocon binding site; other site 1004785001106 protein-rRNA interface [nucleotide binding]; other site 1004785001107 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1004785001108 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 1004785001109 G-X-X-G motif; other site 1004785001110 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1004785001111 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 1004785001112 23S rRNA interface [nucleotide binding]; other site 1004785001113 5S rRNA interface [nucleotide binding]; other site 1004785001114 putative antibiotic binding site [chemical binding]; other site 1004785001115 L25 interface [polypeptide binding]; other site 1004785001116 L27 interface [polypeptide binding]; other site 1004785001117 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 1004785001118 23S rRNA interface [nucleotide binding]; other site 1004785001119 putative translocon interaction site; other site 1004785001120 signal recognition particle (SRP54) interaction site; other site 1004785001121 L23 interface [polypeptide binding]; other site 1004785001122 trigger factor interaction site; other site 1004785001123 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1004785001124 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785001125 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1004785001126 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1004785001127 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1004785001128 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 1004785001129 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1004785001130 TrkA-N domain; Region: TrkA_N; pfam02254 1004785001131 Cache domain; Region: Cache_1; pfam02743 1004785001132 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 1004785001133 dimerization interface [polypeptide binding]; other site 1004785001134 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785001135 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785001136 dimer interface [polypeptide binding]; other site 1004785001137 putative CheW interface [polypeptide binding]; other site 1004785001138 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1004785001139 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1004785001140 active site 1004785001141 Zn binding site [ion binding]; other site 1004785001142 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004785001143 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1004785001144 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1004785001145 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1004785001146 putative active site [active] 1004785001147 putative substrate binding site [chemical binding]; other site 1004785001148 putative cosubstrate binding site; other site 1004785001149 catalytic site [active] 1004785001150 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1004785001151 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1004785001152 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1004785001153 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 1004785001154 ATP binding site [chemical binding]; other site 1004785001155 putative Mg++ binding site [ion binding]; other site 1004785001156 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 1004785001157 nucleotide binding region [chemical binding]; other site 1004785001158 ATP-binding site [chemical binding]; other site 1004785001159 Helicase associated domain (HA2); Region: HA2; cl04503 1004785001160 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1004785001161 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1004785001162 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 1004785001163 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785001164 catalytic residue [active] 1004785001165 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1004785001166 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1004785001167 Transglycosylase; Region: Transgly; pfam00912 1004785001168 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1004785001169 putative chaperone protein EcpD; Provisional; Region: PRK09926 1004785001170 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1004785001171 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1004785001172 Endonuclease I; Region: Endonuclease_1; pfam04231 1004785001173 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004785001174 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1004785001175 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1004785001176 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1004785001177 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004785001178 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004785001179 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1004785001180 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1004785001181 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 1004785001182 inhibitor-cofactor binding pocket; inhibition site 1004785001183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785001184 catalytic residue [active] 1004785001185 aspartate carbamoyltransferase; Provisional; Region: PRK08192 1004785001186 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1004785001187 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1004785001188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785001189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785001190 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1004785001191 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785001192 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785001193 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785001194 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785001195 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 1004785001196 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004785001197 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785001198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785001199 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 1004785001200 dimer interface [polypeptide binding]; other site 1004785001201 phosphorylation site [posttranslational modification] 1004785001202 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 1004785001203 ATP binding site [chemical binding]; other site 1004785001204 Mg2+ binding site [ion binding]; other site 1004785001205 G-X-G motif; other site 1004785001206 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785001207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001208 active site 1004785001209 phosphorylation site [posttranslational modification] 1004785001210 intermolecular recognition site; other site 1004785001211 dimerization interface [polypeptide binding]; other site 1004785001212 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 1004785001213 putative binding surface; other site 1004785001214 active site 1004785001215 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1004785001216 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 1004785001217 CAP-like domain; other site 1004785001218 active site 1004785001219 primary dimer interface [polypeptide binding]; other site 1004785001220 Heme NO binding; Region: HNOB; pfam07700 1004785001221 PAS fold; Region: PAS_3; pfam08447 1004785001222 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 1004785001223 PAS domain; Region: PAS_9; pfam13426 1004785001224 putative active site [active] 1004785001225 heme pocket [chemical binding]; other site 1004785001226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785001227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785001228 metal binding site [ion binding]; metal-binding site 1004785001229 active site 1004785001230 I-site; other site 1004785001231 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 1004785001232 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1004785001233 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1004785001234 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1004785001235 NAD(P) binding site [chemical binding]; other site 1004785001236 catalytic residues [active] 1004785001237 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1004785001238 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1004785001239 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1004785001240 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 1004785001241 inhibitor-cofactor binding pocket; inhibition site 1004785001242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785001243 catalytic residue [active] 1004785001244 HDOD domain; Region: HDOD; pfam08668 1004785001245 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1004785001246 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1004785001247 glutamine binding [chemical binding]; other site 1004785001248 catalytic triad [active] 1004785001249 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1004785001250 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1004785001251 active site 1004785001252 HIGH motif; other site 1004785001253 dimer interface [polypeptide binding]; other site 1004785001254 KMSKS motif; other site 1004785001255 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 1004785001256 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1004785001257 substrate binding site [chemical binding]; other site 1004785001258 hexamer interface [polypeptide binding]; other site 1004785001259 metal binding site [ion binding]; metal-binding site 1004785001260 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1004785001261 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1004785001262 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1004785001263 AAA domain; Region: AAA_22; pfam13401 1004785001264 OPT oligopeptide transporter protein; Region: OPT; cl14607 1004785001265 Sporulation related domain; Region: SPOR; cl10051 1004785001266 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1004785001267 active site 1004785001268 dimer interface [polypeptide binding]; other site 1004785001269 metal binding site [ion binding]; metal-binding site 1004785001270 shikimate kinase; Reviewed; Region: aroK; PRK00131 1004785001271 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 1004785001272 ADP binding site [chemical binding]; other site 1004785001273 magnesium binding site [ion binding]; other site 1004785001274 putative shikimate binding site; other site 1004785001275 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1004785001276 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004785001277 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004785001278 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1004785001279 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1004785001280 Pilus assembly protein, PilP; Region: PilP; pfam04351 1004785001281 Pilus assembly protein, PilO; Region: PilO; pfam04350 1004785001282 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1004785001283 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1004785001284 Competence protein A; Region: Competence_A; pfam11104 1004785001285 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1004785001286 Transglycosylase; Region: Transgly; pfam00912 1004785001287 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1004785001288 malate dehydrogenase; Provisional; Region: PRK13529 1004785001289 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1004785001290 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1004785001291 NAD(P) binding site [chemical binding]; other site 1004785001292 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1004785001293 putative S-transferase; Provisional; Region: PRK11752 1004785001294 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 1004785001295 C-terminal domain interface [polypeptide binding]; other site 1004785001296 GSH binding site (G-site) [chemical binding]; other site 1004785001297 dimer interface [polypeptide binding]; other site 1004785001298 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1004785001299 dimer interface [polypeptide binding]; other site 1004785001300 N-terminal domain interface [polypeptide binding]; other site 1004785001301 active site 1004785001302 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1004785001303 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1004785001304 tetramer interface [polypeptide binding]; other site 1004785001305 heme binding pocket [chemical binding]; other site 1004785001306 NADPH binding site [chemical binding]; other site 1004785001307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785001308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785001309 WHG domain; Region: WHG; pfam13305 1004785001310 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1004785001311 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004785001312 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785001313 PAS domain; Region: PAS; smart00091 1004785001314 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 1004785001315 N-acetylglutamate synthase; Validated; Region: PRK05279 1004785001316 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 1004785001317 putative feedback inhibition sensing region; other site 1004785001318 putative nucleotide binding site [chemical binding]; other site 1004785001319 putative substrate binding site [chemical binding]; other site 1004785001320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785001321 Coenzyme A binding pocket [chemical binding]; other site 1004785001322 argininosuccinate lyase; Provisional; Region: PRK04833 1004785001323 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1004785001324 active sites [active] 1004785001325 tetramer interface [polypeptide binding]; other site 1004785001326 argininosuccinate synthase; Provisional; Region: PRK13820 1004785001327 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 1004785001328 ANP binding site [chemical binding]; other site 1004785001329 Substrate Binding Site II [chemical binding]; other site 1004785001330 Substrate Binding Site I [chemical binding]; other site 1004785001331 ornithine carbamoyltransferase; Provisional; Region: PRK14805 1004785001332 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1004785001333 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1004785001334 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 1004785001335 nucleotide binding site [chemical binding]; other site 1004785001336 substrate binding site [chemical binding]; other site 1004785001337 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1004785001338 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004785001339 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 1004785001340 active site 1004785001341 dimer interfaces [polypeptide binding]; other site 1004785001342 catalytic residues [active] 1004785001343 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1004785001344 dimer interface [polypeptide binding]; other site 1004785001345 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1004785001346 dimer interface [polypeptide binding]; other site 1004785001347 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785001348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001349 active site 1004785001350 phosphorylation site [posttranslational modification] 1004785001351 intermolecular recognition site; other site 1004785001352 dimerization interface [polypeptide binding]; other site 1004785001353 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 1004785001354 DNA binding site [nucleotide binding] 1004785001355 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 1004785001356 dimerization interface [polypeptide binding]; other site 1004785001357 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 1004785001358 dimer interface [polypeptide binding]; other site 1004785001359 phosphorylation site [posttranslational modification] 1004785001360 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 1004785001361 ATP binding site [chemical binding]; other site 1004785001362 Mg2+ binding site [ion binding]; other site 1004785001363 G-X-G motif; other site 1004785001364 lysophospholipase L2; Provisional; Region: PRK10749 1004785001365 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004785001366 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004785001367 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1004785001368 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785001369 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785001370 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1004785001371 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004785001372 Walker A/P-loop; other site 1004785001373 ATP binding site [chemical binding]; other site 1004785001374 Q-loop/lid; other site 1004785001375 ABC transporter signature motif; other site 1004785001376 Walker B; other site 1004785001377 D-loop; other site 1004785001378 H-loop/switch region; other site 1004785001379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004785001380 FtsX-like permease family; Region: FtsX; pfam02687 1004785001381 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1004785001382 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1004785001383 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1004785001384 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1004785001385 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 1004785001386 SecA binding site; other site 1004785001387 Preprotein binding site; other site 1004785001388 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 1004785001389 GSH binding site [chemical binding]; other site 1004785001390 catalytic residues [active] 1004785001391 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 1004785001392 active site residue [active] 1004785001393 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1004785001394 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785001395 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1004785001396 NodB motif; other site 1004785001397 putative active site [active] 1004785001398 putative catalytic site [active] 1004785001399 Zn binding site [ion binding]; other site 1004785001400 MerC mercury resistance protein; Region: MerC; pfam03203 1004785001401 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1004785001402 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1004785001403 active site 1004785001404 catalytic site [active] 1004785001405 metal binding site [ion binding]; metal-binding site 1004785001406 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004785001407 EamA-like transporter family; Region: EamA; cl17759 1004785001408 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1004785001409 GTPase RsgA; Reviewed; Region: PRK12288 1004785001410 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 1004785001411 RNA binding site [nucleotide binding]; other site 1004785001412 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1004785001413 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1004785001414 GTP/Mg2+ binding site [chemical binding]; other site 1004785001415 G4 box; other site 1004785001416 G5 box; other site 1004785001417 G1 box; other site 1004785001418 Switch I region; other site 1004785001419 G2 box; other site 1004785001420 G3 box; other site 1004785001421 Switch II region; other site 1004785001422 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1004785001423 catalytic site [active] 1004785001424 putative active site [active] 1004785001425 putative substrate binding site [chemical binding]; other site 1004785001426 dimer interface [polypeptide binding]; other site 1004785001427 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785001428 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 1004785001429 Homeodomain-like domain; Region: HTH_23; cl17451 1004785001430 HTH-like domain; Region: HTH_21; pfam13276 1004785001431 Integrase core domain; Region: rve; pfam00665 1004785001432 Integrase core domain; Region: rve_2; pfam13333 1004785001433 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 1004785001434 TPR motif; other site 1004785001435 binding surface 1004785001436 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785001437 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 1004785001438 binding surface 1004785001439 TPR motif; other site 1004785001440 TPR repeat; Region: TPR_11; pfam13414 1004785001441 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 1004785001442 binding surface 1004785001443 TPR motif; other site 1004785001444 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004785001445 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 1004785001446 CoenzymeA binding site [chemical binding]; other site 1004785001447 subunit interaction site [polypeptide binding]; other site 1004785001448 PHB binding site; other site 1004785001449 hypothetical protein; Provisional; Region: PRK11027 1004785001450 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1004785001451 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1004785001452 PYR/PP interface [polypeptide binding]; other site 1004785001453 dimer interface [polypeptide binding]; other site 1004785001454 TPP binding site [chemical binding]; other site 1004785001455 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1004785001456 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 1004785001457 TPP-binding site [chemical binding]; other site 1004785001458 dimer interface [polypeptide binding]; other site 1004785001459 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1004785001460 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1004785001461 putative valine binding site [chemical binding]; other site 1004785001462 dimer interface [polypeptide binding]; other site 1004785001463 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1004785001464 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 1004785001465 sec-independent translocase; Provisional; Region: PRK01770 1004785001466 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1004785001467 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004785001468 active site 1004785001469 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004785001470 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785001471 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785001472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785001473 metal binding site [ion binding]; metal-binding site 1004785001474 active site 1004785001475 I-site; other site 1004785001476 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 1004785001477 dimer interface [polypeptide binding]; other site 1004785001478 allosteric magnesium binding site [ion binding]; other site 1004785001479 active site 1004785001480 aspartate-rich active site metal binding site; other site 1004785001481 Schiff base residues; other site 1004785001482 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1004785001483 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1004785001484 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1004785001485 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 1004785001486 ATP binding site [chemical binding]; other site 1004785001487 Mg++ binding site [ion binding]; other site 1004785001488 motif III; other site 1004785001489 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 1004785001490 nucleotide binding region [chemical binding]; other site 1004785001491 ATP-binding site [chemical binding]; other site 1004785001492 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 1004785001493 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785001494 catalytic residues [active] 1004785001495 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1004785001496 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1004785001497 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 1004785001498 RNA binding site [nucleotide binding]; other site 1004785001499 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 1004785001500 multimer interface [polypeptide binding]; other site 1004785001501 Walker A motif; other site 1004785001502 ATP binding site [chemical binding]; other site 1004785001503 Walker B motif; other site 1004785001504 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1004785001505 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1004785001506 metal binding site [ion binding]; metal-binding site 1004785001507 putative dimer interface [polypeptide binding]; other site 1004785001508 Cache domain; Region: Cache_1; pfam02743 1004785001509 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 1004785001510 dimer interface [polypeptide binding]; other site 1004785001511 phosphorylation site [posttranslational modification] 1004785001512 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 1004785001513 ATP binding site [chemical binding]; other site 1004785001514 Mg2+ binding site [ion binding]; other site 1004785001515 G-X-G motif; other site 1004785001516 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785001517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001518 active site 1004785001519 phosphorylation site [posttranslational modification] 1004785001520 intermolecular recognition site; other site 1004785001521 dimerization interface [polypeptide binding]; other site 1004785001522 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1004785001523 AIR carboxylase; Region: AIRC; pfam00731 1004785001524 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1004785001525 ATP-grasp domain; Region: ATP-grasp; pfam02222 1004785001526 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1004785001527 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1004785001528 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1004785001529 dimerization interface [polypeptide binding]; other site 1004785001530 DPS ferroxidase diiron center [ion binding]; other site 1004785001531 ion pore; other site 1004785001532 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004785001533 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004785001534 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004785001535 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785001536 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785001537 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1004785001538 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1004785001539 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 1004785001540 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 1004785001541 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1004785001542 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1004785001543 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 1004785001544 GDP-binding site [chemical binding]; other site 1004785001545 ACT binding site; other site 1004785001546 IMP binding site; other site 1004785001547 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1004785001548 NAD(P) binding site [chemical binding]; other site 1004785001549 catalytic residues [active] 1004785001550 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 1004785001551 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785001552 putative metal binding site [ion binding]; other site 1004785001553 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1004785001554 LabA_like proteins; Region: LabA; cd10911 1004785001555 putative metal binding site [ion binding]; other site 1004785001556 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004785001557 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004785001558 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1004785001559 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1004785001560 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004785001561 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785001562 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785001563 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1004785001564 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1004785001565 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 1004785001566 putative active site [active] 1004785001567 alanine racemase; Reviewed; Region: alr; PRK00053 1004785001568 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1004785001569 active site 1004785001570 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004785001571 substrate binding site [chemical binding]; other site 1004785001572 catalytic residues [active] 1004785001573 dimer interface [polypeptide binding]; other site 1004785001574 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1004785001575 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1004785001576 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1004785001577 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1004785001578 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785001579 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1004785001580 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 1004785001581 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785001582 substrate binding pocket [chemical binding]; other site 1004785001583 membrane-bound complex binding site; other site 1004785001584 hinge residues; other site 1004785001585 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1004785001586 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1004785001587 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 1004785001588 dimer interface [polypeptide binding]; other site 1004785001589 active site 1004785001590 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1004785001591 folate binding site [chemical binding]; other site 1004785001592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785001593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785001594 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 1004785001595 dimerization interface [polypeptide binding]; other site 1004785001596 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1004785001597 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1004785001598 PhnA protein; Region: PhnA; pfam03831 1004785001599 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1004785001600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785001601 Coenzyme A binding pocket [chemical binding]; other site 1004785001602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1004785001603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785001604 Coenzyme A binding pocket [chemical binding]; other site 1004785001605 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785001606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785001607 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785001608 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785001609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785001610 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785001611 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1004785001612 integron integrase; Region: integrase_gron; TIGR02249 1004785001613 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1004785001614 Int/Topo IB signature motif; other site 1004785001615 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1004785001616 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 1004785001617 dimer interface [polypeptide binding]; other site 1004785001618 active site 1004785001619 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1004785001620 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 1004785001621 substrate binding site [chemical binding]; other site 1004785001622 oxyanion hole (OAH) forming residues; other site 1004785001623 trimer interface [polypeptide binding]; other site 1004785001624 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004785001625 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004785001626 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004785001627 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004785001628 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 1004785001629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785001630 catalytic residue [active] 1004785001631 proline dipeptidase; Provisional; Region: PRK13607 1004785001632 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 1004785001633 active site 1004785001634 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1004785001635 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1004785001636 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1004785001637 substrate binding pocket [chemical binding]; other site 1004785001638 chain length determination region; other site 1004785001639 substrate-Mg2+ binding site; other site 1004785001640 catalytic residues [active] 1004785001641 aspartate-rich region 1; other site 1004785001642 active site lid residues [active] 1004785001643 aspartate-rich region 2; other site 1004785001644 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1004785001645 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1004785001646 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1004785001647 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1004785001648 GTP1/OBG; Region: GTP1_OBG; pfam01018 1004785001649 Obg GTPase; Region: Obg; cd01898 1004785001650 G1 box; other site 1004785001651 GTP/Mg2+ binding site [chemical binding]; other site 1004785001652 Switch I region; other site 1004785001653 G2 box; other site 1004785001654 G3 box; other site 1004785001655 Switch II region; other site 1004785001656 G4 box; other site 1004785001657 G5 box; other site 1004785001658 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1004785001659 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 1004785001660 folate binding site [chemical binding]; other site 1004785001661 NADP+ binding site [chemical binding]; other site 1004785001662 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1004785001663 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1004785001664 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785001665 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1004785001666 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 1004785001667 DNA binding residues [nucleotide binding] 1004785001668 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1004785001669 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785001670 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785001671 Predicted membrane protein [Function unknown]; Region: COG1238 1004785001672 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1004785001673 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 1004785001674 S-adenosylmethionine binding site [chemical binding]; other site 1004785001675 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1004785001676 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1004785001677 Permutation of conserved domain; other site 1004785001678 active site 1004785001679 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1004785001680 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 1004785001681 homotrimer interaction site [polypeptide binding]; other site 1004785001682 zinc binding site [ion binding]; other site 1004785001683 CDP-binding sites; other site 1004785001684 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1004785001685 substrate binding site; other site 1004785001686 dimer interface; other site 1004785001687 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1004785001688 Septum formation initiator; Region: DivIC; cl17659 1004785001689 TIGR03545 family protein; Region: TIGR03545 1004785001690 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1004785001691 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 1004785001692 dimerization interface [polypeptide binding]; other site 1004785001693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785001694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785001695 dimer interface [polypeptide binding]; other site 1004785001696 putative CheW interface [polypeptide binding]; other site 1004785001697 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1004785001698 Proline dehydrogenase; Region: Pro_dh; pfam01619 1004785001699 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1004785001700 Glutamate binding site [chemical binding]; other site 1004785001701 NAD binding site [chemical binding]; other site 1004785001702 catalytic residues [active] 1004785001703 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1004785001704 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1004785001705 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1004785001706 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1004785001707 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1004785001708 putative active site [active] 1004785001709 putative metal binding residues [ion binding]; other site 1004785001710 signature motif; other site 1004785001711 putative triphosphate binding site [ion binding]; other site 1004785001712 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004785001713 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 1004785001714 putative DNA-binding cleft [nucleotide binding]; other site 1004785001715 putative DNA clevage site; other site 1004785001716 molecular lever; other site 1004785001717 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 1004785001718 putative active site [active] 1004785001719 Ap4A binding site [chemical binding]; other site 1004785001720 nudix motif; other site 1004785001721 putative metal binding site [ion binding]; other site 1004785001722 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1004785001723 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785001724 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1004785001725 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1004785001726 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1004785001727 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004785001728 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1004785001729 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1004785001730 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 1004785001731 dimerization interface [polypeptide binding]; other site 1004785001732 active site 1004785001733 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785001734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001735 active site 1004785001736 phosphorylation site [posttranslational modification] 1004785001737 intermolecular recognition site; other site 1004785001738 dimerization interface [polypeptide binding]; other site 1004785001739 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1004785001740 PAS domain; Region: PAS_9; pfam13426 1004785001741 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785001742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785001743 metal binding site [ion binding]; metal-binding site 1004785001744 active site 1004785001745 I-site; other site 1004785001746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785001747 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 1004785001748 dimer interface [polypeptide binding]; other site 1004785001749 phosphorylation site [posttranslational modification] 1004785001750 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 1004785001751 ATP binding site [chemical binding]; other site 1004785001752 Mg2+ binding site [ion binding]; other site 1004785001753 G-X-G motif; other site 1004785001754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001755 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785001756 active site 1004785001757 phosphorylation site [posttranslational modification] 1004785001758 intermolecular recognition site; other site 1004785001759 dimerization interface [polypeptide binding]; other site 1004785001760 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785001761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785001762 active site 1004785001763 phosphorylation site [posttranslational modification] 1004785001764 intermolecular recognition site; other site 1004785001765 dimerization interface [polypeptide binding]; other site 1004785001766 muropeptide transporter; Validated; Region: ampG; cl17669 1004785001767 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1004785001768 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1004785001769 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004785001770 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004785001771 active site 1004785001772 ATP-dependent helicase HepA; Validated; Region: PRK04914 1004785001773 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 1004785001774 ATP binding site [chemical binding]; other site 1004785001775 putative Mg++ binding site [ion binding]; other site 1004785001776 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 1004785001777 nucleotide binding region [chemical binding]; other site 1004785001778 ATP-binding site [chemical binding]; other site 1004785001779 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1004785001780 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 1004785001781 non-specific DNA binding site [nucleotide binding]; other site 1004785001782 salt bridge; other site 1004785001783 sequence-specific DNA binding site [nucleotide binding]; other site 1004785001784 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1004785001785 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004785001786 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1004785001787 Zn binding site [ion binding]; other site 1004785001788 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785001789 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1004785001790 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1004785001791 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1004785001792 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1004785001793 putative active site [active] 1004785001794 PhoH-like protein; Region: PhoH; pfam02562 1004785001795 siroheme synthase; Provisional; Region: cysG; PRK10637 1004785001796 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1004785001797 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1004785001798 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1004785001799 active site 1004785001800 SAM binding site [chemical binding]; other site 1004785001801 homodimer interface [polypeptide binding]; other site 1004785001802 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1004785001803 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 1004785001804 ATP binding site [chemical binding]; other site 1004785001805 Mg++ binding site [ion binding]; other site 1004785001806 motif III; other site 1004785001807 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 1004785001808 nucleotide binding region [chemical binding]; other site 1004785001809 ATP-binding site [chemical binding]; other site 1004785001810 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1004785001811 putative RNA binding site [nucleotide binding]; other site 1004785001812 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1004785001813 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 1004785001814 TPR motif; other site 1004785001815 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 1004785001816 binding surface 1004785001817 TPR motif; other site 1004785001818 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 1004785001819 TPR motif; other site 1004785001820 binding surface 1004785001821 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 1004785001822 TPR motif; other site 1004785001823 binding surface 1004785001824 Ion transport protein; Region: Ion_trans; pfam00520 1004785001825 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1004785001826 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1004785001827 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 1004785001828 dimer interface [polypeptide binding]; other site 1004785001829 ADP-ribose binding site [chemical binding]; other site 1004785001830 active site 1004785001831 nudix motif; other site 1004785001832 metal binding site [ion binding]; metal-binding site 1004785001833 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1004785001834 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1004785001835 active site 1004785001836 metal binding site [ion binding]; metal-binding site 1004785001837 hexamer interface [polypeptide binding]; other site 1004785001838 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1004785001839 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1004785001840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785001841 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1004785001842 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 1004785001843 ATP binding site [chemical binding]; other site 1004785001844 Mg2+ binding site [ion binding]; other site 1004785001845 G-X-G motif; other site 1004785001846 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 1004785001847 anchoring element; other site 1004785001848 dimer interface [polypeptide binding]; other site 1004785001849 ATP binding site [chemical binding]; other site 1004785001850 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 1004785001851 active site 1004785001852 metal binding site [ion binding]; metal-binding site 1004785001853 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1004785001854 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1004785001855 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 1004785001856 motif II; other site 1004785001857 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 1004785001858 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1004785001859 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 1004785001860 FeS/SAM binding site; other site 1004785001861 elongation factor P; Validated; Region: PRK00529 1004785001862 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1004785001863 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 1004785001864 RNA binding site [nucleotide binding]; other site 1004785001865 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 1004785001866 RNA binding site [nucleotide binding]; other site 1004785001867 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 1004785001868 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1004785001869 motif 1; other site 1004785001870 dimer interface [polypeptide binding]; other site 1004785001871 active site 1004785001872 motif 2; other site 1004785001873 motif 3; other site 1004785001874 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004785001875 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785001876 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785001877 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 1004785001878 Homeodomain-like domain; Region: HTH_23; cl17451 1004785001879 HTH-like domain; Region: HTH_21; pfam13276 1004785001880 Integrase core domain; Region: rve; pfam00665 1004785001881 Integrase core domain; Region: rve_2; pfam13333 1004785001882 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004785001883 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004785001884 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1004785001885 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 1004785001886 active site 1004785001887 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1004785001888 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 1004785001889 S-adenosylmethionine binding site [chemical binding]; other site 1004785001890 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1004785001891 BolA-like protein; Region: BolA; cl00386 1004785001892 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1004785001893 Nitrate and nitrite sensing; Region: NIT; pfam08376 1004785001894 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1004785001895 ANTAR domain; Region: ANTAR; pfam03861 1004785001896 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1004785001897 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1004785001898 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 1004785001899 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1004785001900 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785001901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785001902 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1004785001903 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1004785001904 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004785001905 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1004785001906 potential frameshift: common BLAST hit: gi|332140149|ref|YP_004425887.1| nitrate reductase 1004785001907 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1004785001908 active site 1004785001909 SAM binding site [chemical binding]; other site 1004785001910 homodimer interface [polypeptide binding]; other site 1004785001911 hypothetical protein; Validated; Region: PRK09071 1004785001912 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1004785001913 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1004785001914 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1004785001915 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785001916 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785001917 metal binding site [ion binding]; metal-binding site 1004785001918 active site 1004785001919 I-site; other site 1004785001920 PAS domain; Region: PAS_9; pfam13426 1004785001921 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 1004785001922 putative active site [active] 1004785001923 heme pocket [chemical binding]; other site 1004785001924 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 1004785001925 PAS domain; Region: PAS_9; pfam13426 1004785001926 putative active site [active] 1004785001927 heme pocket [chemical binding]; other site 1004785001928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785001929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785001930 dimer interface [polypeptide binding]; other site 1004785001931 putative CheW interface [polypeptide binding]; other site 1004785001932 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1004785001933 NMT1-like family; Region: NMT1_2; pfam13379 1004785001934 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1004785001935 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 1004785001936 dimer interface [polypeptide binding]; other site 1004785001937 conserved gate region; other site 1004785001938 putative PBP binding loops; other site 1004785001939 ABC-ATPase subunit interface; other site 1004785001940 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1004785001941 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1004785001942 Walker A/P-loop; other site 1004785001943 ATP binding site [chemical binding]; other site 1004785001944 Q-loop/lid; other site 1004785001945 ABC transporter signature motif; other site 1004785001946 Walker B; other site 1004785001947 D-loop; other site 1004785001948 H-loop/switch region; other site 1004785001949 HD domain; Region: HD_3; pfam13023 1004785001950 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 1004785001951 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1004785001952 catalytic residues [active] 1004785001953 hinge region; other site 1004785001954 alpha helical domain; other site 1004785001955 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1004785001956 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 1004785001957 N-terminal plug; other site 1004785001958 ligand-binding site [chemical binding]; other site 1004785001959 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1004785001960 serine/threonine protein kinase; Provisional; Region: PRK11768 1004785001961 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1004785001962 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1004785001963 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 1004785001964 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1004785001965 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1004785001966 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004785001967 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004785001968 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785001969 active site 1004785001970 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004785001971 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1004785001972 classical (c) SDRs; Region: SDR_c; cd05233 1004785001973 NAD(P) binding site [chemical binding]; other site 1004785001974 active site 1004785001975 Amidohydrolase; Region: Amidohydro_2; pfam04909 1004785001976 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1004785001977 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1004785001978 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 1004785001979 active site pocket [active] 1004785001980 aldolase II superfamily protein; Provisional; Region: PRK07044 1004785001981 active site 1004785001982 intersubunit interface [polypeptide binding]; other site 1004785001983 Zn2+ binding site [ion binding]; other site 1004785001984 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1004785001985 nudix motif; other site 1004785001986 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785001987 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785001988 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785001989 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785001990 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785001991 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785001992 PBP superfamily domain; Region: PBP_like_2; cl17296 1004785001993 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1004785001994 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 1004785001995 dimerization interface [polypeptide binding]; other site 1004785001996 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785001997 dimer interface [polypeptide binding]; other site 1004785001998 putative CheW interface [polypeptide binding]; other site 1004785001999 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1004785002000 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1004785002001 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1004785002002 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1004785002003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785002004 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1004785002005 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 1004785002006 DNA binding residues [nucleotide binding] 1004785002007 DNA primase; Validated; Region: dnaG; PRK05667 1004785002008 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1004785002009 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1004785002010 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 1004785002011 active site 1004785002012 metal binding site [ion binding]; metal-binding site 1004785002013 interdomain interaction site; other site 1004785002014 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1004785002015 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1004785002016 Yqey-like protein; Region: YqeY; pfam09424 1004785002017 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1004785002018 UGMP family protein; Validated; Region: PRK09604 1004785002019 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1004785002020 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1004785002021 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1004785002022 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1004785002023 Dihydroneopterin aldolase; Region: FolB; pfam02152 1004785002024 active site 1004785002025 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 1004785002026 catalytic center binding site [active] 1004785002027 ATP binding site [chemical binding]; other site 1004785002028 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1004785002029 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 1004785002030 nucleotide binding site/active site [active] 1004785002031 HIT family signature motif; other site 1004785002032 catalytic residue [active] 1004785002033 Nudix hydrolase homolog; Region: PLN02791 1004785002034 HDOD domain; Region: HDOD; pfam08668 1004785002035 Benzoate membrane transport protein; Region: BenE; pfam03594 1004785002036 benzoate transporter; Region: benE; TIGR00843 1004785002037 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1004785002038 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 1004785002039 non-specific DNA binding site [nucleotide binding]; other site 1004785002040 salt bridge; other site 1004785002041 sequence-specific DNA binding site [nucleotide binding]; other site 1004785002042 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1004785002043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785002044 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 1004785002045 ATP binding site [chemical binding]; other site 1004785002046 Mg2+ binding site [ion binding]; other site 1004785002047 G-X-G motif; other site 1004785002048 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1004785002049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002050 active site 1004785002051 phosphorylation site [posttranslational modification] 1004785002052 intermolecular recognition site; other site 1004785002053 dimerization interface [polypeptide binding]; other site 1004785002054 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 1004785002055 DNA binding site [nucleotide binding] 1004785002056 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1004785002057 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1004785002058 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 1004785002059 dimer interface [polypeptide binding]; other site 1004785002060 phosphorylation site [posttranslational modification] 1004785002061 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 1004785002062 ATP binding site [chemical binding]; other site 1004785002063 Mg2+ binding site [ion binding]; other site 1004785002064 G-X-G motif; other site 1004785002065 PBP superfamily domain; Region: PBP_like_2; cl17296 1004785002066 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1004785002067 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 1004785002068 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 1004785002069 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004785002070 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004785002071 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004785002072 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004785002073 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004785002074 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004785002075 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785002076 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 1004785002077 TPR motif; other site 1004785002078 binding surface 1004785002079 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 1004785002080 binding surface 1004785002081 TPR motif; other site 1004785002082 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004785002083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002084 active site 1004785002085 phosphorylation site [posttranslational modification] 1004785002086 intermolecular recognition site; other site 1004785002087 dimerization interface [polypeptide binding]; other site 1004785002088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785002089 Zn2+ binding site [ion binding]; other site 1004785002090 Mg2+ binding site [ion binding]; other site 1004785002091 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 1004785002092 PAS domain; Region: PAS_9; pfam13426 1004785002093 putative active site [active] 1004785002094 heme pocket [chemical binding]; other site 1004785002095 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1004785002096 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 1004785002097 putative active site [active] 1004785002098 heme pocket [chemical binding]; other site 1004785002099 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 1004785002100 dimer interface [polypeptide binding]; other site 1004785002101 phosphorylation site [posttranslational modification] 1004785002102 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 1004785002103 ATP binding site [chemical binding]; other site 1004785002104 Mg2+ binding site [ion binding]; other site 1004785002105 G-X-G motif; other site 1004785002106 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785002107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002108 active site 1004785002109 phosphorylation site [posttranslational modification] 1004785002110 intermolecular recognition site; other site 1004785002111 dimerization interface [polypeptide binding]; other site 1004785002112 FIST N domain; Region: FIST; pfam08495 1004785002113 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1004785002114 FIST C domain; Region: FIST_C; pfam10442 1004785002115 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1004785002116 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1004785002117 acyl-activating enzyme (AAE) consensus motif; other site 1004785002118 putative AMP binding site [chemical binding]; other site 1004785002119 putative active site [active] 1004785002120 putative CoA binding site [chemical binding]; other site 1004785002121 Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g; Region: ChSh; cl00044 1004785002122 dimerization interface [polypeptide binding]; other site 1004785002123 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004785002124 potential binding pit; other site 1004785002125 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004785002126 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1004785002127 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 1004785002128 substrate binding site [chemical binding]; other site 1004785002129 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1004785002130 substrate binding site [chemical binding]; other site 1004785002131 ligand binding site [chemical binding]; other site 1004785002132 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004785002133 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 1004785002134 dimer interface [polypeptide binding]; other site 1004785002135 phosphorylation site [posttranslational modification] 1004785002136 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 1004785002137 ATP binding site [chemical binding]; other site 1004785002138 Mg2+ binding site [ion binding]; other site 1004785002139 G-X-G motif; other site 1004785002140 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785002141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002142 active site 1004785002143 phosphorylation site [posttranslational modification] 1004785002144 intermolecular recognition site; other site 1004785002145 dimerization interface [polypeptide binding]; other site 1004785002146 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1004785002147 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004785002148 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 1004785002149 binding surface 1004785002150 TPR motif; other site 1004785002151 DNA ligase; Provisional; Region: PRK09125 1004785002152 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1004785002153 DNA binding site [nucleotide binding] 1004785002154 active site 1004785002155 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 1004785002156 DNA binding site [nucleotide binding] 1004785002157 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1004785002158 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 1004785002159 substrate binding site [chemical binding]; other site 1004785002160 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1004785002161 substrate binding site [chemical binding]; other site 1004785002162 ligand binding site [chemical binding]; other site 1004785002163 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1004785002164 aspartate kinase III; Validated; Region: PRK09084 1004785002165 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 1004785002166 nucleotide binding site [chemical binding]; other site 1004785002167 substrate binding site [chemical binding]; other site 1004785002168 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1004785002169 lysine allosteric regulatory site; other site 1004785002170 dimer interface [polypeptide binding]; other site 1004785002171 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1004785002172 dimer interface [polypeptide binding]; other site 1004785002173 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1004785002174 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 1004785002175 dimerization interface [polypeptide binding]; other site 1004785002176 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785002177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785002178 dimer interface [polypeptide binding]; other site 1004785002179 putative CheW interface [polypeptide binding]; other site 1004785002180 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1004785002181 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1004785002182 active site 1004785002183 metal binding site [ion binding]; metal-binding site 1004785002184 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1004785002185 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1004785002186 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1004785002187 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1004785002188 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1004785002189 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1004785002190 SurA N-terminal domain; Region: SurA_N; pfam09312 1004785002191 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1004785002192 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1004785002193 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1004785002194 OstA-like protein; Region: OstA; cl00844 1004785002195 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1004785002196 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1004785002197 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1004785002198 putative metal binding site [ion binding]; other site 1004785002199 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 1004785002200 HSP70 interaction site [polypeptide binding]; other site 1004785002201 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1004785002202 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1004785002203 active site 1004785002204 Int/Topo IB signature motif; other site 1004785002205 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 1004785002206 dimerization domain [polypeptide binding]; other site 1004785002207 dimer interface [polypeptide binding]; other site 1004785002208 catalytic residues [active] 1004785002209 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1004785002210 DHH family; Region: DHH; pfam01368 1004785002211 DHHA1 domain; Region: DHHA1; pfam02272 1004785002212 Recombination protein O N terminal; Region: RecO_N; pfam11967 1004785002213 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1004785002214 Recombination protein O C terminal; Region: RecO_C; pfam02565 1004785002215 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 1004785002216 active site 1004785002217 hydrophilic channel; other site 1004785002218 dimerization interface [polypeptide binding]; other site 1004785002219 catalytic residues [active] 1004785002220 active site lid [active] 1004785002221 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1004785002222 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1004785002223 TRAM domain; Region: TRAM; cl01282 1004785002224 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 1004785002225 S-adenosylmethionine binding site [chemical binding]; other site 1004785002226 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1004785002227 HD domain; Region: HD_4; pfam13328 1004785002228 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1004785002229 synthetase active site [active] 1004785002230 NTP binding site [chemical binding]; other site 1004785002231 metal binding site [ion binding]; metal-binding site 1004785002232 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 1004785002233 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1004785002234 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1004785002235 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1004785002236 homodimer interface [polypeptide binding]; other site 1004785002237 metal binding site [ion binding]; metal-binding site 1004785002238 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 1004785002239 homodimer interface [polypeptide binding]; other site 1004785002240 active site 1004785002241 putative chemical substrate binding site [chemical binding]; other site 1004785002242 metal binding site [ion binding]; metal-binding site 1004785002243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1004785002244 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1004785002245 tetramerization interface [polypeptide binding]; other site 1004785002246 substrate binding pocket [chemical binding]; other site 1004785002247 catalytic residues [active] 1004785002248 inhibitor binding sites; inhibition site 1004785002249 NADP(H) binding site [chemical binding]; other site 1004785002250 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1004785002251 short chain dehydrogenase; Provisional; Region: PRK09072 1004785002252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785002253 NAD(P) binding site [chemical binding]; other site 1004785002254 active site 1004785002255 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 1004785002256 heme binding pocket [chemical binding]; other site 1004785002257 heme ligand [chemical binding]; other site 1004785002258 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1004785002259 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1004785002260 acyl-activating enzyme (AAE) consensus motif; other site 1004785002261 putative AMP binding site [chemical binding]; other site 1004785002262 putative active site [active] 1004785002263 putative CoA binding site [chemical binding]; other site 1004785002264 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1004785002265 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1004785002266 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1004785002267 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004785002268 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1004785002269 Ligand binding site; other site 1004785002270 Putative Catalytic site; other site 1004785002271 DXD motif; other site 1004785002272 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1004785002273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785002274 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 1004785002275 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 1004785002276 dimer interface [polypeptide binding]; other site 1004785002277 phosphorylation site [posttranslational modification] 1004785002278 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 1004785002279 ATP binding site [chemical binding]; other site 1004785002280 Mg2+ binding site [ion binding]; other site 1004785002281 G-X-G motif; other site 1004785002282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785002283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002284 active site 1004785002285 phosphorylation site [posttranslational modification] 1004785002286 intermolecular recognition site; other site 1004785002287 dimerization interface [polypeptide binding]; other site 1004785002288 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 1004785002289 DNA binding site [nucleotide binding] 1004785002290 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 1004785002291 23S rRNA interface [nucleotide binding]; other site 1004785002292 L3 interface [polypeptide binding]; other site 1004785002293 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1004785002294 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1004785002295 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1004785002296 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 1004785002297 [2Fe-2S] cluster binding site [ion binding]; other site 1004785002298 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1004785002299 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 1004785002300 Qi binding site; other site 1004785002301 intrachain domain interface; other site 1004785002302 interchain domain interface [polypeptide binding]; other site 1004785002303 heme bH binding site [chemical binding]; other site 1004785002304 heme bL binding site [chemical binding]; other site 1004785002305 Qo binding site; other site 1004785002306 interchain domain interface [polypeptide binding]; other site 1004785002307 intrachain domain interface; other site 1004785002308 Qi binding site; other site 1004785002309 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1004785002310 Qo binding site; other site 1004785002311 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1004785002312 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1004785002313 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 1004785002314 C-terminal domain interface [polypeptide binding]; other site 1004785002315 putative GSH binding site (G-site) [chemical binding]; other site 1004785002316 dimer interface [polypeptide binding]; other site 1004785002317 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1004785002318 dimer interface [polypeptide binding]; other site 1004785002319 N-terminal domain interface [polypeptide binding]; other site 1004785002320 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1004785002321 Spondin_N; Region: Spond_N; pfam06468 1004785002322 Spondin_N; Region: Spond_N; pfam06468 1004785002323 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 1004785002324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1004785002325 dimerization interface [polypeptide binding]; other site 1004785002326 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 1004785002327 DNA binding site [nucleotide binding] 1004785002328 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1004785002329 MgtE intracellular N domain; Region: MgtE_N; smart00924 1004785002330 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 1004785002331 Divalent cation transporter; Region: MgtE; pfam01769 1004785002332 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 1004785002333 dimerization domain swap beta strand [polypeptide binding]; other site 1004785002334 regulatory protein interface [polypeptide binding]; other site 1004785002335 active site 1004785002336 regulatory phosphorylation site [posttranslational modification]; other site 1004785002337 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1004785002338 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 1004785002339 active site 1004785002340 phosphorylation site [posttranslational modification] 1004785002341 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 1004785002342 30S subunit binding site; other site 1004785002343 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1004785002344 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1004785002345 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1004785002346 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1004785002347 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1004785002348 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1004785002349 Walker A/P-loop; other site 1004785002350 ATP binding site [chemical binding]; other site 1004785002351 Q-loop/lid; other site 1004785002352 ABC transporter signature motif; other site 1004785002353 Walker B; other site 1004785002354 D-loop; other site 1004785002355 H-loop/switch region; other site 1004785002356 OstA-like protein; Region: OstA; cl00844 1004785002357 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1004785002358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1004785002359 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1004785002360 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1004785002361 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1004785002362 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 1004785002363 putative active site [active] 1004785002364 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 1004785002365 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1004785002366 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004785002367 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004785002368 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1004785002369 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1004785002370 Walker A/P-loop; other site 1004785002371 ATP binding site [chemical binding]; other site 1004785002372 Q-loop/lid; other site 1004785002373 ABC transporter signature motif; other site 1004785002374 Walker B; other site 1004785002375 D-loop; other site 1004785002376 H-loop/switch region; other site 1004785002377 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1004785002378 conserved hypothetical integral membrane protein; Region: TIGR00056 1004785002379 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1004785002380 mce related protein; Region: MCE; pfam02470 1004785002381 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1004785002382 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 1004785002383 anti sigma factor interaction site; other site 1004785002384 regulatory phosphorylation site [posttranslational modification]; other site 1004785002385 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1004785002386 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1004785002387 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 1004785002388 hinge; other site 1004785002389 active site 1004785002390 serine endoprotease; Provisional; Region: PRK10898 1004785002391 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1004785002392 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 1004785002393 protein binding site [polypeptide binding]; other site 1004785002394 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1004785002395 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1004785002396 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 1004785002397 protein binding site [polypeptide binding]; other site 1004785002398 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 1004785002399 Predicted ATPase [General function prediction only]; Region: COG1485 1004785002400 hypothetical protein; Provisional; Region: PRK12378 1004785002401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785002402 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785002403 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785002404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1004785002405 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1004785002406 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1004785002407 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004785002408 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1004785002409 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004785002410 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1004785002411 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1004785002412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1004785002413 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004785002414 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1004785002415 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004785002416 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1004785002417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1004785002418 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004785002419 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1004785002420 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1004785002421 Protein export membrane protein; Region: SecD_SecF; pfam02355 1004785002422 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1004785002423 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1004785002424 TrkA-C domain; Region: TrkA_C; pfam02080 1004785002425 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785002426 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 1004785002427 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004785002428 EamA-like transporter family; Region: EamA; pfam00892 1004785002429 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 1004785002430 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785002431 substrate binding pocket [chemical binding]; other site 1004785002432 membrane-bound complex binding site; other site 1004785002433 hinge residues; other site 1004785002434 PAS fold; Region: PAS; pfam00989 1004785002435 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 1004785002436 putative active site [active] 1004785002437 heme pocket [chemical binding]; other site 1004785002438 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785002439 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 1004785002440 dimer interface [polypeptide binding]; other site 1004785002441 phosphorylation site [posttranslational modification] 1004785002442 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 1004785002443 ATP binding site [chemical binding]; other site 1004785002444 Mg2+ binding site [ion binding]; other site 1004785002445 G-X-G motif; other site 1004785002446 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785002447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002448 active site 1004785002449 phosphorylation site [posttranslational modification] 1004785002450 intermolecular recognition site; other site 1004785002451 dimerization interface [polypeptide binding]; other site 1004785002452 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1004785002453 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 1004785002454 putative ligand binding site [chemical binding]; other site 1004785002455 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1004785002456 active site 1004785002457 catalytic site [active] 1004785002458 substrate binding site [chemical binding]; other site 1004785002459 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1004785002460 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1004785002461 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1004785002462 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1004785002463 transketolase; Reviewed; Region: PRK12753 1004785002464 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 1004785002465 TPP-binding site [chemical binding]; other site 1004785002466 dimer interface [polypeptide binding]; other site 1004785002467 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 1004785002468 PYR/PP interface [polypeptide binding]; other site 1004785002469 dimer interface [polypeptide binding]; other site 1004785002470 TPP binding site [chemical binding]; other site 1004785002471 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004785002472 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1004785002473 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004785002474 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004785002475 Phosphoglycerate kinase; Region: PGK; pfam00162 1004785002476 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 1004785002477 substrate binding site [chemical binding]; other site 1004785002478 hinge regions; other site 1004785002479 ADP binding site [chemical binding]; other site 1004785002480 catalytic site [active] 1004785002481 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1004785002482 catalytic residue [active] 1004785002483 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1004785002484 putative metal dependent hydrolase; Provisional; Region: PRK11598 1004785002485 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1004785002486 Sulfatase; Region: Sulfatase; pfam00884 1004785002487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785002488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002489 active site 1004785002490 phosphorylation site [posttranslational modification] 1004785002491 intermolecular recognition site; other site 1004785002492 dimerization interface [polypeptide binding]; other site 1004785002493 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 1004785002494 DNA binding site [nucleotide binding] 1004785002495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785002496 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 1004785002497 dimer interface [polypeptide binding]; other site 1004785002498 phosphorylation site [posttranslational modification] 1004785002499 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 1004785002500 ATP binding site [chemical binding]; other site 1004785002501 Mg2+ binding site [ion binding]; other site 1004785002502 G-X-G motif; other site 1004785002503 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785002504 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785002505 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785002506 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785002507 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785002508 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1004785002509 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004785002510 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785002511 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785002512 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785002513 exopolyphosphatase; Provisional; Region: PRK10854 1004785002514 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1004785002515 nucleotide binding site [chemical binding]; other site 1004785002516 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1004785002517 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1004785002518 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1004785002519 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1004785002520 domain interface [polypeptide binding]; other site 1004785002521 active site 1004785002522 catalytic site [active] 1004785002523 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1004785002524 domain interface [polypeptide binding]; other site 1004785002525 active site 1004785002526 catalytic site [active] 1004785002527 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1004785002528 ACT domain; Region: ACT_6; pfam13740 1004785002529 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1004785002530 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 1004785002531 dimer interface [polypeptide binding]; other site 1004785002532 conserved gate region; other site 1004785002533 putative PBP binding loops; other site 1004785002534 ABC-ATPase subunit interface; other site 1004785002535 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1004785002536 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1004785002537 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 1004785002538 dimer interface [polypeptide binding]; other site 1004785002539 conserved gate region; other site 1004785002540 putative PBP binding loops; other site 1004785002541 ABC-ATPase subunit interface; other site 1004785002542 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1004785002543 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1004785002544 Walker A/P-loop; other site 1004785002545 ATP binding site [chemical binding]; other site 1004785002546 Q-loop/lid; other site 1004785002547 ABC transporter signature motif; other site 1004785002548 Walker B; other site 1004785002549 D-loop; other site 1004785002550 H-loop/switch region; other site 1004785002551 transcriptional regulator PhoU; Provisional; Region: PRK11115 1004785002552 PhoU domain; Region: PhoU; pfam01895 1004785002553 PhoU domain; Region: PhoU; pfam01895 1004785002554 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1004785002555 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1004785002556 universal stress protein UspE; Provisional; Region: PRK11175 1004785002557 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 1004785002558 Ligand Binding Site [chemical binding]; other site 1004785002559 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 1004785002560 Ligand Binding Site [chemical binding]; other site 1004785002561 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1004785002562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785002563 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 1004785002564 dimerization interface [polypeptide binding]; other site 1004785002565 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004785002566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785002567 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 1004785002568 DNA binding residues [nucleotide binding] 1004785002569 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1004785002570 catalytic residues [active] 1004785002571 active site 1004785002572 Haemolysin-III related; Region: HlyIII; cl03831 1004785002573 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1004785002574 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004785002575 MarR family; Region: MarR; pfam01047 1004785002576 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1004785002577 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 1004785002578 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 1004785002579 active site 1004785002580 Zn binding site [ion binding]; other site 1004785002581 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 1004785002582 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 1004785002583 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785002584 putative catalytic residues [active] 1004785002585 hypothetical protein; Provisional; Region: PRK11568 1004785002586 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1004785002587 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1004785002588 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004785002589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002590 active site 1004785002591 phosphorylation site [posttranslational modification] 1004785002592 intermolecular recognition site; other site 1004785002593 dimerization interface [polypeptide binding]; other site 1004785002594 LytTr DNA-binding domain; Region: LytTR; smart00850 1004785002595 Histidine kinase; Region: His_kinase; pfam06580 1004785002596 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 1004785002597 Mg2+ binding site [ion binding]; other site 1004785002598 G-X-G motif; other site 1004785002599 PAS domain; Region: PAS_9; pfam13426 1004785002600 PAS domain; Region: PAS_9; pfam13426 1004785002601 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 1004785002602 putative active site [active] 1004785002603 heme pocket [chemical binding]; other site 1004785002604 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785002605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785002606 dimer interface [polypeptide binding]; other site 1004785002607 putative CheW interface [polypeptide binding]; other site 1004785002608 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 1004785002609 exonuclease subunit SbcD; Provisional; Region: PRK10966 1004785002610 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1004785002611 active site 1004785002612 metal binding site [ion binding]; metal-binding site 1004785002613 DNA binding site [nucleotide binding] 1004785002614 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1004785002615 exonuclease subunit SbcC; Provisional; Region: PRK10246 1004785002616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785002617 Walker A/P-loop; other site 1004785002618 ATP binding site [chemical binding]; other site 1004785002619 Q-loop/lid; other site 1004785002620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785002621 ABC transporter signature motif; other site 1004785002622 Walker B; other site 1004785002623 D-loop; other site 1004785002624 H-loop/switch region; other site 1004785002625 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004785002626 Active site serine [active] 1004785002627 serine/threonine transporter SstT; Provisional; Region: PRK13628 1004785002628 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004785002629 formimidoylglutamase; Provisional; Region: PRK13775 1004785002630 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1004785002631 putative active site [active] 1004785002632 putative metal binding site [ion binding]; other site 1004785002633 imidazolonepropionase; Validated; Region: PRK09356 1004785002634 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1004785002635 active site 1004785002636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004785002637 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1004785002638 DNA-binding site [nucleotide binding]; DNA binding site 1004785002639 UTRA domain; Region: UTRA; pfam07702 1004785002640 urocanate hydratase; Provisional; Region: PRK05414 1004785002641 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1004785002642 active sites [active] 1004785002643 tetramer interface [polypeptide binding]; other site 1004785002644 CreA protein; Region: CreA; pfam05981 1004785002645 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1004785002646 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 1004785002647 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1004785002648 active site 1004785002649 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1004785002650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785002651 Walker A/P-loop; other site 1004785002652 ATP binding site [chemical binding]; other site 1004785002653 Q-loop/lid; other site 1004785002654 ABC transporter signature motif; other site 1004785002655 Walker B; other site 1004785002656 D-loop; other site 1004785002657 H-loop/switch region; other site 1004785002658 ABC transporter; Region: ABC_tran_2; pfam12848 1004785002659 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785002660 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1004785002661 putative active site [active] 1004785002662 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 1004785002663 TPR motif; other site 1004785002664 binding surface 1004785002665 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004785002666 Zn binding site [ion binding]; other site 1004785002667 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785002668 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785002669 Amb_all domain; Region: Amb_all; smart00656 1004785002670 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004785002671 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1004785002672 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 1004785002673 dimer interface [polypeptide binding]; other site 1004785002674 phosphorylation site [posttranslational modification] 1004785002675 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 1004785002676 ATP binding site [chemical binding]; other site 1004785002677 G-X-G motif; other site 1004785002678 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785002679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002680 active site 1004785002681 phosphorylation site [posttranslational modification] 1004785002682 intermolecular recognition site; other site 1004785002683 dimerization interface [polypeptide binding]; other site 1004785002684 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 1004785002685 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1004785002686 Walker A motif; other site 1004785002687 ATP binding site [chemical binding]; other site 1004785002688 Walker B motif; other site 1004785002689 arginine finger; other site 1004785002690 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785002691 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785002692 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785002693 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 1004785002694 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1004785002695 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 1004785002696 transmembrane helices; other site 1004785002697 malate dehydrogenase; Provisional; Region: PRK13529 1004785002698 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1004785002699 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1004785002700 NAD(P) binding pocket [chemical binding]; other site 1004785002701 Domain of unknown function (DUF305); Region: DUF305; cl17794 1004785002702 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 1004785002703 LVIVD repeat; Region: LVIVD; pfam08309 1004785002704 Calx-beta domain; Region: Calx-beta; cl02522 1004785002705 Calx-beta domain; Region: Calx-beta; cl02522 1004785002706 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1004785002707 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1004785002708 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1004785002709 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1004785002710 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004785002711 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004785002712 LytTr DNA-binding domain; Region: LytTR; smart00850 1004785002713 LrgA family; Region: LrgA; pfam03788 1004785002714 LrgB-like family; Region: LrgB; pfam04172 1004785002715 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785002716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002717 active site 1004785002718 phosphorylation site [posttranslational modification] 1004785002719 intermolecular recognition site; other site 1004785002720 dimerization interface [polypeptide binding]; other site 1004785002721 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1004785002722 PAS domain; Region: PAS; smart00091 1004785002723 PAS fold; Region: PAS; pfam00989 1004785002724 putative active site [active] 1004785002725 heme pocket [chemical binding]; other site 1004785002726 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; cl17457 1004785002727 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1004785002728 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1004785002729 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1004785002730 HemN family oxidoreductase; Provisional; Region: PRK05660 1004785002731 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 1004785002732 FeS/SAM binding site; other site 1004785002733 HemN C-terminal domain; Region: HemN_C; pfam06969 1004785002734 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 1004785002735 active site 1004785002736 dimerization interface [polypeptide binding]; other site 1004785002737 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 1004785002738 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1004785002739 ATP binding site [chemical binding]; other site 1004785002740 Mg++ binding site [ion binding]; other site 1004785002741 motif III; other site 1004785002742 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 1004785002743 nucleotide binding region [chemical binding]; other site 1004785002744 ATP-binding site [chemical binding]; other site 1004785002745 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1004785002746 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1004785002747 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1004785002748 active site 1004785002749 NTP binding site [chemical binding]; other site 1004785002750 metal binding triad [ion binding]; metal-binding site 1004785002751 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1004785002752 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1004785002753 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 1004785002754 Walker A motif; other site 1004785002755 ATP binding site [chemical binding]; other site 1004785002756 Walker B motif; other site 1004785002757 arginine finger; other site 1004785002758 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004785002759 HTH-like domain; Region: HTH_21; pfam13276 1004785002760 Integrase core domain; Region: rve; pfam00665 1004785002761 Integrase core domain; Region: rve_2; pfam13333 1004785002762 Homeodomain-like domain; Region: HTH_23; cl17451 1004785002763 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004785002764 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1004785002765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785002766 Zn2+ binding site [ion binding]; other site 1004785002767 Mg2+ binding site [ion binding]; other site 1004785002768 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1004785002769 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 1004785002770 substrate binding site [chemical binding]; other site 1004785002771 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1004785002772 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1004785002773 substrate binding site [chemical binding]; other site 1004785002774 ligand binding site [chemical binding]; other site 1004785002775 tartrate dehydrogenase; Region: TTC; TIGR02089 1004785002776 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1004785002777 2-isopropylmalate synthase; Validated; Region: PRK00915 1004785002778 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1004785002779 active site 1004785002780 catalytic residues [active] 1004785002781 metal binding site [ion binding]; metal-binding site 1004785002782 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1004785002783 enolase; Provisional; Region: eno; PRK00077 1004785002784 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 1004785002785 dimer interface [polypeptide binding]; other site 1004785002786 metal binding site [ion binding]; metal-binding site 1004785002787 substrate binding pocket [chemical binding]; other site 1004785002788 CTP synthetase; Validated; Region: pyrG; PRK05380 1004785002789 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 1004785002790 Catalytic site [active] 1004785002791 active site 1004785002792 UTP binding site [chemical binding]; other site 1004785002793 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1004785002794 active site 1004785002795 putative oxyanion hole; other site 1004785002796 catalytic triad [active] 1004785002797 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1004785002798 MutS domain I; Region: MutS_I; pfam01624 1004785002799 MutS domain II; Region: MutS_II; pfam05188 1004785002800 MutS domain III; Region: MutS_III; pfam05192 1004785002801 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1004785002802 Walker A/P-loop; other site 1004785002803 ATP binding site [chemical binding]; other site 1004785002804 Q-loop/lid; other site 1004785002805 ABC transporter signature motif; other site 1004785002806 Walker B; other site 1004785002807 D-loop; other site 1004785002808 H-loop/switch region; other site 1004785002809 Competence-damaged protein; Region: CinA; pfam02464 1004785002810 recombinase A; Provisional; Region: recA; PRK09354 1004785002811 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 1004785002812 hexamer interface [polypeptide binding]; other site 1004785002813 Walker A motif; other site 1004785002814 ATP binding site [chemical binding]; other site 1004785002815 Walker B motif; other site 1004785002816 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785002817 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785002818 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785002819 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1004785002820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785002821 Walker A/P-loop; other site 1004785002822 ATP binding site [chemical binding]; other site 1004785002823 Q-loop/lid; other site 1004785002824 ABC transporter signature motif; other site 1004785002825 Walker B; other site 1004785002826 D-loop; other site 1004785002827 H-loop/switch region; other site 1004785002828 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1004785002829 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1004785002830 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 1004785002831 dimer interface [polypeptide binding]; other site 1004785002832 phosphorylation site [posttranslational modification] 1004785002833 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 1004785002834 ATP binding site [chemical binding]; other site 1004785002835 Mg2+ binding site [ion binding]; other site 1004785002836 G-X-G motif; other site 1004785002837 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1004785002838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785002839 active site 1004785002840 phosphorylation site [posttranslational modification] 1004785002841 intermolecular recognition site; other site 1004785002842 dimerization interface [polypeptide binding]; other site 1004785002843 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 1004785002844 DNA binding site [nucleotide binding] 1004785002845 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 1004785002846 MltA-interacting protein MipA; Region: MipA; cl01504 1004785002847 Beta propeller domain; Region: Beta_propel; pfam09826 1004785002848 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1004785002849 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1004785002850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785002851 Walker A/P-loop; other site 1004785002852 ATP binding site [chemical binding]; other site 1004785002853 Q-loop/lid; other site 1004785002854 ABC transporter signature motif; other site 1004785002855 Walker B; other site 1004785002856 D-loop; other site 1004785002857 H-loop/switch region; other site 1004785002858 heme exporter protein CcmB; Region: ccmB; TIGR01190 1004785002859 heme exporter protein CcmC; Region: ccmC; TIGR01191 1004785002860 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1004785002861 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1004785002862 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1004785002863 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004785002864 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785002865 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1004785002866 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1004785002867 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 1004785002868 binding surface 1004785002869 TPR motif; other site 1004785002870 VacJ like lipoprotein; Region: VacJ; cl01073 1004785002871 UDP-glucose 4-epimerase; Region: PLN02240 1004785002872 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1004785002873 NAD binding site [chemical binding]; other site 1004785002874 homodimer interface [polypeptide binding]; other site 1004785002875 active site 1004785002876 substrate binding site [chemical binding]; other site 1004785002877 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1004785002878 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 1004785002879 putative substrate translocation pore; other site 1004785002880 POT family; Region: PTR2; cl17359 1004785002881 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1004785002882 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1004785002883 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1004785002884 Walker A/P-loop; other site 1004785002885 ATP binding site [chemical binding]; other site 1004785002886 Q-loop/lid; other site 1004785002887 ABC transporter signature motif; other site 1004785002888 Walker B; other site 1004785002889 D-loop; other site 1004785002890 H-loop/switch region; other site 1004785002891 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1004785002892 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1004785002893 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1004785002894 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004785002895 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1004785002896 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1004785002897 Mg++ binding site [ion binding]; other site 1004785002898 putative catalytic motif [active] 1004785002899 substrate binding site [chemical binding]; other site 1004785002900 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 1004785002901 active site 1004785002902 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785002903 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1004785002904 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1004785002905 Ligand binding site; other site 1004785002906 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1004785002907 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1004785002908 active site 1004785002909 tetramer interface; other site 1004785002910 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1004785002911 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1004785002912 tartrate dehydrogenase; Region: TTC; TIGR02089 1004785002913 isocitrate dehydrogenase; Provisional; Region: PRK08997 1004785002914 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1004785002915 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1004785002916 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1004785002917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785002918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785002919 metal binding site [ion binding]; metal-binding site 1004785002920 active site 1004785002921 I-site; other site 1004785002922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1004785002923 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1004785002924 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1004785002925 SecY interacting protein Syd; Provisional; Region: PRK04968 1004785002926 Protein of unknown function, DUF480; Region: DUF480; cl01209 1004785002927 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1004785002928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785002929 Coenzyme A binding pocket [chemical binding]; other site 1004785002930 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1004785002931 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1004785002932 ligand binding site; other site 1004785002933 oligomer interface; other site 1004785002934 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 1004785002935 dimer interface [polypeptide binding]; other site 1004785002936 N-terminal domain interface [polypeptide binding]; other site 1004785002937 sulfate 1 binding site; other site 1004785002938 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1004785002939 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 1004785002940 putative dimer interface [polypeptide binding]; other site 1004785002941 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1004785002942 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 1004785002943 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1004785002944 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004785002945 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1004785002946 probable active site [active] 1004785002947 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785002948 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1004785002949 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 1004785002950 trimer interface [polypeptide binding]; other site 1004785002951 active site 1004785002952 substrate binding site [chemical binding]; other site 1004785002953 CoA binding site [chemical binding]; other site 1004785002954 PII uridylyl-transferase; Provisional; Region: PRK05007 1004785002955 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004785002956 metal binding triad; other site 1004785002957 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1004785002958 HD domain; Region: HD; pfam01966 1004785002959 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 1004785002960 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 1004785002961 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 1004785002962 active site 1004785002963 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 1004785002964 rRNA interaction site [nucleotide binding]; other site 1004785002965 S8 interaction site; other site 1004785002966 putative laminin-1 binding site; other site 1004785002967 elongation factor Ts; Provisional; Region: tsf; PRK09377 1004785002968 UBA/TS-N domain; Region: UBA; pfam00627 1004785002969 Elongation factor TS; Region: EF_TS; pfam00889 1004785002970 Elongation factor TS; Region: EF_TS; pfam00889 1004785002971 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 1004785002972 putative nucleotide binding site [chemical binding]; other site 1004785002973 uridine monophosphate binding site [chemical binding]; other site 1004785002974 homohexameric interface [polypeptide binding]; other site 1004785002975 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1004785002976 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 1004785002977 hinge region; other site 1004785002978 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1004785002979 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 1004785002980 catalytic residue [active] 1004785002981 putative FPP diphosphate binding site; other site 1004785002982 putative FPP binding hydrophobic cleft; other site 1004785002983 dimer interface [polypeptide binding]; other site 1004785002984 putative IPP diphosphate binding site; other site 1004785002985 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1004785002986 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1004785002987 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1004785002988 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1004785002989 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1004785002990 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1004785002991 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1004785002992 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 1004785002993 active site 1004785002994 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 1004785002995 protein binding site [polypeptide binding]; other site 1004785002996 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 1004785002997 protein binding site [polypeptide binding]; other site 1004785002998 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 1004785002999 putative substrate binding region [chemical binding]; other site 1004785003000 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1004785003001 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004785003002 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004785003003 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004785003004 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004785003005 Surface antigen; Region: Bac_surface_Ag; pfam01103 1004785003006 periplasmic chaperone; Provisional; Region: PRK10780 1004785003007 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1004785003008 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 1004785003009 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1004785003010 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 1004785003011 active site 1004785003012 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1004785003013 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1004785003014 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1004785003015 RNA/DNA hybrid binding site [nucleotide binding]; other site 1004785003016 active site 1004785003017 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1004785003018 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1004785003019 putative active site [active] 1004785003020 putative PHP Thumb interface [polypeptide binding]; other site 1004785003021 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 1004785003022 generic binding surface I; other site 1004785003023 generic binding surface II; other site 1004785003024 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1004785003025 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1004785003026 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1004785003027 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 1004785003028 Ligand Binding Site [chemical binding]; other site 1004785003029 TilS substrate binding domain; Region: TilS; pfam09179 1004785003030 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1004785003031 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003032 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003033 metal binding site [ion binding]; metal-binding site 1004785003034 active site 1004785003035 I-site; other site 1004785003036 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1004785003037 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1004785003038 TrkA-N domain; Region: TrkA_N; pfam02254 1004785003039 TrkA-C domain; Region: TrkA_C; pfam02080 1004785003040 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 1004785003041 nucleoside/Zn binding site; other site 1004785003042 dimer interface [polypeptide binding]; other site 1004785003043 catalytic motif [active] 1004785003044 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785003045 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 1004785003046 substrate binding pocket [chemical binding]; other site 1004785003047 membrane-bound complex binding site; other site 1004785003048 hinge residues; other site 1004785003049 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004785003050 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 1004785003051 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785003052 catalytic residue [active] 1004785003053 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1004785003054 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 1004785003055 dimerization interface [polypeptide binding]; other site 1004785003056 ATP binding site [chemical binding]; other site 1004785003057 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 1004785003058 dimerization interface [polypeptide binding]; other site 1004785003059 ATP binding site [chemical binding]; other site 1004785003060 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1004785003061 putative active site [active] 1004785003062 catalytic triad [active] 1004785003063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1004785003064 Smr domain; Region: Smr; pfam01713 1004785003065 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1004785003066 LPP20 lipoprotein; Region: LPP20; cl15824 1004785003067 FlgN protein; Region: FlgN; pfam05130 1004785003068 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1004785003069 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1004785003070 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1004785003071 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1004785003072 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785003073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003074 active site 1004785003075 phosphorylation site [posttranslational modification] 1004785003076 intermolecular recognition site; other site 1004785003077 dimerization interface [polypeptide binding]; other site 1004785003078 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004785003079 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1004785003080 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004785003081 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1004785003082 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1004785003083 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 1004785003084 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004785003085 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1004785003086 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1004785003087 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1004785003088 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1004785003089 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1004785003090 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004785003091 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1004785003092 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1004785003093 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1004785003094 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1004785003095 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004785003096 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1004785003097 Flagellar L-ring protein; Region: FlgH; pfam02107 1004785003098 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1004785003099 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1004785003100 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1004785003101 Rod binding protein; Region: Rod-binding; cl01626 1004785003102 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1004785003103 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1004785003104 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004785003105 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1004785003106 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785003107 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785003108 BNR repeat-like domain; Region: BNR_2; pfam13088 1004785003109 flagellin; Provisional; Region: PRK12802 1004785003110 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785003111 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785003112 flagellin; Provisional; Region: PRK12802 1004785003113 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785003114 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785003115 flagellin; Provisional; Region: PRK12802 1004785003116 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785003117 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785003118 FlaG protein; Region: FlaG; pfam03646 1004785003119 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1004785003120 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1004785003121 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1004785003122 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1004785003123 flagellar protein FliS; Validated; Region: fliS; PRK05685 1004785003124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1004785003125 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 1004785003126 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785003127 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 1004785003128 active site 1004785003129 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785003130 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 1004785003131 active site 1004785003132 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004785003133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785003134 NAD(P) binding site [chemical binding]; other site 1004785003135 active site 1004785003136 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 1004785003137 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785003138 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004785003139 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004785003140 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1004785003141 ligand binding site; other site 1004785003142 tetramer interface; other site 1004785003143 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004785003144 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1004785003145 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1004785003146 NAD binding site [chemical binding]; other site 1004785003147 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 1004785003148 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004785003149 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1004785003150 NeuB family; Region: NeuB; pfam03102 1004785003151 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1004785003152 NeuB binding interface [polypeptide binding]; other site 1004785003153 putative substrate binding site [chemical binding]; other site 1004785003154 flagellin modification protein A; Provisional; Region: PRK09186 1004785003155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785003156 NAD(P) binding site [chemical binding]; other site 1004785003157 active site 1004785003158 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1004785003159 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1004785003160 NADP binding site [chemical binding]; other site 1004785003161 active site 1004785003162 putative substrate binding site [chemical binding]; other site 1004785003163 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1004785003164 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1004785003165 NADP-binding site; other site 1004785003166 homotetramer interface [polypeptide binding]; other site 1004785003167 substrate binding site [chemical binding]; other site 1004785003168 homodimer interface [polypeptide binding]; other site 1004785003169 active site 1004785003170 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1004785003171 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 1004785003172 inhibitor-cofactor binding pocket; inhibition site 1004785003173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785003174 catalytic residue [active] 1004785003175 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1004785003176 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1004785003177 NAD(P) binding site [chemical binding]; other site 1004785003178 homodimer interface [polypeptide binding]; other site 1004785003179 substrate binding site [chemical binding]; other site 1004785003180 active site 1004785003181 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 1004785003182 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1004785003183 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1004785003184 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785003185 LicD family; Region: LicD; pfam04991 1004785003186 pseudaminic acid synthase; Region: PseI; TIGR03586 1004785003187 NeuB family; Region: NeuB; pfam03102 1004785003188 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1004785003189 NeuB binding interface [polypeptide binding]; other site 1004785003190 putative substrate binding site [chemical binding]; other site 1004785003191 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1004785003192 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1004785003193 ligand binding site; other site 1004785003194 tetramer interface; other site 1004785003195 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004785003196 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1004785003197 active site 1004785003198 nucleotide binding site [chemical binding]; other site 1004785003199 HIGH motif; other site 1004785003200 KMSKS motif; other site 1004785003201 flagellin; Provisional; Region: PRK12802 1004785003202 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785003203 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785003204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004785003205 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1004785003206 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 1004785003207 Walker A motif; other site 1004785003208 ATP binding site [chemical binding]; other site 1004785003209 Walker B motif; other site 1004785003210 arginine finger; other site 1004785003211 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785003212 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1004785003213 PAS domain; Region: PAS_8; pfam13188 1004785003214 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 1004785003215 dimer interface [polypeptide binding]; other site 1004785003216 phosphorylation site [posttranslational modification] 1004785003217 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 1004785003218 ATP binding site [chemical binding]; other site 1004785003219 Mg2+ binding site [ion binding]; other site 1004785003220 G-X-G motif; other site 1004785003221 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004785003222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003223 active site 1004785003224 phosphorylation site [posttranslational modification] 1004785003225 intermolecular recognition site; other site 1004785003226 dimerization interface [polypeptide binding]; other site 1004785003227 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 1004785003228 Walker A motif; other site 1004785003229 ATP binding site [chemical binding]; other site 1004785003230 Walker B motif; other site 1004785003231 arginine finger; other site 1004785003232 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785003233 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1004785003234 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1004785003235 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1004785003236 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1004785003237 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1004785003238 MgtE intracellular N domain; Region: MgtE_N; smart00924 1004785003239 FliG C-terminal domain; Region: FliG_C; pfam01706 1004785003240 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1004785003241 Flagellar assembly protein FliH; Region: FliH; pfam02108 1004785003242 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 1004785003243 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 1004785003244 Walker A motif/ATP binding site; other site 1004785003245 Walker B motif; other site 1004785003246 Flagellar FliJ protein; Region: FliJ; pfam02050 1004785003247 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1004785003248 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1004785003249 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1004785003250 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1004785003251 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1004785003252 flagellar motor switch protein; Validated; Region: fliN; PRK08983 1004785003253 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1004785003254 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1004785003255 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1004785003256 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1004785003257 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1004785003258 Phosphate transporter family; Region: PHO4; cl00396 1004785003259 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1004785003260 Peptidase M15; Region: Peptidase_M15_3; cl01194 1004785003261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1004785003262 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1004785003263 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1004785003264 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1004785003265 FHIPEP family; Region: FHIPEP; pfam00771 1004785003266 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1004785003267 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 1004785003268 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1004785003269 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 1004785003270 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 1004785003271 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1004785003272 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785003273 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1004785003274 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 1004785003275 DNA binding residues [nucleotide binding] 1004785003276 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1004785003277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003278 active site 1004785003279 phosphorylation site [posttranslational modification] 1004785003280 intermolecular recognition site; other site 1004785003281 dimerization interface [polypeptide binding]; other site 1004785003282 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1004785003283 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1004785003284 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 1004785003285 putative binding surface; other site 1004785003286 active site 1004785003287 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004785003288 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 1004785003289 ATP binding site [chemical binding]; other site 1004785003290 Mg2+ binding site [ion binding]; other site 1004785003291 G-X-G motif; other site 1004785003292 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 1004785003293 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004785003294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003295 active site 1004785003296 phosphorylation site [posttranslational modification] 1004785003297 intermolecular recognition site; other site 1004785003298 dimerization interface [polypeptide binding]; other site 1004785003299 CheB methylesterase; Region: CheB_methylest; pfam01339 1004785003300 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1004785003301 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 1004785003302 Magnesium ion binding site [ion binding]; other site 1004785003303 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 1004785003304 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 1004785003305 putative CheA interaction surface; other site 1004785003306 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1004785003307 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1004785003308 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1004785003309 proposed active site lysine [active] 1004785003310 conserved cys residue [active] 1004785003311 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1004785003312 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1004785003313 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1004785003314 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 1004785003315 substrate binding pocket [chemical binding]; other site 1004785003316 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 1004785003317 B12 binding site [chemical binding]; other site 1004785003318 cobalt ligand [ion binding]; other site 1004785003319 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1004785003320 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1004785003321 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1004785003322 Cache domain; Region: Cache_1; pfam02743 1004785003323 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 1004785003324 dimerization interface [polypeptide binding]; other site 1004785003325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785003326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785003327 dimer interface [polypeptide binding]; other site 1004785003328 putative CheW interface [polypeptide binding]; other site 1004785003329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785003330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785003331 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1004785003332 putative dimerization interface [polypeptide binding]; other site 1004785003333 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1004785003334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785003335 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 1004785003336 dimerization interface [polypeptide binding]; other site 1004785003337 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_cladeB; cd00884 1004785003338 active site clefts [active] 1004785003339 zinc binding site [ion binding]; other site 1004785003340 dimer interface [polypeptide binding]; other site 1004785003341 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1004785003342 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1004785003343 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1004785003344 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 1004785003345 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003346 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 1004785003347 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 1004785003348 transcriptional regulator BetI; Validated; Region: PRK00767 1004785003349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785003350 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1004785003351 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1004785003352 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1004785003353 active site 1004785003354 Zn binding site [ion binding]; other site 1004785003355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1004785003356 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1004785003357 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1004785003358 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1004785003359 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 1004785003360 motif 1; other site 1004785003361 active site 1004785003362 motif 2; other site 1004785003363 motif 3; other site 1004785003364 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1004785003365 DHHA1 domain; Region: DHHA1; pfam02272 1004785003366 carbon storage regulator; Provisional; Region: PRK01712 1004785003367 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 1004785003368 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 1004785003369 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1004785003370 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1004785003371 active site 1004785003372 catalytic residues [active] 1004785003373 metal binding site [ion binding]; metal-binding site 1004785003374 homodimer binding site [polypeptide binding]; other site 1004785003375 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 1004785003376 carboxyltransferase (CT) interaction site; other site 1004785003377 biotinylation site [posttranslational modification]; other site 1004785003378 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1004785003379 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1004785003380 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1004785003381 Walker A/P-loop; other site 1004785003382 ATP binding site [chemical binding]; other site 1004785003383 Q-loop/lid; other site 1004785003384 ABC transporter signature motif; other site 1004785003385 Walker B; other site 1004785003386 D-loop; other site 1004785003387 H-loop/switch region; other site 1004785003388 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1004785003389 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1004785003390 Walker A/P-loop; other site 1004785003391 ATP binding site [chemical binding]; other site 1004785003392 Q-loop/lid; other site 1004785003393 ABC transporter signature motif; other site 1004785003394 Walker B; other site 1004785003395 D-loop; other site 1004785003396 H-loop/switch region; other site 1004785003397 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1004785003398 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1004785003399 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 1004785003400 dimer interface [polypeptide binding]; other site 1004785003401 conserved gate region; other site 1004785003402 putative PBP binding loops; other site 1004785003403 ABC-ATPase subunit interface; other site 1004785003404 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1004785003405 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 1004785003406 dimer interface [polypeptide binding]; other site 1004785003407 conserved gate region; other site 1004785003408 putative PBP binding loops; other site 1004785003409 ABC-ATPase subunit interface; other site 1004785003410 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1004785003411 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1004785003412 peptide binding site [polypeptide binding]; other site 1004785003413 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1004785003414 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 1004785003415 Walker A motif; other site 1004785003416 ATP binding site [chemical binding]; other site 1004785003417 Walker B motif; other site 1004785003418 arginine finger; other site 1004785003419 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004785003420 phage shock protein A; Region: phageshock_pspA; TIGR02977 1004785003421 phage shock protein B; Provisional; Region: pspB; PRK09458 1004785003422 phage shock protein C; Region: phageshock_pspC; TIGR02978 1004785003423 PspC domain; Region: PspC; pfam04024 1004785003424 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 1004785003425 cofactor binding site; other site 1004785003426 metal binding site [ion binding]; metal-binding site 1004785003427 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1004785003428 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1004785003429 putative aromatic amino acid binding site; other site 1004785003430 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 1004785003431 putative active site [active] 1004785003432 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 1004785003433 Walker A motif; other site 1004785003434 ATP binding site [chemical binding]; other site 1004785003435 Walker B motif; other site 1004785003436 arginine finger; other site 1004785003437 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 1004785003438 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1004785003439 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 1004785003440 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1004785003441 C-terminal domain interface [polypeptide binding]; other site 1004785003442 GSH binding site (G-site) [chemical binding]; other site 1004785003443 putative dimer interface [polypeptide binding]; other site 1004785003444 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1004785003445 dimer interface [polypeptide binding]; other site 1004785003446 N-terminal domain interface [polypeptide binding]; other site 1004785003447 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1004785003448 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1004785003449 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1004785003450 putative DNA binding site [nucleotide binding]; other site 1004785003451 putative Zn2+ binding site [ion binding]; other site 1004785003452 AsnC family; Region: AsnC_trans_reg; pfam01037 1004785003453 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1004785003454 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1004785003455 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1004785003456 NAD binding site [chemical binding]; other site 1004785003457 Phe binding site; other site 1004785003458 Late competence development protein ComFB; Region: ComFB; pfam10719 1004785003459 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1004785003460 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004785003461 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003462 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 1004785003463 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1004785003464 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 1004785003465 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003466 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 1004785003467 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1004785003468 Acylphosphatase; Region: Acylphosphatase; cl00551 1004785003469 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1004785003470 TPR repeat; Region: TPR_11; pfam13414 1004785003471 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 1004785003472 TPR motif; other site 1004785003473 binding surface 1004785003474 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785003475 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 1004785003476 binding surface 1004785003477 TPR motif; other site 1004785003478 TPR repeat; Region: TPR_11; pfam13414 1004785003479 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1004785003480 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 1004785003481 TPR motif; other site 1004785003482 binding surface 1004785003483 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 1004785003484 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1004785003485 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004785003486 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004785003487 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004785003488 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004785003489 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004785003490 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785003491 TPR repeat; Region: TPR_11; pfam13414 1004785003492 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 1004785003493 TPR motif; other site 1004785003494 binding surface 1004785003495 TPR repeat; Region: TPR_11; pfam13414 1004785003496 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1004785003497 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1004785003498 Helicase; Region: Helicase_RecD; pfam05127 1004785003499 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1004785003500 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 1004785003501 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003502 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 1004785003503 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1004785003504 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 1004785003505 active site 1004785003506 ATP binding site [chemical binding]; other site 1004785003507 substrate binding site [chemical binding]; other site 1004785003508 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1004785003509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785003510 Coenzyme A binding pocket [chemical binding]; other site 1004785003511 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004785003512 EamA-like transporter family; Region: EamA; pfam00892 1004785003513 EamA-like transporter family; Region: EamA; pfam00892 1004785003514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785003515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785003516 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 1004785003517 dimerization interface [polypeptide binding]; other site 1004785003518 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1004785003519 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 1004785003520 putative substrate translocation pore; other site 1004785003521 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1004785003522 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1004785003523 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 1004785003524 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004785003525 active site 1004785003526 catalytic tetrad [active] 1004785003527 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1004785003528 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004785003529 NAD(P) binding site [chemical binding]; other site 1004785003530 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1004785003531 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1004785003532 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785003533 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785003534 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004785003535 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1004785003536 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 1004785003537 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 1004785003538 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1004785003539 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1004785003540 G1 box; other site 1004785003541 putative GEF interaction site [polypeptide binding]; other site 1004785003542 GTP/Mg2+ binding site [chemical binding]; other site 1004785003543 Switch I region; other site 1004785003544 G2 box; other site 1004785003545 G3 box; other site 1004785003546 Switch II region; other site 1004785003547 G4 box; other site 1004785003548 G5 box; other site 1004785003549 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 1004785003550 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1004785003551 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1004785003552 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1004785003553 active site 1004785003554 HIGH motif; other site 1004785003555 KMSK motif region; other site 1004785003556 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1004785003557 tRNA binding surface [nucleotide binding]; other site 1004785003558 anticodon binding site; other site 1004785003559 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004785003560 Predicted flavoprotein [General function prediction only]; Region: COG0431 1004785003561 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785003562 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1004785003563 PAS fold; Region: PAS_3; pfam08447 1004785003564 PAS domain; Region: PAS_9; pfam13426 1004785003565 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003566 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003567 metal binding site [ion binding]; metal-binding site 1004785003568 active site 1004785003569 I-site; other site 1004785003570 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 1004785003571 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1004785003572 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1004785003573 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 1004785003574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785003575 catalytic residue [active] 1004785003576 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004785003577 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785003578 Two component regulator propeller; Region: Reg_prop; pfam07494 1004785003579 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004785003580 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003581 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003582 metal binding site [ion binding]; metal-binding site 1004785003583 active site 1004785003584 I-site; other site 1004785003585 Protein of unknown function, DUF417; Region: DUF417; cl01162 1004785003586 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 1004785003587 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1004785003588 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1004785003589 putative di-iron ligands [ion binding]; other site 1004785003590 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1004785003591 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1004785003592 FAD binding pocket [chemical binding]; other site 1004785003593 conserved FAD binding motif [chemical binding]; other site 1004785003594 phosphate binding motif [ion binding]; other site 1004785003595 beta-alpha-beta structure motif; other site 1004785003596 NAD binding pocket [chemical binding]; other site 1004785003597 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 1004785003598 catalytic loop [active] 1004785003599 iron binding site [ion binding]; other site 1004785003600 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1004785003601 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1004785003602 RF-1 domain; Region: RF-1; pfam00472 1004785003603 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1004785003604 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 1004785003605 dimer interface [polypeptide binding]; other site 1004785003606 putative anticodon binding site; other site 1004785003607 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 1004785003608 motif 1; other site 1004785003609 active site 1004785003610 motif 2; other site 1004785003611 motif 3; other site 1004785003612 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1004785003613 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1004785003614 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1004785003615 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004785003616 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004785003617 active site 1004785003618 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 1004785003619 putative binding surface; other site 1004785003620 active site 1004785003621 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785003622 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785003623 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785003624 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785003625 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785003626 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785003627 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1004785003628 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 1004785003629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785003630 catalytic residue [active] 1004785003631 hypothetical protein; Provisional; Region: PRK04946 1004785003632 Smr domain; Region: Smr; pfam01713 1004785003633 HemK family putative methylases; Region: hemK_fam; TIGR00536 1004785003634 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 1004785003635 S-adenosylmethionine binding site [chemical binding]; other site 1004785003636 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1004785003637 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1004785003638 Tetramer interface [polypeptide binding]; other site 1004785003639 active site 1004785003640 FMN-binding site [chemical binding]; other site 1004785003641 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 1004785003642 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1004785003643 putative substrate translocation pore; other site 1004785003644 SpoVR family protein; Provisional; Region: PRK11767 1004785003645 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1004785003646 hypothetical protein; Provisional; Region: PRK05325 1004785003647 PrkA family serine protein kinase; Provisional; Region: PRK15455 1004785003648 AAA ATPase domain; Region: AAA_16; pfam13191 1004785003649 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1004785003650 superoxide dismutase; Provisional; Region: PRK10543 1004785003651 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1004785003652 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1004785003653 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 1004785003654 putative GSH binding site [chemical binding]; other site 1004785003655 catalytic residues [active] 1004785003656 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003657 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 1004785003658 N-terminal plug; other site 1004785003659 ligand-binding site [chemical binding]; other site 1004785003660 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004785003661 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785003662 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 1004785003663 DNA binding residues [nucleotide binding] 1004785003664 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1004785003665 FecR protein; Region: FecR; pfam04773 1004785003666 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004785003667 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785003668 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 1004785003669 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 1004785003670 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1004785003671 peroxidase; Provisional; Region: PRK15000 1004785003672 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 1004785003673 dimer interface [polypeptide binding]; other site 1004785003674 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1004785003675 catalytic triad [active] 1004785003676 peroxidatic and resolving cysteines [active] 1004785003677 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1004785003678 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1004785003679 dimer interface [polypeptide binding]; other site 1004785003680 catalytic site [active] 1004785003681 putative active site [active] 1004785003682 putative substrate binding site [chemical binding]; other site 1004785003683 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004785003684 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785003685 ligand binding site [chemical binding]; other site 1004785003686 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1004785003687 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1004785003688 active site 1004785003689 catalytic site [active] 1004785003690 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785003691 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1004785003692 dimer interface [polypeptide binding]; other site 1004785003693 active site 1004785003694 metal binding site [ion binding]; metal-binding site 1004785003695 glutathione binding site [chemical binding]; other site 1004785003696 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004785003697 classical (c) SDRs; Region: SDR_c; cd05233 1004785003698 NAD(P) binding site [chemical binding]; other site 1004785003699 active site 1004785003700 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 1004785003701 DNA-binding site [nucleotide binding]; DNA binding site 1004785003702 RNA-binding motif; other site 1004785003703 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004785003704 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1004785003705 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 1004785003706 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785003707 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1004785003708 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004785003709 metal binding site [ion binding]; metal-binding site 1004785003710 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1004785003711 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1004785003712 minor groove reading motif; other site 1004785003713 helix-hairpin-helix signature motif; other site 1004785003714 substrate binding pocket [chemical binding]; other site 1004785003715 active site 1004785003716 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1004785003717 FMN-binding domain; Region: FMN_bind; cl01081 1004785003718 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1004785003719 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1004785003720 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1004785003721 SLBB domain; Region: SLBB; pfam10531 1004785003722 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 1004785003723 electron transport complex protein RnfB; Provisional; Region: PRK05113 1004785003724 Putative Fe-S cluster; Region: FeS; pfam04060 1004785003725 4Fe-4S binding domain; Region: Fer4; pfam00037 1004785003726 electron transport complex protein RsxA; Provisional; Region: PRK05151 1004785003727 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1004785003728 putative efflux protein, MATE family; Region: matE; TIGR00797 1004785003729 excinuclease ABC subunit B; Provisional; Region: PRK05298 1004785003730 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 1004785003731 ATP binding site [chemical binding]; other site 1004785003732 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 1004785003733 nucleotide binding region [chemical binding]; other site 1004785003734 ATP-binding site [chemical binding]; other site 1004785003735 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1004785003736 UvrB/uvrC motif; Region: UVR; pfam02151 1004785003737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785003738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785003739 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 1004785003740 dimerization interface [polypeptide binding]; other site 1004785003741 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 1004785003742 Ligand Binding Site [chemical binding]; other site 1004785003743 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1004785003744 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1004785003745 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1004785003746 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 1004785003747 active site 1004785003748 dimer interface [polypeptide binding]; other site 1004785003749 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 1004785003750 Ligand Binding Site [chemical binding]; other site 1004785003751 Molecular Tunnel; other site 1004785003752 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004785003753 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 1004785003754 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785003755 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1004785003756 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004785003757 metal binding site [ion binding]; metal-binding site 1004785003758 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1004785003759 Yip1 domain; Region: Yip1; pfam04893 1004785003760 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 1004785003761 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1004785003762 TrkA-C domain; Region: TrkA_C; pfam02080 1004785003763 TrkA-C domain; Region: TrkA_C; pfam02080 1004785003764 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 1004785003765 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1004785003766 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1004785003767 CysD dimerization site [polypeptide binding]; other site 1004785003768 G1 box; other site 1004785003769 putative GEF interaction site [polypeptide binding]; other site 1004785003770 GTP/Mg2+ binding site [chemical binding]; other site 1004785003771 Switch I region; other site 1004785003772 G2 box; other site 1004785003773 G3 box; other site 1004785003774 Switch II region; other site 1004785003775 G4 box; other site 1004785003776 G5 box; other site 1004785003777 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 1004785003778 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 1004785003779 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 1004785003780 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004785003781 active site 1004785003782 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 1004785003783 AAA domain; Region: AAA_18; pfam13238 1004785003784 ligand-binding site [chemical binding]; other site 1004785003785 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1004785003786 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 1004785003787 Active Sites [active] 1004785003788 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1004785003789 Na binding site [ion binding]; other site 1004785003790 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003791 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003792 metal binding site [ion binding]; metal-binding site 1004785003793 active site 1004785003794 I-site; other site 1004785003795 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 1004785003796 RNA polymerase sigma factor; Provisional; Region: PRK12517 1004785003797 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785003798 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 1004785003799 DNA binding residues [nucleotide binding] 1004785003800 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004785003801 Oxygen tolerance; Region: BatD; pfam13584 1004785003802 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1004785003803 metal ion-dependent adhesion site (MIDAS); other site 1004785003804 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1004785003805 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 1004785003806 TPR motif; other site 1004785003807 binding surface 1004785003808 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 1004785003809 metal ion-dependent adhesion site (MIDAS); other site 1004785003810 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1004785003811 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1004785003812 Protein of unknown function DUF58; Region: DUF58; pfam01882 1004785003813 MoxR-like ATPases [General function prediction only]; Region: COG0714 1004785003814 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 1004785003815 Walker A motif; other site 1004785003816 ATP binding site [chemical binding]; other site 1004785003817 Walker B motif; other site 1004785003818 arginine finger; other site 1004785003819 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1004785003820 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 1004785003821 dimer interface [polypeptide binding]; other site 1004785003822 active site 1004785003823 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1004785003824 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 1004785003825 substrate binding site [chemical binding]; other site 1004785003826 oxyanion hole (OAH) forming residues; other site 1004785003827 trimer interface [polypeptide binding]; other site 1004785003828 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004785003829 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004785003830 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785003831 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004785003832 PAS fold; Region: PAS_3; pfam08447 1004785003833 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 1004785003834 PAS domain; Region: PAS_9; pfam13426 1004785003835 putative active site [active] 1004785003836 heme pocket [chemical binding]; other site 1004785003837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003839 metal binding site [ion binding]; metal-binding site 1004785003840 active site 1004785003841 I-site; other site 1004785003842 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 1004785003843 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1004785003844 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785003845 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785003846 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785003847 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 1004785003848 catalytic core [active] 1004785003849 Domain of unknown function DUF21; Region: DUF21; pfam01595 1004785003850 hypothetical protein; Provisional; Region: PRK11573 1004785003851 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 1004785003852 Transporter associated domain; Region: CorC_HlyC; smart01091 1004785003853 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1004785003854 signal recognition particle protein; Provisional; Region: PRK10867 1004785003855 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1004785003856 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 1004785003857 P loop; other site 1004785003858 GTP binding site [chemical binding]; other site 1004785003859 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1004785003860 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1004785003861 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1004785003862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004785003863 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785003864 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785003865 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785003866 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785003867 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1004785003868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785003869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785003870 Walker A/P-loop; other site 1004785003871 ATP binding site [chemical binding]; other site 1004785003872 Q-loop/lid; other site 1004785003873 ABC transporter signature motif; other site 1004785003874 Walker B; other site 1004785003875 D-loop; other site 1004785003876 H-loop/switch region; other site 1004785003877 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1004785003878 catalytic residues [active] 1004785003879 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1004785003880 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1004785003881 RimM N-terminal domain; Region: RimM; pfam01782 1004785003882 PRC-barrel domain; Region: PRC; pfam05239 1004785003883 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1004785003884 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1004785003885 UPF0126 domain; Region: UPF0126; pfam03458 1004785003886 Predicted membrane protein [Function unknown]; Region: COG2860 1004785003887 UPF0126 domain; Region: UPF0126; pfam03458 1004785003888 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1004785003889 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 1004785003890 substrate binding site [chemical binding]; other site 1004785003891 oxyanion hole (OAH) forming residues; other site 1004785003892 trimer interface [polypeptide binding]; other site 1004785003893 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1004785003894 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1004785003895 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1004785003896 Chorismate mutase type II; Region: CM_2; cl00693 1004785003897 prephenate dehydrogenase; Validated; Region: PRK08507 1004785003898 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 1004785003899 inhibitor binding site; inhibition site 1004785003900 catalytic motif [active] 1004785003901 catalytic residue [active] 1004785003902 Active site flap [active] 1004785003903 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1004785003904 active site 1004785003905 SAM binding site [chemical binding]; other site 1004785003906 homodimer interface [polypeptide binding]; other site 1004785003907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004785003908 potential frameshift: common BLAST hit: gi|71280714|ref|YP_267304.1| GGDEF domain-containing protein 1004785003909 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1004785003910 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1004785003911 Prephenate dehydratase; Region: PDT; pfam00800 1004785003912 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 1004785003913 putative L-Phe binding site [chemical binding]; other site 1004785003914 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785003915 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003916 active site 1004785003917 phosphorylation site [posttranslational modification] 1004785003918 intermolecular recognition site; other site 1004785003919 dimerization interface [polypeptide binding]; other site 1004785003920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003921 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785003922 active site 1004785003923 phosphorylation site [posttranslational modification] 1004785003924 intermolecular recognition site; other site 1004785003925 dimerization interface [polypeptide binding]; other site 1004785003926 translation initiation factor Sui1; Validated; Region: PRK06824 1004785003927 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1004785003928 putative rRNA binding site [nucleotide binding]; other site 1004785003929 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 1004785003930 anti sigma factor interaction site; other site 1004785003931 regulatory phosphorylation site [posttranslational modification]; other site 1004785003932 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785003933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003934 active site 1004785003935 phosphorylation site [posttranslational modification] 1004785003936 intermolecular recognition site; other site 1004785003937 dimerization interface [polypeptide binding]; other site 1004785003938 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1004785003939 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1004785003940 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1004785003941 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1004785003942 putative metal binding site [ion binding]; other site 1004785003943 HAMP domain; Region: HAMP; pfam00672 1004785003944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785003945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785003946 metal binding site [ion binding]; metal-binding site 1004785003947 active site 1004785003948 I-site; other site 1004785003949 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 1004785003950 EF-hand domain pair; Region: EF_hand_5; pfam13499 1004785003951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785003952 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 1004785003953 dimer interface [polypeptide binding]; other site 1004785003954 phosphorylation site [posttranslational modification] 1004785003955 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 1004785003956 ATP binding site [chemical binding]; other site 1004785003957 Mg2+ binding site [ion binding]; other site 1004785003958 G-X-G motif; other site 1004785003959 response regulator GlrR; Provisional; Region: PRK15115 1004785003960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785003961 active site 1004785003962 phosphorylation site [posttranslational modification] 1004785003963 intermolecular recognition site; other site 1004785003964 dimerization interface [polypeptide binding]; other site 1004785003965 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 1004785003966 Walker A motif; other site 1004785003967 ATP binding site [chemical binding]; other site 1004785003968 Walker B motif; other site 1004785003969 arginine finger; other site 1004785003970 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004785003971 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785003972 GAF domain; Region: GAF; pfam01590 1004785003973 Protein of unknown function DUF72; Region: DUF72; cl00777 1004785003974 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1004785003975 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 1004785003976 dimer interface [polypeptide binding]; other site 1004785003977 anticodon binding site; other site 1004785003978 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 1004785003979 homodimer interface [polypeptide binding]; other site 1004785003980 motif 1; other site 1004785003981 active site 1004785003982 motif 2; other site 1004785003983 GAD domain; Region: GAD; pfam02938 1004785003984 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 1004785003985 active site 1004785003986 motif 3; other site 1004785003987 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 1004785003988 nudix motif; other site 1004785003989 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 1004785003990 active site 1004785003991 putative DNA-binding cleft [nucleotide binding]; other site 1004785003992 dimer interface [polypeptide binding]; other site 1004785003993 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1004785003994 RuvA N terminal domain; Region: RuvA_N; pfam01330 1004785003995 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1004785003996 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1004785003997 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 1004785003998 Walker A motif; other site 1004785003999 ATP binding site [chemical binding]; other site 1004785004000 Walker B motif; other site 1004785004001 arginine finger; other site 1004785004002 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1004785004003 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 1004785004004 active site 1004785004005 TolQ protein; Region: tolQ; TIGR02796 1004785004006 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004785004007 TolR protein; Region: tolR; TIGR02801 1004785004008 TolA C-terminal; Region: TolA; pfam06519 1004785004009 TolA protein; Region: tolA_full; TIGR02794 1004785004010 translocation protein TolB; Provisional; Region: tolB; PRK04792 1004785004011 TolB amino-terminal domain; Region: TolB_N; pfam04052 1004785004012 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785004013 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785004014 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785004015 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1004785004016 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785004017 ligand binding site [chemical binding]; other site 1004785004018 tol-pal system protein YbgF; Provisional; Region: PRK10803 1004785004019 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 1004785004020 binding surface 1004785004021 TPR motif; other site 1004785004022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1004785004023 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1004785004024 quinolinate synthetase; Provisional; Region: PRK09375 1004785004025 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1004785004026 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1004785004027 active site 1004785004028 nucleophile elbow; other site 1004785004029 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1004785004030 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1004785004031 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1004785004032 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1004785004033 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785004034 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 1004785004035 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1004785004036 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004785004037 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1004785004038 PAS domain; Region: PAS_9; pfam13426 1004785004039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004041 metal binding site [ion binding]; metal-binding site 1004785004042 active site 1004785004043 I-site; other site 1004785004044 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1004785004045 FOG: CBS domain [General function prediction only]; Region: COG0517 1004785004046 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_24; cd04637 1004785004047 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785004048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785004049 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785004050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785004051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785004052 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1004785004053 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1004785004054 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 1004785004055 N-terminal plug; other site 1004785004056 ligand-binding site [chemical binding]; other site 1004785004057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785004058 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785004059 Coenzyme A binding pocket [chemical binding]; other site 1004785004060 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785004061 Protein of unknown function (DUF983); Region: DUF983; cl02211 1004785004062 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785004063 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785004064 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785004065 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004067 metal binding site [ion binding]; metal-binding site 1004785004068 active site 1004785004069 I-site; other site 1004785004070 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1004785004071 paraquat-inducible protein B; Provisional; Region: PRK10807 1004785004072 mce related protein; Region: MCE; pfam02470 1004785004073 mce related protein; Region: MCE; pfam02470 1004785004074 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 1004785004075 Paraquat-inducible protein A; Region: PqiA; pfam04403 1004785004076 Paraquat-inducible protein A; Region: PqiA; pfam04403 1004785004077 Endomembrane protein 70; Region: EMP70; pfam02990 1004785004078 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1004785004079 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 1004785004080 putative dimer interface [polypeptide binding]; other site 1004785004081 putative anticodon binding site; other site 1004785004082 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 1004785004083 homodimer interface [polypeptide binding]; other site 1004785004084 motif 1; other site 1004785004085 motif 2; other site 1004785004086 active site 1004785004087 motif 3; other site 1004785004088 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1004785004089 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004785004090 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004785004091 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1004785004092 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1004785004093 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785004094 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785004095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785004096 Coenzyme A binding pocket [chemical binding]; other site 1004785004097 Peptidase_C39 like family; Region: DUF3335; pfam11814 1004785004098 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1004785004099 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1004785004100 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 1004785004101 inhibitor-cofactor binding pocket; inhibition site 1004785004102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785004103 catalytic residue [active] 1004785004104 biotin synthase; Provisional; Region: PRK15108 1004785004105 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 1004785004106 FeS/SAM binding site; other site 1004785004107 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1004785004108 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1004785004109 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1004785004110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785004111 catalytic residue [active] 1004785004112 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1004785004113 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 1004785004114 S-adenosylmethionine binding site [chemical binding]; other site 1004785004115 AAA domain; Region: AAA_26; pfam13500 1004785004116 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1004785004117 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1004785004118 active site pocket [active] 1004785004119 oxyanion hole [active] 1004785004120 catalytic triad [active] 1004785004121 active site nucleophile [active] 1004785004122 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1004785004123 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1004785004124 active site 1004785004125 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1004785004126 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 1004785004127 ABC-ATPase subunit interface; other site 1004785004128 dimer interface [polypeptide binding]; other site 1004785004129 putative PBP binding regions; other site 1004785004130 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1004785004131 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1004785004132 Walker A/P-loop; other site 1004785004133 ATP binding site [chemical binding]; other site 1004785004134 Q-loop/lid; other site 1004785004135 ABC transporter signature motif; other site 1004785004136 Walker B; other site 1004785004137 D-loop; other site 1004785004138 H-loop/switch region; other site 1004785004139 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1004785004140 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1004785004141 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 1004785004142 dimer interface [polypeptide binding]; other site 1004785004143 phosphorylation site [posttranslational modification] 1004785004144 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 1004785004145 ATP binding site [chemical binding]; other site 1004785004146 Mg2+ binding site [ion binding]; other site 1004785004147 G-X-G motif; other site 1004785004148 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785004149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004150 active site 1004785004151 phosphorylation site [posttranslational modification] 1004785004152 intermolecular recognition site; other site 1004785004153 dimerization interface [polypeptide binding]; other site 1004785004154 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 1004785004155 DNA binding site [nucleotide binding] 1004785004156 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1004785004157 TrkA-N domain; Region: TrkA_N; pfam02254 1004785004158 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1004785004159 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1004785004160 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1004785004161 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785004162 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1004785004163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785004164 Walker A/P-loop; other site 1004785004165 ATP binding site [chemical binding]; other site 1004785004166 Q-loop/lid; other site 1004785004167 ABC transporter signature motif; other site 1004785004168 Walker B; other site 1004785004169 D-loop; other site 1004785004170 H-loop/switch region; other site 1004785004171 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1004785004172 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 1004785004173 FeS/SAM binding site; other site 1004785004174 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1004785004175 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004785004176 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004785004177 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785004178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004179 active site 1004785004180 phosphorylation site [posttranslational modification] 1004785004181 intermolecular recognition site; other site 1004785004182 dimerization interface [polypeptide binding]; other site 1004785004183 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1004785004184 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1004785004185 HIGH motif; other site 1004785004186 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1004785004187 active site 1004785004188 KMSKS motif; other site 1004785004189 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1004785004190 putative active site [active] 1004785004191 Zn binding site [ion binding]; other site 1004785004192 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1004785004193 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1004785004194 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 1004785004195 FMN binding site [chemical binding]; other site 1004785004196 active site 1004785004197 catalytic residues [active] 1004785004198 substrate binding site [chemical binding]; other site 1004785004199 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 1004785004200 active site 1004785004201 catalytic triad [active] 1004785004202 oxyanion hole [active] 1004785004203 switch loop; other site 1004785004204 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1004785004205 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004785004206 Walker A/P-loop; other site 1004785004207 ATP binding site [chemical binding]; other site 1004785004208 Q-loop/lid; other site 1004785004209 ABC transporter signature motif; other site 1004785004210 Walker B; other site 1004785004211 D-loop; other site 1004785004212 H-loop/switch region; other site 1004785004213 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1004785004214 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004785004215 FtsX-like permease family; Region: FtsX; pfam02687 1004785004216 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1004785004217 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1004785004218 putative NAD(P) binding site [chemical binding]; other site 1004785004219 putative active site [active] 1004785004220 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 1004785004221 homooctamer interface [polypeptide binding]; other site 1004785004222 active site 1004785004223 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1004785004224 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1004785004225 sensor protein PhoQ; Provisional; Region: PRK10815 1004785004226 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 1004785004227 ATP binding site [chemical binding]; other site 1004785004228 Mg2+ binding site [ion binding]; other site 1004785004229 G-X-G motif; other site 1004785004230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785004231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004232 active site 1004785004233 phosphorylation site [posttranslational modification] 1004785004234 intermolecular recognition site; other site 1004785004235 dimerization interface [polypeptide binding]; other site 1004785004236 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 1004785004237 DNA binding site [nucleotide binding] 1004785004238 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1004785004239 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1004785004240 YciI-like protein; Reviewed; Region: PRK11370 1004785004241 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1004785004242 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 1004785004243 substrate binding site [chemical binding]; other site 1004785004244 active site 1004785004245 catalytic residues [active] 1004785004246 heterodimer interface [polypeptide binding]; other site 1004785004247 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1004785004248 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 1004785004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785004250 catalytic residue [active] 1004785004251 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1004785004252 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 1004785004253 active site 1004785004254 ribulose/triose binding site [chemical binding]; other site 1004785004255 phosphate binding site [ion binding]; other site 1004785004256 substrate (anthranilate) binding pocket [chemical binding]; other site 1004785004257 product (indole) binding pocket [chemical binding]; other site 1004785004258 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 1004785004259 active site 1004785004260 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1004785004261 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1004785004262 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1004785004263 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1004785004264 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1004785004265 glutamine binding [chemical binding]; other site 1004785004266 catalytic triad [active] 1004785004267 anthranilate synthase component I; Provisional; Region: PRK13564 1004785004268 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1004785004269 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1004785004270 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1004785004271 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1004785004272 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1004785004273 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1004785004274 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1004785004275 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1004785004276 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1004785004277 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 1004785004278 RNA binding surface [nucleotide binding]; other site 1004785004279 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1004785004280 probable active site [active] 1004785004281 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 1004785004282 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004785004283 active site 1004785004284 catalytic tetrad [active] 1004785004285 maltose O-acetyltransferase; Provisional; Region: PRK10092 1004785004286 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 1004785004287 active site 1004785004288 substrate binding site [chemical binding]; other site 1004785004289 trimer interface [polypeptide binding]; other site 1004785004290 CoA binding site [chemical binding]; other site 1004785004291 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1004785004292 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1004785004293 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1004785004294 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1004785004295 recombination and repair protein; Provisional; Region: PRK10869 1004785004296 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1004785004297 Walker A/P-loop; other site 1004785004298 ATP binding site [chemical binding]; other site 1004785004299 Q-loop/lid; other site 1004785004300 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1004785004301 ABC transporter signature motif; other site 1004785004302 Walker B; other site 1004785004303 D-loop; other site 1004785004304 H-loop/switch region; other site 1004785004305 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1004785004306 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1004785004307 dimerization interface [polypeptide binding]; other site 1004785004308 DPS ferroxidase diiron center [ion binding]; other site 1004785004309 ion pore; other site 1004785004310 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1004785004311 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1004785004312 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1004785004313 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1004785004314 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1004785004315 putative active site [active] 1004785004316 metal binding site [ion binding]; metal-binding site 1004785004317 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1004785004318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785004319 NAD(P) binding site [chemical binding]; other site 1004785004320 active site 1004785004321 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1004785004322 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1004785004323 homoserine O-acetyltransferase; Provisional; Region: PRK06765 1004785004324 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1004785004325 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1004785004326 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785004327 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 1004785004328 N-terminal plug; other site 1004785004329 ligand-binding site [chemical binding]; other site 1004785004330 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785004331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004332 active site 1004785004333 phosphorylation site [posttranslational modification] 1004785004334 intermolecular recognition site; other site 1004785004335 dimerization interface [polypeptide binding]; other site 1004785004336 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 1004785004337 DNA binding residues [nucleotide binding] 1004785004338 dimerization interface [polypeptide binding]; other site 1004785004339 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 1004785004340 inhibitor binding site; inhibition site 1004785004341 catalytic motif [active] 1004785004342 Catalytic residue [active] 1004785004343 Active site flap [active] 1004785004344 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004785004345 catalytic motif [active] 1004785004346 Catalytic residue [active] 1004785004347 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1004785004348 Na binding site [ion binding]; other site 1004785004349 PAS fold; Region: PAS_7; pfam12860 1004785004350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785004351 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 1004785004352 dimer interface [polypeptide binding]; other site 1004785004353 phosphorylation site [posttranslational modification] 1004785004354 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 1004785004355 ATP binding site [chemical binding]; other site 1004785004356 Mg2+ binding site [ion binding]; other site 1004785004357 G-X-G motif; other site 1004785004358 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785004359 GrpE; Region: GrpE; pfam01025 1004785004360 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 1004785004361 dimer interface [polypeptide binding]; other site 1004785004362 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1004785004363 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1004785004364 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004785004365 nucleotide binding site [chemical binding]; other site 1004785004366 chaperone protein DnaJ; Provisional; Region: PRK10767 1004785004367 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 1004785004368 HSP70 interaction site [polypeptide binding]; other site 1004785004369 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1004785004370 substrate binding site [polypeptide binding]; other site 1004785004371 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1004785004372 Zn binding sites [ion binding]; other site 1004785004373 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1004785004374 dimer interface [polypeptide binding]; other site 1004785004375 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1004785004376 PAS domain; Region: PAS_9; pfam13426 1004785004377 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 1004785004378 putative active site [active] 1004785004379 heme pocket [chemical binding]; other site 1004785004380 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1004785004381 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 1004785004382 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1004785004383 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004785004384 acyl-activating enzyme (AAE) consensus motif; other site 1004785004385 AMP binding site [chemical binding]; other site 1004785004386 active site 1004785004387 CoA binding site [chemical binding]; other site 1004785004388 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 1004785004389 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1004785004390 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1004785004391 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1004785004392 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1004785004393 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1004785004394 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1004785004395 catalytic site [active] 1004785004396 subunit interface [polypeptide binding]; other site 1004785004397 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1004785004398 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004785004399 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1004785004400 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1004785004401 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004785004402 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785004403 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 1004785004404 IMP binding site; other site 1004785004405 dimer interface [polypeptide binding]; other site 1004785004406 interdomain contacts; other site 1004785004407 partial ornithine binding site; other site 1004785004408 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1004785004409 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1004785004410 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1004785004411 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1004785004412 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 1004785004413 dimer interface [polypeptide binding]; other site 1004785004414 ADP-ribose binding site [chemical binding]; other site 1004785004415 active site 1004785004416 nudix motif; other site 1004785004417 metal binding site [ion binding]; metal-binding site 1004785004418 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 1004785004419 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1004785004420 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 1004785004421 putative dimer interface [polypeptide binding]; other site 1004785004422 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1004785004423 propionate/acetate kinase; Provisional; Region: PRK12379 1004785004424 phosphate acetyltransferase; Reviewed; Region: PRK05632 1004785004425 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 1004785004426 DRTGG domain; Region: DRTGG; pfam07085 1004785004427 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1004785004428 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004785004429 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 1004785004430 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 1004785004431 active site 1004785004432 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1004785004433 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1004785004434 putative active site [active] 1004785004435 catalytic triad [active] 1004785004436 putative dimer interface [polypeptide binding]; other site 1004785004437 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1004785004438 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 1004785004439 Transporter associated domain; Region: CorC_HlyC; smart01091 1004785004440 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1004785004441 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1004785004442 PhoH-like protein; Region: PhoH; pfam02562 1004785004443 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1004785004444 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1004785004445 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 1004785004446 FeS/SAM binding site; other site 1004785004447 TRAM domain; Region: TRAM; pfam01938 1004785004448 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 1004785004449 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004785004450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785004451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785004452 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1004785004453 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785004454 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 1004785004455 N-terminal plug; other site 1004785004456 ligand-binding site [chemical binding]; other site 1004785004457 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 1004785004458 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1004785004459 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1004785004460 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004785004461 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004785004462 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004785004463 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1004785004464 potential protein location (hypothetical protein AMBLS11_06840 [Alteromonas macleodii str. 'Black Sea 11']) that overlaps RNA (tRNA-Q) 1004785004465 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 1004785004466 active site 1004785004467 GTP-binding protein YchF; Reviewed; Region: PRK09601 1004785004468 YchF GTPase; Region: YchF; cd01900 1004785004469 G1 box; other site 1004785004470 GTP/Mg2+ binding site [chemical binding]; other site 1004785004471 Switch I region; other site 1004785004472 G2 box; other site 1004785004473 Switch II region; other site 1004785004474 G3 box; other site 1004785004475 G4 box; other site 1004785004476 G5 box; other site 1004785004477 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 1004785004478 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 1004785004479 putative active site [active] 1004785004480 catalytic residue [active] 1004785004481 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1004785004482 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1004785004483 5S rRNA interface [nucleotide binding]; other site 1004785004484 CTC domain interface [polypeptide binding]; other site 1004785004485 L16 interface [polypeptide binding]; other site 1004785004486 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1004785004487 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1004785004488 putative NAD(P) binding site [chemical binding]; other site 1004785004489 putative substrate binding site [chemical binding]; other site 1004785004490 catalytic Zn binding site [ion binding]; other site 1004785004491 structural Zn binding site [ion binding]; other site 1004785004492 dimer interface [polypeptide binding]; other site 1004785004493 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1004785004494 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1004785004495 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785004496 active site 1004785004497 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1004785004498 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004785004499 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1004785004500 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1004785004501 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1004785004502 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1004785004503 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1004785004504 tRNA; other site 1004785004505 putative tRNA binding site [nucleotide binding]; other site 1004785004506 putative NADP binding site [chemical binding]; other site 1004785004507 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1004785004508 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1004785004509 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1004785004510 RF-1 domain; Region: RF-1; pfam00472 1004785004511 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1004785004512 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 1004785004513 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785004514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004515 active site 1004785004516 phosphorylation site [posttranslational modification] 1004785004517 intermolecular recognition site; other site 1004785004518 dimerization interface [polypeptide binding]; other site 1004785004519 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004785004520 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785004521 Zn2+ binding site [ion binding]; other site 1004785004522 Mg2+ binding site [ion binding]; other site 1004785004523 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1004785004524 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1004785004525 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1004785004526 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1004785004527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785004528 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 1004785004529 dimerization interface [polypeptide binding]; other site 1004785004530 substrate binding pocket [chemical binding]; other site 1004785004531 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1004785004532 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1004785004533 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1004785004534 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1004785004535 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1004785004536 elongation factor G; Reviewed; Region: PRK00007 1004785004537 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1004785004538 G1 box; other site 1004785004539 putative GEF interaction site [polypeptide binding]; other site 1004785004540 GTP/Mg2+ binding site [chemical binding]; other site 1004785004541 Switch I region; other site 1004785004542 G2 box; other site 1004785004543 G3 box; other site 1004785004544 Switch II region; other site 1004785004545 G4 box; other site 1004785004546 G5 box; other site 1004785004547 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 1004785004548 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 1004785004549 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 1004785004550 cyanate hydratase; Validated; Region: PRK02866 1004785004551 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1004785004552 oligomer interface [polypeptide binding]; other site 1004785004553 active site 1004785004554 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1004785004555 active site 1004785004556 Protein kinase domain; Region: Pkinase; pfam00069 1004785004557 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1004785004558 active site 1004785004559 ATP binding site [chemical binding]; other site 1004785004560 substrate binding site [chemical binding]; other site 1004785004561 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1004785004562 substrate binding site [chemical binding]; other site 1004785004563 activation loop (A-loop); other site 1004785004564 activation loop (A-loop); other site 1004785004565 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1004785004566 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1004785004567 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004785004568 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004785004569 Protein of unknown function DUF58; Region: DUF58; pfam01882 1004785004570 MoxR-like ATPases [General function prediction only]; Region: COG0714 1004785004571 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 1004785004572 Walker A motif; other site 1004785004573 ATP binding site [chemical binding]; other site 1004785004574 Walker B motif; other site 1004785004575 arginine finger; other site 1004785004576 SeqA protein; Region: SeqA; cl11470 1004785004577 SeqA protein; Region: SeqA; cl11470 1004785004578 phosphoglucomutase; Validated; Region: PRK07564 1004785004579 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 1004785004580 active site 1004785004581 substrate binding site [chemical binding]; other site 1004785004582 metal binding site [ion binding]; metal-binding site 1004785004583 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 1004785004584 homodimer interface [polypeptide binding]; other site 1004785004585 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1004785004586 active site pocket [active] 1004785004587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004588 metal binding site [ion binding]; metal-binding site 1004785004589 active site 1004785004590 I-site; other site 1004785004591 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 1004785004592 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1004785004593 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004785004594 putative active site [active] 1004785004595 Zn binding site [ion binding]; other site 1004785004596 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1004785004597 nucleotide binding site/active site [active] 1004785004598 HIT family signature motif; other site 1004785004599 catalytic residue [active] 1004785004600 hypothetical protein; Provisional; Region: PRK02877 1004785004601 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004785004602 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785004603 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004785004604 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1004785004605 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1004785004606 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1004785004607 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1004785004608 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1004785004609 metal binding site [ion binding]; metal-binding site 1004785004610 dimer interface [polypeptide binding]; other site 1004785004611 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 1004785004612 ArsC family; Region: ArsC; pfam03960 1004785004613 putative catalytic residues [active] 1004785004614 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1004785004615 HPr interaction site; other site 1004785004616 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1004785004617 active site 1004785004618 phosphorylation site [posttranslational modification] 1004785004619 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1004785004620 Family description; Region: ACT_7; pfam13840 1004785004621 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 1004785004622 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785004623 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1004785004624 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1004785004625 dimer interface [polypeptide binding]; other site 1004785004626 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1004785004627 active site 1004785004628 Fe binding site [ion binding]; other site 1004785004629 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1004785004630 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004785004631 MarR family; Region: MarR_2; pfam12802 1004785004632 PAS domain; Region: PAS_9; pfam13426 1004785004633 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 1004785004634 putative active site [active] 1004785004635 heme pocket [chemical binding]; other site 1004785004636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004638 metal binding site [ion binding]; metal-binding site 1004785004639 active site 1004785004640 I-site; other site 1004785004641 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 1004785004642 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004644 metal binding site [ion binding]; metal-binding site 1004785004645 active site 1004785004646 I-site; other site 1004785004647 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 1004785004648 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785004649 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785004650 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785004651 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785004652 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1004785004653 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1004785004654 TrkA-N domain; Region: TrkA_N; pfam02254 1004785004655 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785004656 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1004785004657 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004785004658 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1004785004659 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1004785004660 PAS domain S-box; Region: sensory_box; TIGR00229 1004785004661 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 1004785004662 putative active site [active] 1004785004663 heme pocket [chemical binding]; other site 1004785004664 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 1004785004665 PAS fold; Region: PAS_3; pfam08447 1004785004666 putative active site [active] 1004785004667 heme pocket [chemical binding]; other site 1004785004668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004670 metal binding site [ion binding]; metal-binding site 1004785004671 active site 1004785004672 I-site; other site 1004785004673 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1004785004674 Predicted membrane protein [Function unknown]; Region: COG3748 1004785004675 Cytochrome c; Region: Cytochrom_C; pfam00034 1004785004676 guanine deaminase; Provisional; Region: PRK09228 1004785004677 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 1004785004678 active site 1004785004679 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1004785004680 active site 1004785004681 homotetramer interface [polypeptide binding]; other site 1004785004682 putative OHCU decarboxylase; Provisional; Region: PRK13798 1004785004683 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1004785004684 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1004785004685 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1004785004686 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1004785004687 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004785004688 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004785004689 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1004785004690 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 1004785004691 catalytic loop [active] 1004785004692 iron binding site [ion binding]; other site 1004785004693 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004785004694 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1004785004695 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1004785004696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785004697 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1004785004698 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1004785004699 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1004785004700 active site 1004785004701 catalytic site [active] 1004785004702 tetramer interface [polypeptide binding]; other site 1004785004703 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1004785004704 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1004785004705 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1004785004706 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 1004785004707 active site 1004785004708 purine riboside binding site [chemical binding]; other site 1004785004709 Hpt domain; Region: Hpt; pfam01627 1004785004710 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785004711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004712 active site 1004785004713 phosphorylation site [posttranslational modification] 1004785004714 intermolecular recognition site; other site 1004785004715 dimerization interface [polypeptide binding]; other site 1004785004716 PAS fold; Region: PAS; pfam00989 1004785004717 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 1004785004718 putative active site [active] 1004785004719 heme pocket [chemical binding]; other site 1004785004720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004722 metal binding site [ion binding]; metal-binding site 1004785004723 active site 1004785004724 I-site; other site 1004785004725 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 1004785004726 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785004727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004728 active site 1004785004729 phosphorylation site [posttranslational modification] 1004785004730 intermolecular recognition site; other site 1004785004731 dimerization interface [polypeptide binding]; other site 1004785004732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004734 metal binding site [ion binding]; metal-binding site 1004785004735 active site 1004785004736 I-site; other site 1004785004737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785004738 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 1004785004739 dimer interface [polypeptide binding]; other site 1004785004740 phosphorylation site [posttranslational modification] 1004785004741 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 1004785004742 ATP binding site [chemical binding]; other site 1004785004743 Mg2+ binding site [ion binding]; other site 1004785004744 G-X-G motif; other site 1004785004745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785004746 active site 1004785004747 phosphorylation site [posttranslational modification] 1004785004748 intermolecular recognition site; other site 1004785004749 dimerization interface [polypeptide binding]; other site 1004785004750 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1004785004751 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785004752 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 1004785004753 xanthine permease; Region: pbuX; TIGR03173 1004785004754 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 1004785004755 active site 1004785004756 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1004785004757 allantoate amidohydrolase; Reviewed; Region: PRK09290 1004785004758 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1004785004759 active site 1004785004760 metal binding site [ion binding]; metal-binding site 1004785004761 dimer interface [polypeptide binding]; other site 1004785004762 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1004785004763 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785004764 catalytic residue [active] 1004785004765 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004785004766 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1004785004767 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004785004768 indole-3-acetamide amidohydrolase; Region: PLN02722 1004785004769 Amidase; Region: Amidase; cl11426 1004785004770 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1004785004771 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1004785004772 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 1004785004773 putative active site [active] 1004785004774 CAAX protease self-immunity; Region: Abi; pfam02517 1004785004775 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785004776 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785004777 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1004785004778 pteridine reductase; Provisional; Region: PRK09135 1004785004779 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1004785004780 NADP binding site [chemical binding]; other site 1004785004781 substrate binding pocket [chemical binding]; other site 1004785004782 active site 1004785004783 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 1004785004784 Phosphotransferase enzyme family; Region: APH; pfam01636 1004785004785 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1004785004786 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 1004785004787 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1004785004788 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 1004785004789 active site 1004785004790 dimer interface [polypeptide binding]; other site 1004785004791 motif 1; other site 1004785004792 motif 2; other site 1004785004793 motif 3; other site 1004785004794 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 1004785004795 anticodon binding site; other site 1004785004796 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1004785004797 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1004785004798 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1004785004799 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1004785004800 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1004785004801 23S rRNA binding site [nucleotide binding]; other site 1004785004802 L21 binding site [polypeptide binding]; other site 1004785004803 L13 binding site [polypeptide binding]; other site 1004785004804 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1004785004805 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1004785004806 Substrate binding site; other site 1004785004807 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1004785004808 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1004785004809 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 1004785004810 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1004785004811 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1004785004812 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004785004813 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1004785004814 SLBB domain; Region: SLBB; pfam10531 1004785004815 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1004785004816 Chain length determinant protein; Region: Wzz; pfam02706 1004785004817 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1004785004818 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1004785004819 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 1004785004820 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 1004785004821 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1004785004822 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 1004785004823 TPR motif; other site 1004785004824 binding surface 1004785004825 O-Antigen ligase; Region: Wzy_C; pfam04932 1004785004826 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785004827 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785004828 metal binding site [ion binding]; metal-binding site 1004785004829 active site 1004785004830 I-site; other site 1004785004831 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 1004785004832 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1004785004833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785004834 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1004785004835 putative ADP-binding pocket [chemical binding]; other site 1004785004836 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785004837 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 1004785004838 potential frameshift: common BLAST hit: gi|332141036|ref|YP_004426774.1| glycosyl transferase family protein 1004785004839 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 1004785004840 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004785004841 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 1004785004842 active site 1004785004843 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1004785004844 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1004785004845 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004785004846 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 1004785004847 active site 1004785004848 Right handed beta helix region; Region: Beta_helix; pfam13229 1004785004849 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785004850 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 1004785004851 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785004852 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 1004785004853 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785004854 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1004785004855 putative ADP-binding pocket [chemical binding]; other site 1004785004856 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785004857 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 1004785004858 active site 1004785004859 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1004785004860 Bacitracin resistance protein BacA; Region: BacA; cl00858 1004785004861 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1004785004862 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004785004863 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 1004785004864 S-adenosylmethionine binding site [chemical binding]; other site 1004785004865 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1004785004866 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1004785004867 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 1004785004868 dimer interface [polypeptide binding]; other site 1004785004869 motif 1; other site 1004785004870 active site 1004785004871 motif 2; other site 1004785004872 motif 3; other site 1004785004873 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1004785004874 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 1004785004875 putative tRNA-binding site [nucleotide binding]; other site 1004785004876 B3/4 domain; Region: B3_4; pfam03483 1004785004877 tRNA synthetase B5 domain; Region: B5; smart00874 1004785004878 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 1004785004879 dimer interface [polypeptide binding]; other site 1004785004880 motif 1; other site 1004785004881 motif 3; other site 1004785004882 motif 2; other site 1004785004883 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1004785004884 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 1004785004885 IHF dimer interface [polypeptide binding]; other site 1004785004886 IHF - DNA interface [nucleotide binding]; other site 1004785004887 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 1004785004888 putative deacylase active site [active] 1004785004889 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1004785004890 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 1004785004891 active site 1004785004892 beta-hexosaminidase; Provisional; Region: PRK05337 1004785004893 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004785004894 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1004785004895 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004785004896 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004785004897 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004785004898 transcription-repair coupling factor; Provisional; Region: PRK10689 1004785004899 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1004785004900 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 1004785004901 ATP binding site [chemical binding]; other site 1004785004902 putative Mg++ binding site [ion binding]; other site 1004785004903 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 1004785004904 nucleotide binding region [chemical binding]; other site 1004785004905 ATP-binding site [chemical binding]; other site 1004785004906 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1004785004907 PilZ domain; Region: PilZ; pfam07238 1004785004908 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1004785004909 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004785004910 FtsX-like permease family; Region: FtsX; pfam02687 1004785004911 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785004912 active site 1004785004913 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 1004785004914 dimer interface [polypeptide binding]; other site 1004785004915 phosphorylation site [posttranslational modification] 1004785004916 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 1004785004917 ATP binding site [chemical binding]; other site 1004785004918 Mg2+ binding site [ion binding]; other site 1004785004919 G-X-G motif; other site 1004785004920 FIST N domain; Region: FIST; pfam08495 1004785004921 FIST C domain; Region: FIST_C; pfam10442 1004785004922 Predicted membrane protein [Function unknown]; Region: COG3235 1004785004923 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1004785004924 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1004785004925 putative catalytic site [active] 1004785004926 putative phosphate binding site [ion binding]; other site 1004785004927 active site 1004785004928 metal binding site A [ion binding]; metal-binding site 1004785004929 DNA binding site [nucleotide binding] 1004785004930 putative AP binding site [nucleotide binding]; other site 1004785004931 putative metal binding site B [ion binding]; other site 1004785004932 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1004785004933 Fe-S metabolism associated domain; Region: SufE; cl00951 1004785004934 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1004785004935 HDOD domain; Region: HDOD; pfam08668 1004785004936 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1004785004937 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 1004785004938 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1004785004939 active site 1004785004940 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 1004785004941 active site 2 [active] 1004785004942 active site 1 [active] 1004785004943 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 1004785004944 D-galactonate transporter; Region: 2A0114; TIGR00893 1004785004945 putative substrate translocation pore; other site 1004785004946 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1004785004947 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1004785004948 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1004785004949 ligand binding site; other site 1004785004950 oligomer interface; other site 1004785004951 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 1004785004952 dimer interface [polypeptide binding]; other site 1004785004953 N-terminal domain interface [polypeptide binding]; other site 1004785004954 sulfate 1 binding site; other site 1004785004955 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1004785004956 putative hydrophobic ligand binding site [chemical binding]; other site 1004785004957 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1004785004958 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1004785004959 active site 1004785004960 catalytic residues [active] 1004785004961 metal binding site [ion binding]; metal-binding site 1004785004962 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1004785004963 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004785004964 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785004965 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1004785004966 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 1004785004967 carboxyltransferase (CT) interaction site; other site 1004785004968 biotinylation site [posttranslational modification]; other site 1004785004969 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 1004785004970 enoyl-CoA hydratase; Provisional; Region: PRK05995 1004785004971 substrate binding site [chemical binding]; other site 1004785004972 oxyanion hole (OAH) forming residues; other site 1004785004973 trimer interface [polypeptide binding]; other site 1004785004974 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1004785004975 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1004785004976 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1004785004977 isovaleryl-CoA dehydrogenase; Region: PLN02519 1004785004978 substrate binding site [chemical binding]; other site 1004785004979 FAD binding site [chemical binding]; other site 1004785004980 catalytic base [active] 1004785004981 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1004785004982 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1004785004983 DNA binding residues [nucleotide binding] 1004785004984 putative dimer interface [polypeptide binding]; other site 1004785004985 putative acyltransferase; Provisional; Region: PRK05790 1004785004986 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 1004785004987 dimer interface [polypeptide binding]; other site 1004785004988 active site 1004785004989 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785004990 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785004991 kynureninase; Region: kynureninase; TIGR01814 1004785004992 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 1004785004993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785004994 catalytic residue [active] 1004785004995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785004996 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 1004785004997 substrate binding pocket [chemical binding]; other site 1004785004998 membrane-bound complex binding site; other site 1004785004999 hinge residues; other site 1004785005000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785005001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005002 metal binding site [ion binding]; metal-binding site 1004785005003 active site 1004785005004 I-site; other site 1004785005005 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1004785005006 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1004785005007 exonuclease I; Provisional; Region: sbcB; PRK11779 1004785005008 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1004785005009 active site 1004785005010 catalytic site [active] 1004785005011 substrate binding site [chemical binding]; other site 1004785005012 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1004785005013 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1004785005014 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 1004785005015 putative active site [active] 1004785005016 heme pocket [chemical binding]; other site 1004785005017 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 1004785005018 dimer interface [polypeptide binding]; other site 1004785005019 phosphorylation site [posttranslational modification] 1004785005020 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 1004785005021 ATP binding site [chemical binding]; other site 1004785005022 Mg2+ binding site [ion binding]; other site 1004785005023 G-X-G motif; other site 1004785005024 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785005025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005026 active site 1004785005027 phosphorylation site [posttranslational modification] 1004785005028 intermolecular recognition site; other site 1004785005029 dimerization interface [polypeptide binding]; other site 1004785005030 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1004785005031 catalytic nucleophile [active] 1004785005032 FOG: CBS domain [General function prediction only]; Region: COG0517 1004785005033 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 1004785005034 Phytase; Region: Phytase; cl17685 1004785005035 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004785005036 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785005037 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 1004785005038 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 1004785005039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785005040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005041 metal binding site [ion binding]; metal-binding site 1004785005042 active site 1004785005043 I-site; other site 1004785005044 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1004785005045 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785005046 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1004785005047 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1004785005048 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 1004785005049 ATP binding site [chemical binding]; other site 1004785005050 putative Mg++ binding site [ion binding]; other site 1004785005051 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 1004785005052 nucleotide binding region [chemical binding]; other site 1004785005053 ATP-binding site [chemical binding]; other site 1004785005054 Helicase associated domain (HA2); Region: HA2; pfam04408 1004785005055 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1004785005056 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1004785005057 PilZ domain; Region: PilZ; pfam07238 1004785005058 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1004785005059 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1004785005060 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1004785005061 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1004785005062 putative RNA binding site [nucleotide binding]; other site 1004785005063 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 1004785005064 S-adenosylmethionine binding site [chemical binding]; other site 1004785005065 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1004785005066 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1004785005067 NAD(P) binding site [chemical binding]; other site 1004785005068 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1004785005069 RNA/DNA hybrid binding site [nucleotide binding]; other site 1004785005070 active site 1004785005071 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1004785005072 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 1004785005073 active site 1004785005074 catalytic site [active] 1004785005075 substrate binding site [chemical binding]; other site 1004785005076 TIGR03503 family protein; Region: TIGR03503 1004785005077 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1004785005078 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1004785005079 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 1004785005080 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1004785005081 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004785005082 Walker A/P-loop; other site 1004785005083 ATP binding site [chemical binding]; other site 1004785005084 Q-loop/lid; other site 1004785005085 ABC transporter signature motif; other site 1004785005086 Walker B; other site 1004785005087 D-loop; other site 1004785005088 H-loop/switch region; other site 1004785005089 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1004785005090 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004785005091 FtsX-like permease family; Region: FtsX; pfam02687 1004785005092 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004785005093 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1004785005094 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1004785005095 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1004785005096 succinylarginine dihydrolase; Provisional; Region: PRK13281 1004785005097 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1004785005098 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 1004785005099 active site 1004785005100 interdomain interaction site; other site 1004785005101 putative metal-binding site [ion binding]; other site 1004785005102 nucleotide binding site [chemical binding]; other site 1004785005103 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 1004785005104 domain I; other site 1004785005105 DNA binding groove [nucleotide binding] 1004785005106 phosphate binding site [ion binding]; other site 1004785005107 domain II; other site 1004785005108 domain III; other site 1004785005109 nucleotide binding site [chemical binding]; other site 1004785005110 catalytic site [active] 1004785005111 domain IV; other site 1004785005112 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004785005113 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004785005114 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1004785005115 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1004785005116 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1004785005117 Leishmanolysin; Region: Peptidase_M8; pfam01457 1004785005118 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785005119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785005120 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 1004785005121 dimerization interface [polypeptide binding]; other site 1004785005122 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1004785005123 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1004785005124 GTP binding site; other site 1004785005125 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1004785005126 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1004785005127 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1004785005128 putative molybdopterin cofactor binding site [chemical binding]; other site 1004785005129 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1004785005130 putative molybdopterin cofactor binding site; other site 1004785005131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785005132 Coenzyme A binding pocket [chemical binding]; other site 1004785005133 Ecdysteroid kinase; Region: EcKinase; cl17738 1004785005134 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1004785005135 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 1004785005136 homodimer interface [polypeptide binding]; other site 1004785005137 oligonucleotide binding site [chemical binding]; other site 1004785005138 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1004785005139 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 1004785005140 RNA binding surface [nucleotide binding]; other site 1004785005141 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004785005142 active site 1004785005143 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1004785005144 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 1004785005145 motif II; other site 1004785005146 Maf-like protein; Region: Maf; pfam02545 1004785005147 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 1004785005148 active site 1004785005149 dimer interface [polypeptide binding]; other site 1004785005150 hypothetical protein; Provisional; Region: PRK11193 1004785005151 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1004785005152 putative phosphate acyltransferase; Provisional; Region: PRK05331 1004785005153 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1004785005154 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 1004785005155 dimer interface [polypeptide binding]; other site 1004785005156 active site 1004785005157 CoA binding pocket [chemical binding]; other site 1004785005158 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1004785005159 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1004785005160 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004785005161 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1004785005162 NAD(P) binding site [chemical binding]; other site 1004785005163 homotetramer interface [polypeptide binding]; other site 1004785005164 homodimer interface [polypeptide binding]; other site 1004785005165 active site 1004785005166 acyl carrier protein; Provisional; Region: acpP; PRK00982 1004785005167 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1004785005168 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 1004785005169 dimer interface [polypeptide binding]; other site 1004785005170 active site 1004785005171 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1004785005172 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 1004785005173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785005174 catalytic residue [active] 1004785005175 YceG-like family; Region: YceG; pfam02618 1004785005176 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1004785005177 dimerization interface [polypeptide binding]; other site 1004785005178 thymidylate kinase; Validated; Region: tmk; PRK00698 1004785005179 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 1004785005180 TMP-binding site; other site 1004785005181 ATP-binding site [chemical binding]; other site 1004785005182 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1004785005183 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 1004785005184 Walker A motif; other site 1004785005185 ATP binding site [chemical binding]; other site 1004785005186 Walker B motif; other site 1004785005187 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1004785005188 arginine finger; other site 1004785005189 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004785005190 active site 1004785005191 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1004785005192 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 1004785005193 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1004785005194 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1004785005195 NAD(P) binding site [chemical binding]; other site 1004785005196 putative active site [active] 1004785005197 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785005198 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004785005199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785005200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005201 metal binding site [ion binding]; metal-binding site 1004785005202 active site 1004785005203 I-site; other site 1004785005204 Homeodomain-like domain; Region: HTH_23; cl17451 1004785005205 HTH-like domain; Region: HTH_21; pfam13276 1004785005206 Integrase core domain; Region: rve; pfam00665 1004785005207 Integrase core domain; Region: rve_2; pfam13333 1004785005208 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 1004785005209 active site 1004785005210 Zn binding site [ion binding]; other site 1004785005211 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1004785005212 classical (c) SDRs; Region: SDR_c; cd05233 1004785005213 NAD(P) binding site [chemical binding]; other site 1004785005214 active site 1004785005215 haloalkane dehalogenase; Provisional; Region: PRK00870 1004785005216 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 1004785005217 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1004785005218 substrate binding site [chemical binding]; other site 1004785005219 oxyanion hole (OAH) forming residues; other site 1004785005220 trimer interface [polypeptide binding]; other site 1004785005221 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004785005222 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004785005223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004785005224 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1004785005225 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 1004785005226 dimer interface [polypeptide binding]; other site 1004785005227 active site 1004785005228 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004785005229 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004785005230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785005231 active site 1004785005232 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004785005233 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004785005234 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004785005235 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1004785005236 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1004785005237 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1004785005238 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 1004785005239 motif II; other site 1004785005240 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1004785005241 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1004785005242 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1004785005243 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1004785005244 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004785005245 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004785005246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785005247 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 1004785005248 substrate binding pocket [chemical binding]; other site 1004785005249 dimerization interface [polypeptide binding]; other site 1004785005250 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 1004785005251 active site 2 [active] 1004785005252 active site 1 [active] 1004785005253 Entericidin EcnA/B family; Region: Entericidin; cl02322 1004785005254 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785005255 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785005256 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785005257 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 1004785005258 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 1004785005259 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 1004785005260 aromatic arch; other site 1004785005261 DCoH dimer interaction site [polypeptide binding]; other site 1004785005262 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1004785005263 DCoH tetramer interaction site [polypeptide binding]; other site 1004785005264 substrate binding site [chemical binding]; other site 1004785005265 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1004785005266 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004785005267 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004785005268 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004785005269 PAS domain S-box; Region: sensory_box; TIGR00229 1004785005270 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 1004785005271 putative active site [active] 1004785005272 heme pocket [chemical binding]; other site 1004785005273 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 1004785005274 PAS fold; Region: PAS_3; pfam08447 1004785005275 putative active site [active] 1004785005276 heme pocket [chemical binding]; other site 1004785005277 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 1004785005278 dimer interface [polypeptide binding]; other site 1004785005279 phosphorylation site [posttranslational modification] 1004785005280 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 1004785005281 ATP binding site [chemical binding]; other site 1004785005282 Mg2+ binding site [ion binding]; other site 1004785005283 G-X-G motif; other site 1004785005284 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785005285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005286 active site 1004785005287 phosphorylation site [posttranslational modification] 1004785005288 intermolecular recognition site; other site 1004785005289 dimerization interface [polypeptide binding]; other site 1004785005290 Hpt domain; Region: Hpt; pfam01627 1004785005291 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004785005292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005293 active site 1004785005294 phosphorylation site [posttranslational modification] 1004785005295 intermolecular recognition site; other site 1004785005296 dimerization interface [polypeptide binding]; other site 1004785005297 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785005298 Zn2+ binding site [ion binding]; other site 1004785005299 Mg2+ binding site [ion binding]; other site 1004785005300 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1004785005301 Sm and related proteins; Region: Sm_like; cl00259 1004785005302 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1004785005303 putative oligomer interface [polypeptide binding]; other site 1004785005304 putative RNA binding site [nucleotide binding]; other site 1004785005305 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1004785005306 NusA N-terminal domain; Region: NusA_N; pfam08529 1004785005307 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 1004785005308 RNA binding site [nucleotide binding]; other site 1004785005309 homodimer interface [polypeptide binding]; other site 1004785005310 NusA-like KH domain; Region: KH_5; pfam13184 1004785005311 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 1004785005312 G-X-X-G motif; other site 1004785005313 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1004785005314 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1004785005315 translation initiation factor IF-2; Region: IF-2; TIGR00487 1004785005316 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1004785005317 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1004785005318 G1 box; other site 1004785005319 putative GEF interaction site [polypeptide binding]; other site 1004785005320 GTP/Mg2+ binding site [chemical binding]; other site 1004785005321 Switch I region; other site 1004785005322 G2 box; other site 1004785005323 G3 box; other site 1004785005324 Switch II region; other site 1004785005325 G4 box; other site 1004785005326 G5 box; other site 1004785005327 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 1004785005328 Translation-initiation factor 2; Region: IF-2; pfam11987 1004785005329 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 1004785005330 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1004785005331 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1004785005332 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1004785005333 RNA binding site [nucleotide binding]; other site 1004785005334 active site 1004785005335 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1004785005336 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 1004785005337 16S/18S rRNA binding site [nucleotide binding]; other site 1004785005338 S13e-L30e interaction site [polypeptide binding]; other site 1004785005339 25S rRNA binding site [nucleotide binding]; other site 1004785005340 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1004785005341 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004785005342 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004785005343 PAS domain; Region: PAS_8; pfam13188 1004785005344 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 1004785005345 PAS domain; Region: PAS_9; pfam13426 1004785005346 putative active site [active] 1004785005347 heme pocket [chemical binding]; other site 1004785005348 PAS fold; Region: PAS_4; pfam08448 1004785005349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785005350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005351 metal binding site [ion binding]; metal-binding site 1004785005352 active site 1004785005353 I-site; other site 1004785005354 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 1004785005355 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1004785005356 RNA binding surface [nucleotide binding]; other site 1004785005357 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1004785005358 probable active site [active] 1004785005359 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1004785005360 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 1004785005361 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1004785005362 putative active site [active] 1004785005363 catalytic triad [active] 1004785005364 putative dimer interface [polypeptide binding]; other site 1004785005365 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1004785005366 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1004785005367 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785005368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005369 active site 1004785005370 phosphorylation site [posttranslational modification] 1004785005371 intermolecular recognition site; other site 1004785005372 dimerization interface [polypeptide binding]; other site 1004785005373 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 1004785005374 binding surface 1004785005375 TPR motif; other site 1004785005376 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 1004785005377 generic binding surface I; other site 1004785005378 generic binding surface II; other site 1004785005379 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004785005380 putative catalytic site [active] 1004785005381 putative metal binding site [ion binding]; other site 1004785005382 putative phosphate binding site [ion binding]; other site 1004785005383 peroxiredoxin; Region: AhpC; TIGR03137 1004785005384 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 1004785005385 dimer interface [polypeptide binding]; other site 1004785005386 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1004785005387 catalytic triad [active] 1004785005388 peroxidatic and resolving cysteines [active] 1004785005389 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1004785005390 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 1004785005391 catalytic residue [active] 1004785005392 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 1004785005393 catalytic residues [active] 1004785005394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785005395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785005396 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1004785005397 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 1004785005398 N-terminal plug; other site 1004785005399 ligand-binding site [chemical binding]; other site 1004785005400 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004785005401 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004785005402 Strictosidine synthase; Region: Str_synth; pfam03088 1004785005403 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 1004785005404 protein binding site [polypeptide binding]; other site 1004785005405 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004785005406 Active site serine [active] 1004785005407 hypothetical protein; Provisional; Region: PRK01254 1004785005408 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1004785005409 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1004785005410 EVE domain; Region: EVE; cl00728 1004785005411 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1004785005412 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785005413 GAF domain; Region: GAF; pfam01590 1004785005414 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785005415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005416 metal binding site [ion binding]; metal-binding site 1004785005417 active site 1004785005418 I-site; other site 1004785005419 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 1004785005420 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1004785005421 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004785005422 oxidoreductase; Validated; Region: PRK05717 1004785005423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785005424 NAD(P) binding site [chemical binding]; other site 1004785005425 active site 1004785005426 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004785005427 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1004785005428 putative NAD(P) binding site [chemical binding]; other site 1004785005429 active site 1004785005430 putative substrate binding site [chemical binding]; other site 1004785005431 bile acid transporter; Region: bass; TIGR00841 1004785005432 Sodium Bile acid symporter family; Region: SBF; cl17470 1004785005433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785005434 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1004785005435 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785005436 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785005437 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 1004785005438 putative active site [active] 1004785005439 putative FMN binding site [chemical binding]; other site 1004785005440 putative substrate binding site [chemical binding]; other site 1004785005441 putative catalytic residue [active] 1004785005442 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 1004785005443 SmpB-tmRNA interface; other site 1004785005444 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1004785005445 putative coenzyme Q binding site [chemical binding]; other site 1004785005446 hypothetical protein; Validated; Region: PRK01777 1004785005447 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004785005448 MarR family; Region: MarR; pfam01047 1004785005449 BCCT family transporter; Region: BCCT; cl00569 1004785005450 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785005451 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785005452 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 1004785005453 TPR repeat; Region: TPR_11; pfam13414 1004785005454 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 1004785005455 binding surface 1004785005456 TPR motif; other site 1004785005457 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 1004785005458 TPR motif; other site 1004785005459 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004785005460 binding surface 1004785005461 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 1004785005462 binding surface 1004785005463 TPR motif; other site 1004785005464 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004785005465 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 1004785005466 binding surface 1004785005467 TPR motif; other site 1004785005468 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004785005469 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1004785005470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 1004785005471 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785005472 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1004785005473 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1004785005474 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1004785005475 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1004785005476 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1004785005477 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1004785005478 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004785005479 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004785005480 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004785005481 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 1004785005482 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 1004785005483 catalytic loop [active] 1004785005484 iron binding site [ion binding]; other site 1004785005485 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004785005486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1004785005487 Coenzyme A binding pocket [chemical binding]; other site 1004785005488 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1004785005489 cyclase homology domain; Region: CHD; cd07302 1004785005490 nucleotidyl binding site; other site 1004785005491 metal binding site [ion binding]; metal-binding site 1004785005492 dimer interface [polypeptide binding]; other site 1004785005493 adenylosuccinate lyase; Provisional; Region: PRK09285 1004785005494 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1004785005495 tetramer interface [polypeptide binding]; other site 1004785005496 active site 1004785005497 putative lysogenization regulator; Reviewed; Region: PRK00218 1004785005498 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1004785005499 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 1004785005500 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1004785005501 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1004785005502 probable active site [active] 1004785005503 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1004785005504 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1004785005505 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 1004785005506 DNA-binding site [nucleotide binding]; DNA binding site 1004785005507 RNA-binding motif; other site 1004785005508 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1004785005509 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1004785005510 Clp amino terminal domain; Region: Clp_N; pfam02861 1004785005511 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 1004785005512 Walker A motif; other site 1004785005513 ATP binding site [chemical binding]; other site 1004785005514 Walker B motif; other site 1004785005515 arginine finger; other site 1004785005516 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 1004785005517 Walker A motif; other site 1004785005518 ATP binding site [chemical binding]; other site 1004785005519 Walker B motif; other site 1004785005520 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004785005521 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 1004785005522 rRNA binding site [nucleotide binding]; other site 1004785005523 predicted 30S ribosome binding site; other site 1004785005524 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1004785005525 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1004785005526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785005527 Coenzyme A binding pocket [chemical binding]; other site 1004785005528 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1004785005529 thioredoxin reductase; Provisional; Region: PRK10262 1004785005530 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785005531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785005532 Protein of unknown function, DUF412; Region: DUF412; pfam04217 1004785005533 protease 4; Provisional; Region: PRK10949 1004785005534 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1004785005535 tandem repeat interface [polypeptide binding]; other site 1004785005536 oligomer interface [polypeptide binding]; other site 1004785005537 active site residues [active] 1004785005538 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1004785005539 tandem repeat interface [polypeptide binding]; other site 1004785005540 oligomer interface [polypeptide binding]; other site 1004785005541 active site residues [active] 1004785005542 DoxX; Region: DoxX; pfam07681 1004785005543 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1004785005544 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 1004785005545 putative FMN binding site [chemical binding]; other site 1004785005546 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1004785005547 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1004785005548 active site 1004785005549 homodimer interface [polypeptide binding]; other site 1004785005550 lipoyl synthase; Provisional; Region: PRK05481 1004785005551 lipoate-protein ligase B; Provisional; Region: PRK14342 1004785005552 hypothetical protein; Provisional; Region: PRK04998 1004785005553 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1004785005554 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1004785005555 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1004785005556 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1004785005557 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1004785005558 Sporulation related domain; Region: SPOR; pfam05036 1004785005559 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1004785005560 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1004785005561 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1004785005562 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1004785005563 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1004785005564 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1004785005565 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1004785005566 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1004785005567 active site 1004785005568 (T/H)XGH motif; other site 1004785005569 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1004785005570 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1004785005571 Lipopolysaccharide-assembly; Region: LptE; cl01125 1004785005572 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1004785005573 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1004785005574 HIGH motif; other site 1004785005575 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004785005576 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004785005577 active site 1004785005578 KMSKS motif; other site 1004785005579 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1004785005580 tRNA binding surface [nucleotide binding]; other site 1004785005581 AAA domain; Region: AAA_32; pfam13654 1004785005582 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1004785005583 RDD family; Region: RDD; pfam06271 1004785005584 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004785005585 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1004785005586 NAD binding site [chemical binding]; other site 1004785005587 homodimer interface [polypeptide binding]; other site 1004785005588 homotetramer interface [polypeptide binding]; other site 1004785005589 active site 1004785005590 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1004785005591 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1004785005592 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 1004785005593 S-adenosylmethionine binding site [chemical binding]; other site 1004785005594 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1004785005595 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 1004785005596 Walker A motif; other site 1004785005597 ATP binding site [chemical binding]; other site 1004785005598 Walker B motif; other site 1004785005599 arginine finger; other site 1004785005600 Peptidase family M41; Region: Peptidase_M41; pfam01434 1004785005601 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 1004785005602 dihydropteroate synthase; Region: DHPS; TIGR01496 1004785005603 substrate binding pocket [chemical binding]; other site 1004785005604 dimer interface [polypeptide binding]; other site 1004785005605 inhibitor binding site; inhibition site 1004785005606 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1004785005607 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 1004785005608 active site 1004785005609 substrate binding site [chemical binding]; other site 1004785005610 metal binding site [ion binding]; metal-binding site 1004785005611 triosephosphate isomerase; Provisional; Region: PRK14567 1004785005612 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 1004785005613 substrate binding site [chemical binding]; other site 1004785005614 dimer interface [polypeptide binding]; other site 1004785005615 catalytic triad [active] 1004785005616 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1004785005617 HAMP domain; Region: HAMP; pfam00672 1004785005618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785005619 metal binding site [ion binding]; metal-binding site 1004785005620 active site 1004785005621 I-site; other site 1004785005622 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 1004785005623 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1004785005624 Hemerythrin-like domain; Region: Hr-like; cd12108 1004785005625 Fe binding site [ion binding]; other site 1004785005626 glutamate dehydrogenase; Provisional; Region: PRK09414 1004785005627 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1004785005628 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1004785005629 NAD(P) binding pocket [chemical binding]; other site 1004785005630 hypothetical protein; Provisional; Region: PRK12361 1004785005631 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1004785005632 active site 1004785005633 catalytic residues [active] 1004785005634 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1004785005635 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1004785005636 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1004785005637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785005638 NAD(P) binding site [chemical binding]; other site 1004785005639 active site 1004785005640 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 1004785005641 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1004785005642 active site 1004785005643 motif I; other site 1004785005644 motif II; other site 1004785005645 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1004785005646 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1004785005647 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1004785005648 active site 1004785005649 DNA binding site [nucleotide binding] 1004785005650 Int/Topo IB signature motif; other site 1004785005651 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1004785005652 Na binding site [ion binding]; other site 1004785005653 gamma-glutamyl kinase; Provisional; Region: PRK13402 1004785005654 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 1004785005655 nucleotide binding site [chemical binding]; other site 1004785005656 homotetrameric interface [polypeptide binding]; other site 1004785005657 putative phosphate binding site [ion binding]; other site 1004785005658 putative allosteric binding site; other site 1004785005659 PUA domain; Region: PUA; cl00607 1004785005660 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1004785005661 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1004785005662 putative catalytic cysteine [active] 1004785005663 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785005664 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785005665 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1004785005666 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 1004785005667 active site 1004785005668 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1004785005669 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1004785005670 RNase E interface [polypeptide binding]; other site 1004785005671 trimer interface [polypeptide binding]; other site 1004785005672 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1004785005673 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1004785005674 RNase E interface [polypeptide binding]; other site 1004785005675 trimer interface [polypeptide binding]; other site 1004785005676 active site 1004785005677 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 1004785005678 putative nucleic acid binding region [nucleotide binding]; other site 1004785005679 G-X-X-G motif; other site 1004785005680 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 1004785005681 RNA binding site [nucleotide binding]; other site 1004785005682 domain interface; other site 1004785005683 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 1004785005684 TIR domain; Region: TIR_2; cl17458 1004785005685 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1004785005686 Protein of unknown function DUF91; Region: DUF91; cl00709 1004785005687 AAA domain; Region: AAA_17; pfam13207 1004785005688 AAA domain; Region: AAA_18; pfam13238 1004785005689 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004785005690 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004785005691 MAPEG family; Region: MAPEG; cl09190 1004785005692 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 1004785005693 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 1004785005694 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785005695 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004785005696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785005697 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 1004785005698 DNA binding residues [nucleotide binding] 1004785005699 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 1004785005700 active site 1004785005701 catalytic motif [active] 1004785005702 Zn binding site [ion binding]; other site 1004785005703 lipoprotein NlpI; Provisional; Region: PRK11189 1004785005704 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 1004785005705 binding surface 1004785005706 TPR motif; other site 1004785005707 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1004785005708 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1004785005709 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1004785005710 Walker A/P-loop; other site 1004785005711 ATP binding site [chemical binding]; other site 1004785005712 Q-loop/lid; other site 1004785005713 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1004785005714 ABC transporter signature motif; other site 1004785005715 Walker B; other site 1004785005716 D-loop; other site 1004785005717 H-loop/switch region; other site 1004785005718 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1004785005719 FtsZ protein binding site [polypeptide binding]; other site 1004785005720 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1004785005721 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 1004785005722 nucleotide binding pocket [chemical binding]; other site 1004785005723 K-X-D-G motif; other site 1004785005724 catalytic site [active] 1004785005725 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1004785005726 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1004785005727 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 1004785005728 Dimer interface [polypeptide binding]; other site 1004785005729 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1004785005730 Competence protein; Region: Competence; pfam03772 1004785005731 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1004785005732 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785005733 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1004785005734 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785005735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785005736 Walker A/P-loop; other site 1004785005737 ATP binding site [chemical binding]; other site 1004785005738 Q-loop/lid; other site 1004785005739 ABC transporter signature motif; other site 1004785005740 Walker B; other site 1004785005741 D-loop; other site 1004785005742 H-loop/switch region; other site 1004785005743 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1004785005744 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1004785005745 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1004785005746 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1004785005747 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1004785005748 Ligand binding site; other site 1004785005749 oligomer interface; other site 1004785005750 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1004785005751 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1004785005752 NADP binding site [chemical binding]; other site 1004785005753 homodimer interface [polypeptide binding]; other site 1004785005754 active site 1004785005755 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785005756 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 1004785005757 substrate binding pocket [chemical binding]; other site 1004785005758 membrane-bound complex binding site; other site 1004785005759 hinge residues; other site 1004785005760 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1004785005761 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1004785005762 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 1004785005763 FeS/SAM binding site; other site 1004785005764 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1004785005765 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1004785005766 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 1004785005767 putative ATP binding site [chemical binding]; other site 1004785005768 putative substrate interface [chemical binding]; other site 1004785005769 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1004785005770 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1004785005771 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1004785005772 putative dimer interface [polypeptide binding]; other site 1004785005773 N-terminal domain interface [polypeptide binding]; other site 1004785005774 putative substrate binding pocket (H-site) [chemical binding]; other site 1004785005775 Pirin-related protein [General function prediction only]; Region: COG1741 1004785005776 Pirin; Region: Pirin; pfam02678 1004785005777 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1004785005778 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1004785005779 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004785005780 phosphomannomutase CpsG; Provisional; Region: PRK15414 1004785005781 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 1004785005782 active site 1004785005783 substrate binding site [chemical binding]; other site 1004785005784 metal binding site [ion binding]; metal-binding site 1004785005785 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1004785005786 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 1004785005787 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1004785005788 dimer interface [polypeptide binding]; other site 1004785005789 active site 1004785005790 citrylCoA binding site [chemical binding]; other site 1004785005791 NADH binding [chemical binding]; other site 1004785005792 cationic pore residues; other site 1004785005793 oxalacetate/citrate binding site [chemical binding]; other site 1004785005794 coenzyme A binding site [chemical binding]; other site 1004785005795 catalytic triad [active] 1004785005796 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 1004785005797 Iron-sulfur protein interface; other site 1004785005798 proximal quinone binding site [chemical binding]; other site 1004785005799 SdhD (CybS) interface [polypeptide binding]; other site 1004785005800 proximal heme binding site [chemical binding]; other site 1004785005801 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 1004785005802 SdhC subunit interface [polypeptide binding]; other site 1004785005803 proximal heme binding site [chemical binding]; other site 1004785005804 cardiolipin binding site; other site 1004785005805 Iron-sulfur protein interface; other site 1004785005806 proximal quinone binding site [chemical binding]; other site 1004785005807 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1004785005808 L-aspartate oxidase; Provisional; Region: PRK06175 1004785005809 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1004785005810 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1004785005811 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 1004785005812 catalytic loop [active] 1004785005813 iron binding site [ion binding]; other site 1004785005814 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1004785005815 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 1004785005816 TPP-binding site [chemical binding]; other site 1004785005817 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1004785005818 dimer interface [polypeptide binding]; other site 1004785005819 PYR/PP interface [polypeptide binding]; other site 1004785005820 TPP binding site [chemical binding]; other site 1004785005821 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 1004785005822 E3 interaction surface; other site 1004785005823 lipoyl attachment site [posttranslational modification]; other site 1004785005824 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1004785005825 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 1004785005826 E3 interaction surface; other site 1004785005827 lipoyl attachment site [posttranslational modification]; other site 1004785005828 e3 binding domain; Region: E3_binding; pfam02817 1004785005829 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004785005830 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1004785005831 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1004785005832 CoA-ligase; Region: Ligase_CoA; pfam00549 1004785005833 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1004785005834 CoA binding domain; Region: CoA_binding; pfam02629 1004785005835 CoA-ligase; Region: Ligase_CoA; pfam00549 1004785005836 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785005837 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 1004785005838 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 1004785005839 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785005840 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785005841 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 1004785005842 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 1004785005843 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1004785005844 carbohydrate binding site [chemical binding]; other site 1004785005845 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1004785005846 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 1004785005847 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 1004785005848 Ca binding site [ion binding]; other site 1004785005849 active site 1004785005850 catalytic site [active] 1004785005851 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1004785005852 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004785005853 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004785005854 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004785005855 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1004785005856 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1004785005857 active site 1004785005858 nucleophile elbow; other site 1004785005859 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004785005860 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004785005861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785005862 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785005863 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785005864 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1004785005865 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004785005866 active site 1004785005867 catalytic site [active] 1004785005868 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 1004785005869 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 1004785005870 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004785005871 Ca binding site [ion binding]; other site 1004785005872 active site 1004785005873 homodimer interface [polypeptide binding]; other site 1004785005874 catalytic site [active] 1004785005875 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1004785005876 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 1004785005877 putative substrate translocation pore; other site 1004785005878 MFS/sugar transport protein; Region: MFS_2; pfam13347 1004785005879 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 1004785005880 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1004785005881 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004785005882 active site 1004785005883 catalytic site [active] 1004785005884 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785005885 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785005886 DNA binding site [nucleotide binding] 1004785005887 domain linker motif; other site 1004785005888 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 1004785005889 putative dimerization interface [polypeptide binding]; other site 1004785005890 putative ligand binding site [chemical binding]; other site 1004785005891 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1004785005892 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004785005893 active site 1004785005894 HIGH motif; other site 1004785005895 nucleotide binding site [chemical binding]; other site 1004785005896 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1004785005897 KMSKS motif; other site 1004785005898 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1004785005899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785005900 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785005901 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785005902 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1004785005903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785005904 NAD(P) binding site [chemical binding]; other site 1004785005905 active site 1004785005906 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1004785005907 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1004785005908 Penicillin amidase; Region: Penicil_amidase; pfam01804 1004785005909 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 1004785005910 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 1004785005911 active site 1004785005912 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 1004785005913 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1004785005914 putative inner membrane peptidase; Provisional; Region: PRK11778 1004785005915 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1004785005916 tandem repeat interface [polypeptide binding]; other site 1004785005917 oligomer interface [polypeptide binding]; other site 1004785005918 active site residues [active] 1004785005919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785005920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785005921 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1004785005922 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1004785005923 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004785005924 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 1004785005925 S-adenosylmethionine binding site [chemical binding]; other site 1004785005926 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1004785005927 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1004785005928 putative ligand binding site [chemical binding]; other site 1004785005929 putative NAD binding site [chemical binding]; other site 1004785005930 catalytic site [active] 1004785005931 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 1004785005932 catalytic residues [active] 1004785005933 dimer interface [polypeptide binding]; other site 1004785005934 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1004785005935 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004785005936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005937 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785005938 active site 1004785005939 phosphorylation site [posttranslational modification] 1004785005940 intermolecular recognition site; other site 1004785005941 dimerization interface [polypeptide binding]; other site 1004785005942 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004785005943 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1004785005944 substrate binding pocket [chemical binding]; other site 1004785005945 FAD binding site [chemical binding]; other site 1004785005946 catalytic base [active] 1004785005947 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1004785005948 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 1004785005949 substrate binding site [chemical binding]; other site 1004785005950 oxyanion hole (OAH) forming residues; other site 1004785005951 trimer interface [polypeptide binding]; other site 1004785005952 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1004785005953 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1004785005954 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1004785005955 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004785005956 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785005957 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1004785005958 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1004785005959 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1004785005960 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1004785005961 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 1004785005962 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004785005963 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785005964 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1004785005965 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1004785005966 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 1004785005967 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1004785005968 PilZ domain; Region: PilZ; pfam07238 1004785005969 Protein of unknown function (DUF962); Region: DUF962; cl01879 1004785005970 Histidine kinase; Region: His_kinase; pfam06580 1004785005971 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 1004785005972 ATP binding site [chemical binding]; other site 1004785005973 Mg2+ binding site [ion binding]; other site 1004785005974 G-X-G motif; other site 1004785005975 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004785005976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785005977 active site 1004785005978 phosphorylation site [posttranslational modification] 1004785005979 intermolecular recognition site; other site 1004785005980 dimerization interface [polypeptide binding]; other site 1004785005981 LytTr DNA-binding domain; Region: LytTR; smart00850 1004785005982 6-phosphofructokinase; Provisional; Region: PRK03202 1004785005983 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1004785005984 active site 1004785005985 ADP/pyrophosphate binding site [chemical binding]; other site 1004785005986 dimerization interface [polypeptide binding]; other site 1004785005987 allosteric effector site; other site 1004785005988 fructose-1,6-bisphosphate binding site; other site 1004785005989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785005990 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 1004785005991 putative effector binding pocket; other site 1004785005992 dimerization interface [polypeptide binding]; other site 1004785005993 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1004785005994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785005995 NAD(P) binding site [chemical binding]; other site 1004785005996 active site 1004785005997 potential frameshift: common BLAST hit: gi|332141349|ref|YP_004427087.1| Zinc-containing alcohol dehydrogenase superfamily protein 1004785005998 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1004785005999 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004785006000 putative NAD(P) binding site [chemical binding]; other site 1004785006001 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 1004785006002 CoenzymeA binding site [chemical binding]; other site 1004785006003 subunit interaction site [polypeptide binding]; other site 1004785006004 PHB binding site; other site 1004785006005 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785006006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006007 active site 1004785006008 phosphorylation site [posttranslational modification] 1004785006009 intermolecular recognition site; other site 1004785006010 dimerization interface [polypeptide binding]; other site 1004785006011 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 1004785006012 binding surface 1004785006013 TPR motif; other site 1004785006014 TPR repeat; Region: TPR_11; pfam13414 1004785006015 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 1004785006016 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1004785006017 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1004785006018 active site residue [active] 1004785006019 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 1004785006020 EF-hand domain pair; Region: EF_hand_5; pfam13499 1004785006021 Ca2+ binding site [ion binding]; other site 1004785006022 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1004785006023 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1004785006024 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 1004785006025 ATP binding site [chemical binding]; other site 1004785006026 putative Mg++ binding site [ion binding]; other site 1004785006027 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 1004785006028 nucleotide binding region [chemical binding]; other site 1004785006029 ATP-binding site [chemical binding]; other site 1004785006030 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1004785006031 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1004785006032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785006033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006034 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 1004785006035 putative dimerization interface [polypeptide binding]; other site 1004785006036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785006037 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 1004785006038 ATP binding site [chemical binding]; other site 1004785006039 Mg2+ binding site [ion binding]; other site 1004785006040 G-X-G motif; other site 1004785006041 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1004785006042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006043 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1004785006044 substrate binding site [chemical binding]; other site 1004785006045 dimerization interface [polypeptide binding]; other site 1004785006046 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1004785006047 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1004785006048 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1004785006049 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 1004785006050 putative active site [active] 1004785006051 putative CoA binding site [chemical binding]; other site 1004785006052 nudix motif; other site 1004785006053 metal binding site [ion binding]; metal-binding site 1004785006054 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1004785006055 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1004785006056 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1004785006057 potential frameshift: common BLAST hit: gi|332141373|ref|YP_004427111.1| fumarate hydratase, class I 1004785006058 RmuC family; Region: RmuC; pfam02646 1004785006059 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004785006060 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1004785006061 active site 1004785006062 catalytic residues [active] 1004785006063 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 1004785006064 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785006065 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1004785006066 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1004785006067 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 1004785006068 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1004785006069 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 1004785006070 tetramer interface [polypeptide binding]; other site 1004785006071 TPP-binding site [chemical binding]; other site 1004785006072 heterodimer interface [polypeptide binding]; other site 1004785006073 phosphorylation loop region [posttranslational modification] 1004785006074 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1004785006075 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 1004785006076 alpha subunit interface [polypeptide binding]; other site 1004785006077 TPP binding site [chemical binding]; other site 1004785006078 heterodimer interface [polypeptide binding]; other site 1004785006079 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004785006080 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1004785006081 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 1004785006082 E3 interaction surface; other site 1004785006083 lipoyl attachment site [posttranslational modification]; other site 1004785006084 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 1004785006085 E3 interaction surface; other site 1004785006086 lipoyl attachment site [posttranslational modification]; other site 1004785006087 e3 binding domain; Region: E3_binding; pfam02817 1004785006088 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004785006089 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1004785006090 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1004785006091 active site 1004785006092 ATP binding site [chemical binding]; other site 1004785006093 substrate binding site [chemical binding]; other site 1004785006094 activation loop (A-loop); other site 1004785006095 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1004785006096 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 1004785006097 active site 1004785006098 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 1004785006099 catalytic triad [active] 1004785006100 dimer interface [polypeptide binding]; other site 1004785006101 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1004785006102 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 1004785006103 trimer interface [polypeptide binding]; other site 1004785006104 putative metal binding site [ion binding]; other site 1004785006105 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1004785006106 homodimer interface [polypeptide binding]; other site 1004785006107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006108 catalytic residue [active] 1004785006109 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1004785006110 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1004785006111 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1004785006112 GAF domain; Region: GAF_2; pfam13185 1004785006113 ProP expression regulator; Provisional; Region: PRK04950 1004785006114 ProQ/FINO family; Region: ProQ; pfam04352 1004785006115 carboxy-terminal protease; Provisional; Region: PRK11186 1004785006116 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 1004785006117 protein binding site [polypeptide binding]; other site 1004785006118 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1004785006119 Catalytic dyad [active] 1004785006120 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1004785006121 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1004785006122 Na2 binding site [ion binding]; other site 1004785006123 putative substrate binding site 1 [chemical binding]; other site 1004785006124 Na binding site 1 [ion binding]; other site 1004785006125 putative substrate binding site 2 [chemical binding]; other site 1004785006126 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1004785006127 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1004785006128 aminopeptidase N; Provisional; Region: pepN; PRK14015 1004785006129 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004785006130 Zn binding site [ion binding]; other site 1004785006131 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1004785006132 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1004785006133 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1004785006134 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1004785006135 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1004785006136 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1004785006137 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1004785006138 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1004785006139 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 1004785006140 quinone interaction residues [chemical binding]; other site 1004785006141 active site 1004785006142 catalytic residues [active] 1004785006143 FMN binding site [chemical binding]; other site 1004785006144 substrate binding site [chemical binding]; other site 1004785006145 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1004785006146 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1004785006147 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 1004785006148 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1004785006149 putative RNA binding site [nucleotide binding]; other site 1004785006150 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 1004785006151 S-adenosylmethionine binding site [chemical binding]; other site 1004785006152 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1004785006153 ABC transporter ATPase component; Reviewed; Region: PRK11147 1004785006154 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785006155 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785006156 ABC transporter; Region: ABC_tran_2; pfam12848 1004785006157 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785006158 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 1004785006159 Ribosome modulation factor; Region: RMF; pfam04957 1004785006160 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 1004785006161 active site 1 [active] 1004785006162 dimer interface [polypeptide binding]; other site 1004785006163 active site 2 [active] 1004785006164 DNA photolyase; Region: DNA_photolyase; pfam00875 1004785006165 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1004785006166 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1004785006167 DNA photolyase; Region: DNA_photolyase; pfam00875 1004785006168 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1004785006169 DNA photolyase; Region: DNA_photolyase; pfam00875 1004785006170 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1004785006171 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1004785006172 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1004785006173 Predicted membrane protein [Function unknown]; Region: COG4325 1004785006174 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1004785006175 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004785006176 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 1004785006177 active site residue [active] 1004785006178 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 1004785006179 active site residue [active] 1004785006180 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 1004785006181 active site 1004785006182 DNA binding site [nucleotide binding] 1004785006183 Int/Topo IB signature motif; other site 1004785006184 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1004785006185 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 1004785006186 Ligand Binding Site [chemical binding]; other site 1004785006187 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1004785006188 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1004785006189 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 1004785006190 active site 1004785006191 FMN binding site [chemical binding]; other site 1004785006192 substrate binding site [chemical binding]; other site 1004785006193 3Fe-4S cluster binding site [ion binding]; other site 1004785006194 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1004785006195 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1004785006196 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1004785006197 TrkA-N domain; Region: TrkA_N; pfam02254 1004785006198 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1004785006199 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1004785006200 heme binding site [chemical binding]; other site 1004785006201 ferroxidase pore; other site 1004785006202 ferroxidase diiron center [ion binding]; other site 1004785006203 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1004785006204 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1004785006205 heme binding site [chemical binding]; other site 1004785006206 ferroxidase pore; other site 1004785006207 ferroxidase diiron center [ion binding]; other site 1004785006208 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 1004785006209 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1004785006210 Low-spin heme binding site [chemical binding]; other site 1004785006211 Putative water exit pathway; other site 1004785006212 Binuclear center (active site) [active] 1004785006213 Putative proton exit pathway; other site 1004785006214 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1004785006215 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1004785006216 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1004785006217 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1004785006218 Cytochrome c; Region: Cytochrom_C; pfam00034 1004785006219 Cytochrome c; Region: Cytochrom_C; pfam00034 1004785006220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1004785006221 FixH; Region: FixH; pfam05751 1004785006222 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1004785006223 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1004785006224 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 1004785006225 metal-binding site [ion binding] 1004785006226 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1004785006227 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1004785006228 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1004785006229 Family description; Region: DsbD_2; pfam13386 1004785006230 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1004785006231 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 1004785006232 ligand binding site [chemical binding]; other site 1004785006233 flexible hinge region; other site 1004785006234 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 1004785006235 putative switch regulator; other site 1004785006236 non-specific DNA interactions [nucleotide binding]; other site 1004785006237 DNA binding site [nucleotide binding] 1004785006238 sequence specific DNA binding site [nucleotide binding]; other site 1004785006239 putative cAMP binding site [chemical binding]; other site 1004785006240 universal stress protein UspE; Provisional; Region: PRK11175 1004785006241 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 1004785006242 Ligand Binding Site [chemical binding]; other site 1004785006243 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 1004785006244 Ligand Binding Site [chemical binding]; other site 1004785006245 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1004785006246 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 1004785006247 Ligand Binding Site [chemical binding]; other site 1004785006248 hypothetical protein; Provisional; Region: PRK10279 1004785006249 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1004785006250 nucleophile elbow; other site 1004785006251 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 1004785006252 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1004785006253 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1004785006254 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 1004785006255 LysE type translocator; Region: LysE; cl00565 1004785006256 NAD-dependent deacetylase; Provisional; Region: PRK00481 1004785006257 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1004785006258 NAD+ binding site [chemical binding]; other site 1004785006259 substrate binding site [chemical binding]; other site 1004785006260 Zn binding site [ion binding]; other site 1004785006261 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1004785006262 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 1004785006263 active site residue [active] 1004785006264 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 1004785006265 active site residue [active] 1004785006266 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1004785006267 dimer interface [polypeptide binding]; other site 1004785006268 catalytic triad [active] 1004785006269 peroxidatic and resolving cysteines [active] 1004785006270 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1004785006271 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 1004785006272 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1004785006273 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1004785006274 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 1004785006275 active site 1004785006276 DNA binding site [nucleotide binding] 1004785006277 Int/Topo IB signature motif; other site 1004785006278 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1004785006279 MPN+ (JAMM) motif; other site 1004785006280 Zinc-binding site [ion binding]; other site 1004785006281 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1004785006282 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 1004785006283 putative Mg++ binding site [ion binding]; other site 1004785006284 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1004785006285 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 1004785006286 ATP binding site [chemical binding]; other site 1004785006287 putative Mg++ binding site [ion binding]; other site 1004785006288 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 1004785006289 Predicted ATPase [General function prediction only]; Region: COG4637 1004785006290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785006291 Walker A/P-loop; other site 1004785006292 ATP binding site [chemical binding]; other site 1004785006293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1004785006294 ABC transporter signature motif; other site 1004785006295 Walker B; other site 1004785006296 D-loop; other site 1004785006297 H-loop/switch region; other site 1004785006298 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1004785006299 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1004785006300 WYL domain; Region: WYL; pfam13280 1004785006301 integrase; Provisional; Region: PRK09692 1004785006302 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 1004785006303 active site 1004785006304 Int/Topo IB signature motif; other site 1004785006305 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1004785006306 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1004785006307 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1004785006308 active site 1004785006309 catalytic site [active] 1004785006310 putative DNA binding site [nucleotide binding]; other site 1004785006311 GIY-YIG motif/motif A; other site 1004785006312 metal binding site [ion binding]; metal-binding site 1004785006313 UvrB/uvrC motif; Region: UVR; pfam02151 1004785006314 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1004785006315 Helix-hairpin-helix motif; Region: HHH; pfam00633 1004785006316 response regulator; Provisional; Region: PRK09483 1004785006317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006318 active site 1004785006319 phosphorylation site [posttranslational modification] 1004785006320 intermolecular recognition site; other site 1004785006321 dimerization interface [polypeptide binding]; other site 1004785006322 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 1004785006323 DNA binding residues [nucleotide binding] 1004785006324 dimerization interface [polypeptide binding]; other site 1004785006325 Pirin-related protein [General function prediction only]; Region: COG1741 1004785006326 Pirin; Region: Pirin; pfam02678 1004785006327 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 1004785006328 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1004785006329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006330 homodimer interface [polypeptide binding]; other site 1004785006331 catalytic residue [active] 1004785006332 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 1004785006333 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1004785006334 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004785006335 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 1004785006336 S-adenosylmethionine binding site [chemical binding]; other site 1004785006337 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1004785006338 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1004785006339 putative active site [active] 1004785006340 metal binding site [ion binding]; metal-binding site 1004785006341 Predicted membrane protein [Function unknown]; Region: COG2259 1004785006342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785006343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006344 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 1004785006345 putative effector binding pocket; other site 1004785006346 dimerization interface [polypeptide binding]; other site 1004785006347 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 1004785006348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785006349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006350 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 1004785006351 dimerization interface [polypeptide binding]; other site 1004785006352 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1004785006353 YccA-like proteins; Region: YccA_like; cd10433 1004785006354 DsrE/DsrF-like family; Region: DrsE; cl00672 1004785006355 DsrE/DsrF-like family; Region: DrsE; cl00672 1004785006356 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1004785006357 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1004785006358 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1004785006359 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1004785006360 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785006361 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004785006362 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 1004785006363 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 1004785006364 seryl-tRNA synthetase; Provisional; Region: PRK05431 1004785006365 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1004785006366 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 1004785006367 dimer interface [polypeptide binding]; other site 1004785006368 active site 1004785006369 motif 1; other site 1004785006370 motif 2; other site 1004785006371 motif 3; other site 1004785006372 CrcB-like protein; Region: CRCB; cl09114 1004785006373 recombination factor protein RarA; Reviewed; Region: PRK13342 1004785006374 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 1004785006375 Walker A motif; other site 1004785006376 ATP binding site [chemical binding]; other site 1004785006377 Walker B motif; other site 1004785006378 arginine finger; other site 1004785006379 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1004785006380 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1004785006381 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1004785006382 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1004785006383 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1004785006384 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1004785006385 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1004785006386 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 1004785006387 putative DNA binding site [nucleotide binding]; other site 1004785006388 putative Zn2+ binding site [ion binding]; other site 1004785006389 AsnC family; Region: AsnC_trans_reg; pfam01037 1004785006390 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1004785006391 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1004785006392 hexamer interface [polypeptide binding]; other site 1004785006393 ligand binding site [chemical binding]; other site 1004785006394 putative active site [active] 1004785006395 NAD(P) binding site [chemical binding]; other site 1004785006396 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 1004785006397 active site 1004785006398 dimer interface [polypeptide binding]; other site 1004785006399 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1004785006400 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 1004785006401 binding surface 1004785006402 TPR motif; other site 1004785006403 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 1004785006404 binding surface 1004785006405 TPR motif; other site 1004785006406 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1004785006407 PilZ domain; Region: PilZ; pfam07238 1004785006408 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 1004785006409 IHF dimer interface [polypeptide binding]; other site 1004785006410 IHF - DNA interface [nucleotide binding]; other site 1004785006411 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1004785006412 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 1004785006413 RNA binding site [nucleotide binding]; other site 1004785006414 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 1004785006415 RNA binding site [nucleotide binding]; other site 1004785006416 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 1004785006417 RNA binding site [nucleotide binding]; other site 1004785006418 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 1004785006419 RNA binding site [nucleotide binding]; other site 1004785006420 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 1004785006421 RNA binding site [nucleotide binding]; other site 1004785006422 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 1004785006423 RNA binding site [nucleotide binding]; other site 1004785006424 cytidylate kinase; Provisional; Region: cmk; PRK00023 1004785006425 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 1004785006426 CMP-binding site; other site 1004785006427 The sites determining sugar specificity; other site 1004785006428 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1004785006429 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 1004785006430 hinge; other site 1004785006431 active site 1004785006432 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 1004785006433 homodimer interface [polypeptide binding]; other site 1004785006434 substrate-cofactor binding pocket; other site 1004785006435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006436 catalytic residue [active] 1004785006437 DNA gyrase subunit A; Validated; Region: PRK05560 1004785006438 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 1004785006439 CAP-like domain; other site 1004785006440 active site 1004785006441 primary dimer interface [polypeptide binding]; other site 1004785006442 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006446 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006447 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004785006448 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1004785006449 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 1004785006450 S-adenosylmethionine binding site [chemical binding]; other site 1004785006451 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1004785006452 ATP cone domain; Region: ATP-cone; pfam03477 1004785006453 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1004785006454 active site 1004785006455 dimer interface [polypeptide binding]; other site 1004785006456 catalytic residues [active] 1004785006457 effector binding site; other site 1004785006458 R2 peptide binding site; other site 1004785006459 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1004785006460 dimer interface [polypeptide binding]; other site 1004785006461 putative radical transfer pathway; other site 1004785006462 diiron center [ion binding]; other site 1004785006463 tyrosyl radical; other site 1004785006464 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1004785006465 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 1004785006466 catalytic loop [active] 1004785006467 iron binding site [ion binding]; other site 1004785006468 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1004785006469 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785006470 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 1004785006471 putative active site [active] 1004785006472 putative FMN binding site [chemical binding]; other site 1004785006473 putative substrate binding site [chemical binding]; other site 1004785006474 putative catalytic residue [active] 1004785006475 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785006476 GAF domain; Region: GAF; pfam01590 1004785006477 GAF domain; Region: GAF; pfam01590 1004785006478 GAF domain; Region: GAF_2; pfam13185 1004785006479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785006480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785006481 metal binding site [ion binding]; metal-binding site 1004785006482 active site 1004785006483 I-site; other site 1004785006484 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 1004785006485 EamA-like transporter family; Region: EamA; pfam00892 1004785006486 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1004785006487 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1004785006488 ATP binding site [chemical binding]; other site 1004785006489 active site 1004785006490 substrate binding site [chemical binding]; other site 1004785006491 lipoprotein; Provisional; Region: PRK11679 1004785006492 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1004785006493 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1004785006494 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1004785006495 dimer interface [polypeptide binding]; other site 1004785006496 active site 1004785006497 catalytic residue [active] 1004785006498 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1004785006499 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1004785006500 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1004785006501 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1004785006502 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 1004785006503 catalytic triad [active] 1004785006504 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1004785006505 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1004785006506 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1004785006507 Peptidase family M48; Region: Peptidase_M48; pfam01435 1004785006508 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 1004785006509 TPR motif; other site 1004785006510 binding surface 1004785006511 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 1004785006512 binding surface 1004785006513 TPR motif; other site 1004785006514 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 1004785006515 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785006516 catalytic residues [active] 1004785006517 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 1004785006518 ArsC family; Region: ArsC; pfam03960 1004785006519 catalytic residues [active] 1004785006520 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785006521 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004785006522 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1004785006523 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1004785006524 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 1004785006525 ATP binding site [chemical binding]; other site 1004785006526 Walker A motif; other site 1004785006527 Walker B motif; other site 1004785006528 arginine finger; other site 1004785006529 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1004785006530 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1004785006531 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 1004785006532 dimerization interface [polypeptide binding]; other site 1004785006533 putative ATP binding site [chemical binding]; other site 1004785006534 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1004785006535 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1004785006536 active site 1004785006537 substrate binding site [chemical binding]; other site 1004785006538 cosubstrate binding site; other site 1004785006539 catalytic site [active] 1004785006540 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1004785006541 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1004785006542 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1004785006543 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1004785006544 active site 1004785006545 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1004785006546 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1004785006547 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785006548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006549 active site 1004785006550 phosphorylation site [posttranslational modification] 1004785006551 intermolecular recognition site; other site 1004785006552 dimerization interface [polypeptide binding]; other site 1004785006553 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 1004785006554 DNA binding residues [nucleotide binding] 1004785006555 dimerization interface [polypeptide binding]; other site 1004785006556 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 1004785006557 S-adenosylmethionine binding site [chemical binding]; other site 1004785006558 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004785006559 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 1004785006560 S-adenosylmethionine binding site [chemical binding]; other site 1004785006561 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 1004785006562 active site 1004785006563 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 1004785006564 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 1004785006565 active site 1004785006566 motif I; other site 1004785006567 motif II; other site 1004785006568 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 1004785006569 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1004785006570 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 1004785006571 active site 1004785006572 homodimer interface [polypeptide binding]; other site 1004785006573 catalytic site [active] 1004785006574 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1004785006575 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 1004785006576 motif II; other site 1004785006577 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1004785006578 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 1004785006579 dimer interface [polypeptide binding]; other site 1004785006580 putative functional site; other site 1004785006581 putative MPT binding site; other site 1004785006582 multidrug efflux protein; Reviewed; Region: PRK01766 1004785006583 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1004785006584 cation binding site [ion binding]; other site 1004785006585 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1004785006586 Ligand binding site; other site 1004785006587 metal-binding site 1004785006588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1004785006589 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1004785006590 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 1004785006591 Walker A motif; other site 1004785006592 ATP binding site [chemical binding]; other site 1004785006593 Walker B motif; other site 1004785006594 arginine finger; other site 1004785006595 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1004785006596 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 1004785006597 dimer interface [polypeptide binding]; other site 1004785006598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006599 catalytic residue [active] 1004785006600 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 1004785006601 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785006602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785006603 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785006604 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785006605 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785006606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785006607 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785006608 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785006609 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785006610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785006611 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785006612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785006613 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 1004785006614 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1004785006615 Prominin; Region: Prominin; pfam05478 1004785006616 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1004785006617 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785006618 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1004785006619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1004785006620 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1004785006621 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1004785006622 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004785006623 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004785006624 enoyl-CoA hydratase; Provisional; Region: PRK06688 1004785006625 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 1004785006626 substrate binding site [chemical binding]; other site 1004785006627 oxyanion hole (OAH) forming residues; other site 1004785006628 trimer interface [polypeptide binding]; other site 1004785006629 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1004785006630 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004785006631 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785006632 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 1004785006633 catalytic residues [active] 1004785006634 dimer interface [polypeptide binding]; other site 1004785006635 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785006636 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004785006637 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004785006638 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004785006639 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004785006640 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004785006641 CHRD domain; Region: CHRD; pfam07452 1004785006642 CHRD domain; Region: CHRD; pfam07452 1004785006643 CHRD domain; Region: CHRD; pfam07452 1004785006644 hypothetical protein; Provisional; Region: PRK05939 1004785006645 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 1004785006646 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785006647 catalytic residue [active] 1004785006648 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004785006649 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1004785006650 putative acyl-acceptor binding pocket; other site 1004785006651 NRDE protein; Region: NRDE; cl01315 1004785006652 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1004785006653 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 1004785006654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006655 homodimer interface [polypeptide binding]; other site 1004785006656 catalytic residue [active] 1004785006657 Peptidase S46; Region: Peptidase_S46; pfam10459 1004785006658 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1004785006659 short chain dehydrogenase; Provisional; Region: PRK07035 1004785006660 classical (c) SDRs; Region: SDR_c; cd05233 1004785006661 NAD(P) binding site [chemical binding]; other site 1004785006662 active site 1004785006663 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1004785006664 classical (c) SDRs; Region: SDR_c; cd05233 1004785006665 NAD(P) binding site [chemical binding]; other site 1004785006666 active site 1004785006667 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004785006668 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004785006669 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785006670 active site 1004785006671 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004785006672 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1004785006673 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1004785006674 conserved cys residue [active] 1004785006675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785006676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785006677 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785006678 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 1004785006679 N-terminal plug; other site 1004785006680 ligand-binding site [chemical binding]; other site 1004785006681 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1004785006682 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785006683 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785006684 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785006685 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785006686 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785006687 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 1004785006688 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1004785006689 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 1004785006690 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1004785006691 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 1004785006692 Ligand binding site [chemical binding]; other site 1004785006693 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1004785006694 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1004785006695 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1004785006696 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1004785006697 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1004785006698 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1004785006699 acyl-CoA esterase; Provisional; Region: PRK10673 1004785006700 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1004785006701 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1004785006702 flavodoxin FldA; Validated; Region: PRK09267 1004785006703 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 1004785006704 dimerization interface [polypeptide binding]; other site 1004785006705 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785006706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785006707 dimer interface [polypeptide binding]; other site 1004785006708 putative CheW interface [polypeptide binding]; other site 1004785006709 ferric uptake regulator; Provisional; Region: fur; PRK09462 1004785006710 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1004785006711 metal binding site 2 [ion binding]; metal-binding site 1004785006712 putative DNA binding helix; other site 1004785006713 metal binding site 1 [ion binding]; metal-binding site 1004785006714 dimer interface [polypeptide binding]; other site 1004785006715 structural Zn2+ binding site [ion binding]; other site 1004785006716 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1004785006717 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 1004785006718 homodimer interface [polypeptide binding]; other site 1004785006719 substrate-cofactor binding pocket; other site 1004785006720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006721 catalytic residue [active] 1004785006722 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1004785006723 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1004785006724 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1004785006725 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1004785006726 putative active site [active] 1004785006727 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1004785006728 S1 domain; Region: S1_2; pfam13509 1004785006729 OsmC-like protein; Region: OsmC; cl00767 1004785006730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785006731 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785006732 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785006733 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785006734 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785006735 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785006736 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004785006737 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1004785006738 aminotransferase AlaT; Validated; Region: PRK09265 1004785006739 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 1004785006740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006741 homodimer interface [polypeptide binding]; other site 1004785006742 catalytic residue [active] 1004785006743 5'-nucleotidase; Provisional; Region: PRK03826 1004785006744 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1004785006745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785006746 Zn2+ binding site [ion binding]; other site 1004785006747 Mg2+ binding site [ion binding]; other site 1004785006748 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1004785006749 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1004785006750 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1004785006751 Moco binding site; other site 1004785006752 metal coordination site [ion binding]; other site 1004785006753 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1004785006754 Predicted membrane protein [Function unknown]; Region: COG1238 1004785006755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1004785006756 SEC-C motif; Region: SEC-C; pfam02810 1004785006757 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004785006758 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 1004785006759 active site 1004785006760 Ca binding site [ion binding]; other site 1004785006761 catalytic site [active] 1004785006762 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004785006763 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1004785006764 NAD(P) binding site [chemical binding]; other site 1004785006765 Phosphotransferase enzyme family; Region: APH; pfam01636 1004785006766 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 1004785006767 putative active site [active] 1004785006768 putative substrate binding site [chemical binding]; other site 1004785006769 ATP binding site [chemical binding]; other site 1004785006770 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004785006771 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785006772 active site 1004785006773 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 1004785006774 catalytic core [active] 1004785006775 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 1004785006776 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785006777 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785006778 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 1004785006779 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1004785006780 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1004785006781 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1004785006782 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 1004785006783 catalytic residues [active] 1004785006784 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 1004785006785 active site 1004785006786 catalytic triad [active] 1004785006787 oxyanion hole [active] 1004785006788 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1004785006789 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 1004785006790 FeS/SAM binding site; other site 1004785006791 HemN C-terminal domain; Region: HemN_C; pfam06969 1004785006792 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1004785006793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785006794 Walker A/P-loop; other site 1004785006795 ATP binding site [chemical binding]; other site 1004785006796 Q-loop/lid; other site 1004785006797 ABC transporter signature motif; other site 1004785006798 Walker B; other site 1004785006799 D-loop; other site 1004785006800 H-loop/switch region; other site 1004785006801 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1004785006802 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 1004785006803 putative PBP binding loops; other site 1004785006804 dimer interface [polypeptide binding]; other site 1004785006805 ABC-ATPase subunit interface; other site 1004785006806 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1004785006807 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1004785006808 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 1004785006809 MoaE homodimer interface [polypeptide binding]; other site 1004785006810 MoaD interaction [polypeptide binding]; other site 1004785006811 active site residues [active] 1004785006812 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1004785006813 MoaE interaction surface [polypeptide binding]; other site 1004785006814 MoeB interaction surface [polypeptide binding]; other site 1004785006815 thiocarboxylated glycine; other site 1004785006816 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 1004785006817 trimer interface [polypeptide binding]; other site 1004785006818 dimer interface [polypeptide binding]; other site 1004785006819 putative active site [active] 1004785006820 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 1004785006821 MPT binding site; other site 1004785006822 trimer interface [polypeptide binding]; other site 1004785006823 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1004785006824 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 1004785006825 ATP binding site [chemical binding]; other site 1004785006826 substrate interface [chemical binding]; other site 1004785006827 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1004785006828 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004785006829 active site 1004785006830 Zn binding site [ion binding]; other site 1004785006831 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 1004785006832 active site 1004785006833 putative protease; Provisional; Region: PRK15452 1004785006834 Peptidase family U32; Region: Peptidase_U32; pfam01136 1004785006835 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1004785006836 aminotransferase; Validated; Region: PRK07337 1004785006837 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 1004785006838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006839 homodimer interface [polypeptide binding]; other site 1004785006840 catalytic residue [active] 1004785006841 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1004785006842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785006843 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1004785006844 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 1004785006845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006846 homodimer interface [polypeptide binding]; other site 1004785006847 catalytic residue [active] 1004785006848 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1004785006849 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1004785006850 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1004785006851 substrate binding site [chemical binding]; other site 1004785006852 THF binding site; other site 1004785006853 zinc-binding site [ion binding]; other site 1004785006854 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 1004785006855 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 1004785006856 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1004785006857 EamA-like transporter family; Region: EamA; pfam00892 1004785006858 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1004785006859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785006860 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 1004785006861 active site 1004785006862 metal binding site [ion binding]; metal-binding site 1004785006863 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1004785006864 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1004785006865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004785006866 DNA-binding site [nucleotide binding]; DNA binding site 1004785006867 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 1004785006868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785006869 homodimer interface [polypeptide binding]; other site 1004785006870 catalytic residue [active] 1004785006871 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1004785006872 AAA domain; Region: AAA_30; pfam13604 1004785006873 Family description; Region: UvrD_C_2; pfam13538 1004785006874 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1004785006875 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1004785006876 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1004785006877 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1004785006878 dUTPase; Region: dUTPase_2; pfam08761 1004785006879 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 1004785006880 active site 1004785006881 homodimer interface [polypeptide binding]; other site 1004785006882 metal binding site [ion binding]; metal-binding site 1004785006883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1004785006884 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1004785006885 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1004785006886 acyl-activating enzyme (AAE) consensus motif; other site 1004785006887 putative AMP binding site [chemical binding]; other site 1004785006888 putative active site [active] 1004785006889 putative CoA binding site [chemical binding]; other site 1004785006890 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785006891 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 1004785006892 PAS domain; Region: PAS_9; pfam13426 1004785006893 putative active site [active] 1004785006894 heme pocket [chemical binding]; other site 1004785006895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785006896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785006897 metal binding site [ion binding]; metal-binding site 1004785006898 active site 1004785006899 I-site; other site 1004785006900 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 1004785006901 conserved hypothetical protein; Region: MG423; TIGR00649 1004785006902 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785006903 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1004785006904 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1004785006905 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1004785006906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006907 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 1004785006908 dimerization interface [polypeptide binding]; other site 1004785006909 Protein of unknown function, DUF; Region: DUF413; cl10479 1004785006910 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 1004785006911 dimerization interface [polypeptide binding]; other site 1004785006912 putative DNA binding site [nucleotide binding]; other site 1004785006913 putative Zn2+ binding site [ion binding]; other site 1004785006914 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 1004785006915 active site residue [active] 1004785006916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785006917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785006918 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 1004785006919 dimerization interface [polypeptide binding]; other site 1004785006920 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1004785006921 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004785006922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006923 active site 1004785006924 phosphorylation site [posttranslational modification] 1004785006925 intermolecular recognition site; other site 1004785006926 dimerization interface [polypeptide binding]; other site 1004785006927 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 1004785006928 Walker A motif; other site 1004785006929 ATP binding site [chemical binding]; other site 1004785006930 Walker B motif; other site 1004785006931 arginine finger; other site 1004785006932 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785006933 CHASE3 domain; Region: CHASE3; pfam05227 1004785006934 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 1004785006935 dimer interface [polypeptide binding]; other site 1004785006936 phosphorylation site [posttranslational modification] 1004785006937 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 1004785006938 ATP binding site [chemical binding]; other site 1004785006939 Mg2+ binding site [ion binding]; other site 1004785006940 G-X-G motif; other site 1004785006941 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785006942 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006943 active site 1004785006944 phosphorylation site [posttranslational modification] 1004785006945 intermolecular recognition site; other site 1004785006946 dimerization interface [polypeptide binding]; other site 1004785006947 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785006948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006949 active site 1004785006950 phosphorylation site [posttranslational modification] 1004785006951 intermolecular recognition site; other site 1004785006952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785006953 dimerization interface [polypeptide binding]; other site 1004785006954 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 1004785006955 dimer interface [polypeptide binding]; other site 1004785006956 phosphorylation site [posttranslational modification] 1004785006957 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 1004785006958 ATP binding site [chemical binding]; other site 1004785006959 Mg2+ binding site [ion binding]; other site 1004785006960 G-X-G motif; other site 1004785006961 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785006962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006963 active site 1004785006964 phosphorylation site [posttranslational modification] 1004785006965 intermolecular recognition site; other site 1004785006966 dimerization interface [polypeptide binding]; other site 1004785006967 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785006968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785006969 active site 1004785006970 phosphorylation site [posttranslational modification] 1004785006971 intermolecular recognition site; other site 1004785006972 dimerization interface [polypeptide binding]; other site 1004785006973 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1004785006974 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1004785006975 conserved cys residue [active] 1004785006976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785006977 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1004785006978 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1004785006979 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 1004785006980 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004785006981 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1004785006982 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1004785006983 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004785006984 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1004785006985 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1004785006986 putative active site [active] 1004785006987 Zn binding site [ion binding]; other site 1004785006988 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1004785006989 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004785006990 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004785006991 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 1004785006992 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1004785006993 SelR domain; Region: SelR; pfam01641 1004785006994 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004785006995 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1004785006996 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1004785006997 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1004785006998 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 1004785006999 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1004785007000 active site 1004785007001 catalytic site [active] 1004785007002 glycogen branching enzyme; Provisional; Region: PRK05402 1004785007003 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1004785007004 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1004785007005 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1004785007006 active site 1004785007007 catalytic site [active] 1004785007008 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1004785007009 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1004785007010 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1004785007011 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1004785007012 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004785007013 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004785007014 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1004785007015 active site 1004785007016 phosphate binding residues; other site 1004785007017 catalytic residues [active] 1004785007018 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1004785007019 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1004785007020 active site 1004785007021 intersubunit interface [polypeptide binding]; other site 1004785007022 catalytic residue [active] 1004785007023 glucokinase; Provisional; Region: glk; PRK00292 1004785007024 glucokinase, proteobacterial type; Region: glk; TIGR00749 1004785007025 phosphogluconate dehydratase; Validated; Region: PRK09054 1004785007026 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1004785007027 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1004785007028 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 1004785007029 putative active site [active] 1004785007030 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1004785007031 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1004785007032 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1004785007033 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1004785007034 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1004785007035 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 1004785007036 putative active site [active] 1004785007037 pyruvate kinase; Provisional; Region: PRK05826 1004785007038 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 1004785007039 domain interfaces; other site 1004785007040 active site 1004785007041 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1004785007042 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1004785007043 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 1004785007044 FeS/SAM binding site; other site 1004785007045 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1004785007046 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1004785007047 BON domain; Region: BON; pfam04972 1004785007048 BON domain; Region: BON; pfam04972 1004785007049 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004785007050 putative catalytic site [active] 1004785007051 putative metal binding site [ion binding]; other site 1004785007052 putative phosphate binding site [ion binding]; other site 1004785007053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785007054 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 1004785007055 active site 1004785007056 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 1004785007057 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 1004785007058 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1004785007059 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1004785007060 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1004785007061 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1004785007062 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1004785007063 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1004785007064 NADP binding site [chemical binding]; other site 1004785007065 homodimer interface [polypeptide binding]; other site 1004785007066 active site 1004785007067 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1004785007068 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1004785007069 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1004785007070 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1004785007071 DctM-like transporters; Region: DctM; pfam06808 1004785007072 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1004785007073 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785007074 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785007075 DNA binding site [nucleotide binding] 1004785007076 domain linker motif; other site 1004785007077 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1004785007078 putative dimerization interface [polypeptide binding]; other site 1004785007079 putative ligand binding site [chemical binding]; other site 1004785007080 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1004785007081 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1004785007082 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1004785007083 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1004785007084 glucuronate isomerase; Reviewed; Region: PRK02925 1004785007085 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1004785007086 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1004785007087 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1004785007088 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1004785007089 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1004785007090 active site 1004785007091 intersubunit interface [polypeptide binding]; other site 1004785007092 catalytic residue [active] 1004785007093 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1004785007094 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004785007095 substrate binding site [chemical binding]; other site 1004785007096 ATP binding site [chemical binding]; other site 1004785007097 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1004785007098 active site 1004785007099 catalytic triad [active] 1004785007100 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785007101 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 1004785007102 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 1004785007103 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1004785007104 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 1004785007105 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1004785007106 putative pectinesterase; Region: PLN02432; cl01911 1004785007107 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1004785007108 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785007109 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 1004785007110 dimer interface [polypeptide binding]; other site 1004785007111 phosphorylation site [posttranslational modification] 1004785007112 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 1004785007113 ATP binding site [chemical binding]; other site 1004785007114 Mg2+ binding site [ion binding]; other site 1004785007115 G-X-G motif; other site 1004785007116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785007117 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785007118 active site 1004785007119 phosphorylation site [posttranslational modification] 1004785007120 intermolecular recognition site; other site 1004785007121 dimerization interface [polypeptide binding]; other site 1004785007122 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785007123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785007124 active site 1004785007125 phosphorylation site [posttranslational modification] 1004785007126 intermolecular recognition site; other site 1004785007127 dimerization interface [polypeptide binding]; other site 1004785007128 WYL domain; Region: WYL; pfam13280 1004785007129 PEP-CTERM motif; Region: VPEP; pfam07589 1004785007130 Endonuclease I; Region: Endonuclease_1; pfam04231 1004785007131 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1004785007132 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 1004785007133 generic binding surface I; other site 1004785007134 generic binding surface II; other site 1004785007135 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1004785007136 putative active site [active] 1004785007137 putative catalytic site [active] 1004785007138 putative Mg binding site IVb [ion binding]; other site 1004785007139 putative phosphate binding site [ion binding]; other site 1004785007140 putative DNA binding site [nucleotide binding]; other site 1004785007141 putative Mg binding site IVa [ion binding]; other site 1004785007142 Peptidase family M1; Region: Peptidase_M1; pfam01433 1004785007143 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1004785007144 Zn binding site [ion binding]; other site 1004785007145 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1004785007146 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1004785007147 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 1004785007148 dimerization interface [polypeptide binding]; other site 1004785007149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785007150 dimer interface [polypeptide binding]; other site 1004785007151 putative CheW interface [polypeptide binding]; other site 1004785007152 DNA topoisomerase I; Validated; Region: PRK07219 1004785007153 PBP superfamily domain; Region: PBP_like_2; cl17296 1004785007154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785007155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785007156 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 1004785007157 dimerization interface [polypeptide binding]; other site 1004785007158 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1004785007159 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1004785007160 potential catalytic triad [active] 1004785007161 conserved cys residue [active] 1004785007162 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1004785007163 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1004785007164 dimer interface [polypeptide binding]; other site 1004785007165 active site 1004785007166 metal binding site [ion binding]; metal-binding site 1004785007167 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785007168 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1004785007169 active site 1004785007170 FMN binding site [chemical binding]; other site 1004785007171 substrate binding site [chemical binding]; other site 1004785007172 homotetramer interface [polypeptide binding]; other site 1004785007173 catalytic residue [active] 1004785007174 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1004785007175 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 1004785007176 putative FMN binding site [chemical binding]; other site 1004785007177 cheY-homologous receiver domain; Region: REC; smart00448 1004785007178 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004785007179 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785007180 Zn2+ binding site [ion binding]; other site 1004785007181 Mg2+ binding site [ion binding]; other site 1004785007182 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785007183 GAF domain; Region: GAF; pfam01590 1004785007184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785007185 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 1004785007186 dimer interface [polypeptide binding]; other site 1004785007187 phosphorylation site [posttranslational modification] 1004785007188 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 1004785007189 ATP binding site [chemical binding]; other site 1004785007190 Mg2+ binding site [ion binding]; other site 1004785007191 G-X-G motif; other site 1004785007192 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004785007193 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785007194 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004785007195 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1004785007196 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1004785007197 YrhK-like protein; Region: YrhK; pfam14145 1004785007198 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1004785007199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1004785007200 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1004785007201 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 1004785007202 transmembrane helices; other site 1004785007203 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1004785007204 trimer interface [polypeptide binding]; other site 1004785007205 active site 1004785007206 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1004785007207 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 1004785007208 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1004785007209 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1004785007210 active site 1004785007211 HIGH motif; other site 1004785007212 KMSKS motif; other site 1004785007213 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1004785007214 anticodon binding site; other site 1004785007215 tRNA binding surface [nucleotide binding]; other site 1004785007216 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 1004785007217 dimer interface [polypeptide binding]; other site 1004785007218 putative tRNA-binding site [nucleotide binding]; other site 1004785007219 mechanosensitive channel MscS; Provisional; Region: PRK10334 1004785007220 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785007221 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1004785007222 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1004785007223 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1004785007224 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 1004785007225 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785007226 catalytic residue [active] 1004785007227 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785007228 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785007229 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785007230 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1004785007231 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1004785007232 active site 1004785007233 HIGH motif; other site 1004785007234 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1004785007235 KMSKS motif; other site 1004785007236 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1004785007237 tRNA binding surface [nucleotide binding]; other site 1004785007238 anticodon binding site; other site 1004785007239 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 1004785007240 substrate binding site [chemical binding]; other site 1004785007241 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1004785007242 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004785007243 putative active site [active] 1004785007244 putative metal binding site [ion binding]; other site 1004785007245 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 1004785007246 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1004785007247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785007248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785007249 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1004785007250 putative effector binding pocket; other site 1004785007251 putative dimerization interface [polypeptide binding]; other site 1004785007252 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004785007253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785007254 NAD(P) binding site [chemical binding]; other site 1004785007255 active site 1004785007256 sucrose phosphorylase; Provisional; Region: PRK13840 1004785007257 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 1004785007258 active site 1004785007259 homodimer interface [polypeptide binding]; other site 1004785007260 catalytic site [active] 1004785007261 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004785007262 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 1004785007263 dimerization interface [polypeptide binding]; other site 1004785007264 putative DNA binding site [nucleotide binding]; other site 1004785007265 putative Zn2+ binding site [ion binding]; other site 1004785007266 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1004785007267 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1004785007268 NADP binding site [chemical binding]; other site 1004785007269 dimer interface [polypeptide binding]; other site 1004785007270 potential frameshift: common BLAST hit: gi|332141391|ref|YP_004427129.1| catalase 1004785007271 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1004785007272 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1004785007273 putative NAD(P) binding site [chemical binding]; other site 1004785007274 dimer interface [polypeptide binding]; other site 1004785007275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785007276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785007277 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 1004785007278 putative effector binding pocket; other site 1004785007279 dimerization interface [polypeptide binding]; other site 1004785007280 potential frameshift: common BLAST hit: gi|332141388|ref|YP_004427126.1| serine carboxypeptidase 1004785007281 Protein of unknown function, DUF479; Region: DUF479; cl01203 1004785007282 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1004785007283 active site 1004785007284 dinuclear metal binding site [ion binding]; other site 1004785007285 dimerization interface [polypeptide binding]; other site 1004785007286 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1004785007287 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1004785007288 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 1004785007289 active site 1004785007290 tetramer interface [polypeptide binding]; other site 1004785007291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785007292 active site 1004785007293 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1004785007294 Colicin V production protein; Region: Colicin_V; cl00567 1004785007295 cell division protein DedD; Provisional; Region: PRK11633 1004785007296 Sporulation related domain; Region: SPOR; pfam05036 1004785007297 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1004785007298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785007299 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1004785007300 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1004785007301 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1004785007302 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1004785007303 dimerization interface 3.5A [polypeptide binding]; other site 1004785007304 active site 1004785007305 FimV N-terminal domain; Region: FimV_core; TIGR03505 1004785007306 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1004785007307 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004785007308 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1004785007309 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1004785007310 ligand binding site [chemical binding]; other site 1004785007311 NAD binding site [chemical binding]; other site 1004785007312 catalytic site [active] 1004785007313 homodimer interface [polypeptide binding]; other site 1004785007314 aldolase II superfamily protein; Provisional; Region: PRK07044 1004785007315 intersubunit interface [polypeptide binding]; other site 1004785007316 active site 1004785007317 Zn2+ binding site [ion binding]; other site 1004785007318 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1004785007319 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 1004785007320 ligand binding site [chemical binding]; other site 1004785007321 flexible hinge region; other site 1004785007322 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1004785007323 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1004785007324 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1004785007325 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1004785007326 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 1004785007327 dimer interface [polypeptide binding]; other site 1004785007328 active site 1004785007329 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1004785007330 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004785007331 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1004785007332 putative AMP binding site [chemical binding]; other site 1004785007333 putative active site [active] 1004785007334 acyl-activating enzyme (AAE) consensus motif; other site 1004785007335 putative CoA binding site [chemical binding]; other site 1004785007336 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1004785007337 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1004785007338 Predicted integral membrane protein [Function unknown]; Region: COG5616 1004785007339 Predicted integral membrane protein [Function unknown]; Region: COG5616 1004785007340 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785007341 Walker A/P-loop; other site 1004785007342 ATP binding site [chemical binding]; other site 1004785007343 ABC transporter; Region: ABC_tran; pfam00005 1004785007344 Q-loop/lid; other site 1004785007345 ABC transporter signature motif; other site 1004785007346 Walker B; other site 1004785007347 D-loop; other site 1004785007348 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 1004785007349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785007350 Walker A/P-loop; other site 1004785007351 ATP binding site [chemical binding]; other site 1004785007352 Q-loop/lid; other site 1004785007353 ABC transporter signature motif; other site 1004785007354 Walker B; other site 1004785007355 D-loop; other site 1004785007356 H-loop/switch region; other site 1004785007357 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1004785007358 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004785007359 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004785007360 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 1004785007361 dimer interface [polypeptide binding]; other site 1004785007362 phosphorylation site [posttranslational modification] 1004785007363 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 1004785007364 ATP binding site [chemical binding]; other site 1004785007365 Mg2+ binding site [ion binding]; other site 1004785007366 G-X-G motif; other site 1004785007367 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785007368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1004785007369 active site 1004785007370 dimerization interface [polypeptide binding]; other site 1004785007371 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785007372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785007373 active site 1004785007374 phosphorylation site [posttranslational modification] 1004785007375 intermolecular recognition site; other site 1004785007376 dimerization interface [polypeptide binding]; other site 1004785007377 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1004785007378 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785007379 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785007380 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785007381 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785007382 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785007383 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785007384 YfcL protein; Region: YfcL; pfam08891 1004785007385 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1004785007386 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1004785007387 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 1004785007388 active site 1004785007389 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004785007390 catalytic motif [active] 1004785007391 Catalytic residue [active] 1004785007392 HopJ type III effector protein; Region: HopJ; pfam08888 1004785007393 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785007394 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 1004785007395 active site 1004785007396 FMN binding site [chemical binding]; other site 1004785007397 2,4-decadienoyl-CoA binding site; other site 1004785007398 catalytic residue [active] 1004785007399 4Fe-4S cluster binding site [ion binding]; other site 1004785007400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1004785007401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785007402 enoyl-CoA hydratase; Provisional; Region: PRK06142 1004785007403 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 1004785007404 substrate binding site [chemical binding]; other site 1004785007405 oxyanion hole (OAH) forming residues; other site 1004785007406 trimer interface [polypeptide binding]; other site 1004785007407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785007408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785007409 WHG domain; Region: WHG; pfam13305 1004785007410 choline dehydrogenase; Validated; Region: PRK02106 1004785007411 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004785007412 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1004785007413 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1004785007414 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004785007415 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785007416 Bacterial transcriptional repressor; Region: TetR; pfam13972 1004785007417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1004785007418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1004785007419 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 1004785007420 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 1004785007421 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1004785007422 active site 1004785007423 nucleophile elbow; other site 1004785007424 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1004785007425 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1004785007426 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785007427 fatty acid metabolism regulator; Provisional; Region: PRK04984 1004785007428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004785007429 DNA-binding site [nucleotide binding]; DNA binding site 1004785007430 FadR C-terminal domain; Region: FadR_C; pfam07840 1004785007431 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1004785007432 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1004785007433 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004785007434 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004785007435 hypothetical protein; Provisional; Region: PRK05170 1004785007436 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1004785007437 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 1004785007438 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1004785007439 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 1004785007440 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004785007441 YcgL domain; Region: YcgL; pfam05166 1004785007442 ribonuclease D; Provisional; Region: PRK10829 1004785007443 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1004785007444 catalytic site [active] 1004785007445 putative active site [active] 1004785007446 putative substrate binding site [chemical binding]; other site 1004785007447 HRDC domain; Region: HRDC; pfam00570 1004785007448 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1004785007449 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1004785007450 acyl-activating enzyme (AAE) consensus motif; other site 1004785007451 putative AMP binding site [chemical binding]; other site 1004785007452 putative active site [active] 1004785007453 putative CoA binding site [chemical binding]; other site 1004785007454 PGAP1-like protein; Region: PGAP1; pfam07819 1004785007455 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785007456 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1004785007457 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1004785007458 Glycoprotease family; Region: Peptidase_M22; pfam00814 1004785007459 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1004785007460 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1004785007461 DEAD_2; Region: DEAD_2; pfam06733 1004785007462 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1004785007463 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1004785007464 Cation efflux family; Region: Cation_efflux; cl00316 1004785007465 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1004785007466 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1004785007467 iron-sulfur cluster [ion binding]; other site 1004785007468 [2Fe-2S] cluster binding site [ion binding]; other site 1004785007469 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1004785007470 alpha subunit interface [polypeptide binding]; other site 1004785007471 active site 1004785007472 substrate binding site [chemical binding]; other site 1004785007473 Fe binding site [ion binding]; other site 1004785007474 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1004785007475 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1004785007476 active site 1004785007477 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1004785007478 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004785007479 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 1004785007480 Ca2+ binding site [ion binding]; other site 1004785007481 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1004785007482 active site 1004785007483 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 1004785007484 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004785007485 active site 1004785007486 catalytic site [active] 1004785007487 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1004785007488 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1004785007489 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1004785007490 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1004785007491 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1004785007492 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1004785007493 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 1004785007494 histidinol dehydrogenase; Region: hisD; TIGR00069 1004785007495 NAD binding site [chemical binding]; other site 1004785007496 dimerization interface [polypeptide binding]; other site 1004785007497 product binding site; other site 1004785007498 substrate binding site [chemical binding]; other site 1004785007499 zinc binding site [ion binding]; other site 1004785007500 catalytic residues [active] 1004785007501 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1004785007502 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 1004785007503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785007504 homodimer interface [polypeptide binding]; other site 1004785007505 catalytic residue [active] 1004785007506 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1004785007507 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 1004785007508 active site 1004785007509 motif I; other site 1004785007510 motif II; other site 1004785007511 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1004785007512 putative active site pocket [active] 1004785007513 4-fold oligomerization interface [polypeptide binding]; other site 1004785007514 metal binding residues [ion binding]; metal-binding site 1004785007515 3-fold/trimer interface [polypeptide binding]; other site 1004785007516 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1004785007517 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1004785007518 putative active site [active] 1004785007519 oxyanion strand; other site 1004785007520 catalytic triad [active] 1004785007521 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 1004785007522 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1004785007523 catalytic residues [active] 1004785007524 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 1004785007525 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1004785007526 substrate binding site [chemical binding]; other site 1004785007527 glutamase interaction surface [polypeptide binding]; other site 1004785007528 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1004785007529 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1004785007530 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 1004785007531 metal binding site [ion binding]; metal-binding site 1004785007532 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1004785007533 Cache domain; Region: Cache_1; pfam02743 1004785007534 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 1004785007535 dimerization interface [polypeptide binding]; other site 1004785007536 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785007537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785007538 dimer interface [polypeptide binding]; other site 1004785007539 putative CheW interface [polypeptide binding]; other site 1004785007540 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785007541 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785007542 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785007543 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785007544 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004785007545 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004785007546 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 1004785007547 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 1004785007548 Catalytic site [active] 1004785007549 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1004785007550 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785007551 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 1004785007552 N-terminal plug; other site 1004785007553 ligand-binding site [chemical binding]; other site 1004785007554 MAPEG family; Region: MAPEG; cl09190 1004785007555 adenylate kinase; Reviewed; Region: adk; PRK00279 1004785007556 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 1004785007557 AMP-binding site [chemical binding]; other site 1004785007558 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1004785007559 heat shock protein 90; Provisional; Region: PRK05218 1004785007560 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 1004785007561 ATP binding site [chemical binding]; other site 1004785007562 Mg2+ binding site [ion binding]; other site 1004785007563 G-X-G motif; other site 1004785007564 recombination protein RecR; Reviewed; Region: recR; PRK00076 1004785007565 RecR protein; Region: RecR; pfam02132 1004785007566 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 1004785007567 putative active site [active] 1004785007568 putative metal-binding site [ion binding]; other site 1004785007569 tetramer interface [polypeptide binding]; other site 1004785007570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785007571 AAA domain; Region: AAA_23; pfam13476 1004785007572 Walker A/P-loop; other site 1004785007573 ATP binding site [chemical binding]; other site 1004785007574 Q-loop/lid; other site 1004785007575 AAA domain; Region: AAA_21; pfam13304 1004785007576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1004785007577 ABC transporter signature motif; other site 1004785007578 Walker B; other site 1004785007579 D-loop; other site 1004785007580 H-loop/switch region; other site 1004785007581 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 1004785007582 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1004785007583 DNA binding residues [nucleotide binding] 1004785007584 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 1004785007585 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1004785007586 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 1004785007587 active site 1004785007588 DNA binding site [nucleotide binding] 1004785007589 Int/Topo IB signature motif; other site 1004785007590 MerC mercury resistance protein; Region: MerC; cl03934 1004785007591 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1004785007592 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1004785007593 DNA binding residues [nucleotide binding] 1004785007594 dimer interface [polypeptide binding]; other site 1004785007595 mercury binding site [ion binding]; other site 1004785007596 hypothetical protein; Validated; Region: PRK00153 1004785007597 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1004785007598 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 1004785007599 Walker A motif; other site 1004785007600 ATP binding site [chemical binding]; other site 1004785007601 Walker B motif; other site 1004785007602 arginine finger; other site 1004785007603 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1004785007604 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1004785007605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785007606 active site 1004785007607 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1004785007608 hypothetical protein; Provisional; Region: PRK05409 1004785007609 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 1004785007610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785007611 DNA binding site [nucleotide binding] 1004785007612 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785007613 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 1004785007614 PAS domain; Region: PAS_9; pfam13426 1004785007615 putative active site [active] 1004785007616 heme pocket [chemical binding]; other site 1004785007617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785007618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785007619 metal binding site [ion binding]; metal-binding site 1004785007620 active site 1004785007621 I-site; other site 1004785007622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785007623 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1004785007624 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1004785007625 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1004785007626 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 1004785007627 binding surface 1004785007628 TPR motif; other site 1004785007629 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 1004785007630 TPR motif; other site 1004785007631 binding surface 1004785007632 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 1004785007633 binding surface 1004785007634 TPR motif; other site 1004785007635 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 1004785007636 TPR motif; other site 1004785007637 binding surface 1004785007638 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 1004785007639 TPR motif; other site 1004785007640 binding surface 1004785007641 D-lactate dehydrogenase; Provisional; Region: PRK11183 1004785007642 FAD binding domain; Region: FAD_binding_4; pfam01565 1004785007643 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1004785007644 Homeodomain-like domain; Region: HTH_23; cl17451 1004785007645 HTH-like domain; Region: HTH_21; pfam13276 1004785007646 Integrase core domain; Region: rve; pfam00665 1004785007647 Integrase core domain; Region: rve_2; pfam13333 1004785007648 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1004785007649 Clp amino terminal domain; Region: Clp_N; pfam02861 1004785007650 Clp amino terminal domain; Region: Clp_N; pfam02861 1004785007651 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 1004785007652 Walker A motif; other site 1004785007653 ATP binding site [chemical binding]; other site 1004785007654 Walker B motif; other site 1004785007655 arginine finger; other site 1004785007656 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 1004785007657 Walker A motif; other site 1004785007658 ATP binding site [chemical binding]; other site 1004785007659 Walker B motif; other site 1004785007660 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1004785007661 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1004785007662 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1004785007663 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1004785007664 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 1004785007665 RNA binding surface [nucleotide binding]; other site 1004785007666 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004785007667 active site 1004785007668 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1004785007669 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1004785007670 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004785007671 RNA polymerase sigma factor; Provisional; Region: PRK11924 1004785007672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785007673 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 1004785007674 DNA binding residues [nucleotide binding] 1004785007675 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1004785007676 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 1004785007677 short chain dehydrogenase; Provisional; Region: PRK06101 1004785007678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785007679 NAD(P) binding site [chemical binding]; other site 1004785007680 active site 1004785007681 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1004785007682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004785007683 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1004785007684 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1004785007685 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 1004785007686 S-adenosylmethionine binding site [chemical binding]; other site 1004785007687 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1004785007688 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1004785007689 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785007690 ligand binding site [chemical binding]; other site 1004785007691 flagellar motor protein PomA; Reviewed; Region: PRK08990 1004785007692 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1004785007693 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1004785007694 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1004785007695 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1004785007696 substrate binding pocket [chemical binding]; other site 1004785007697 chain length determination region; other site 1004785007698 substrate-Mg2+ binding site; other site 1004785007699 catalytic residues [active] 1004785007700 aspartate-rich region 1; other site 1004785007701 active site lid residues [active] 1004785007702 aspartate-rich region 2; other site 1004785007703 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1004785007704 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 1004785007705 TPP-binding site; other site 1004785007706 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 1004785007707 PYR/PP interface [polypeptide binding]; other site 1004785007708 dimer interface [polypeptide binding]; other site 1004785007709 TPP binding site [chemical binding]; other site 1004785007710 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004785007711 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1004785007712 tetramer interfaces [polypeptide binding]; other site 1004785007713 binuclear metal-binding site [ion binding]; other site 1004785007714 thiamine monophosphate kinase; Provisional; Region: PRK05731 1004785007715 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 1004785007716 ATP binding site [chemical binding]; other site 1004785007717 dimerization interface [polypeptide binding]; other site 1004785007718 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 1004785007719 putative RNA binding site [nucleotide binding]; other site 1004785007720 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 1004785007721 homopentamer interface [polypeptide binding]; other site 1004785007722 active site 1004785007723 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1004785007724 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1004785007725 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1004785007726 dimerization interface [polypeptide binding]; other site 1004785007727 active site 1004785007728 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1004785007729 Lumazine binding domain; Region: Lum_binding; pfam00677 1004785007730 Lumazine binding domain; Region: Lum_binding; pfam00677 1004785007731 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1004785007732 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 1004785007733 catalytic motif [active] 1004785007734 Zn binding site [ion binding]; other site 1004785007735 RibD C-terminal domain; Region: RibD_C; cl17279 1004785007736 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1004785007737 ATP cone domain; Region: ATP-cone; pfam03477 1004785007738 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1004785007739 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 1004785007740 dimer interface [polypeptide binding]; other site 1004785007741 active site 1004785007742 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1004785007743 folate binding site [chemical binding]; other site 1004785007744 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1004785007745 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1004785007746 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 1004785007747 trimer interface [polypeptide binding]; other site 1004785007748 active site 1004785007749 UDP-GlcNAc binding site [chemical binding]; other site 1004785007750 lipid binding site [chemical binding]; lipid-binding site 1004785007751 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1004785007752 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785007753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785007754 ABC transporter; Region: ABC_tran_2; pfam12848 1004785007755 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785007756 PilZ domain; Region: PilZ; cl01260 1004785007757 DNA repair protein RadA; Provisional; Region: PRK11823 1004785007758 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 1004785007759 Walker A motif/ATP binding site; other site 1004785007760 ATP binding site [chemical binding]; other site 1004785007761 Walker B motif; other site 1004785007762 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1004785007763 PilZ domain; Region: PilZ; pfam07238 1004785007764 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1004785007765 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 1004785007766 motif II; other site 1004785007767 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004785007768 active site 1004785007769 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1004785007770 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1004785007771 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1004785007772 GTPase Era; Reviewed; Region: era; PRK00089 1004785007773 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1004785007774 G1 box; other site 1004785007775 GTP/Mg2+ binding site [chemical binding]; other site 1004785007776 Switch I region; other site 1004785007777 G2 box; other site 1004785007778 Switch II region; other site 1004785007779 G3 box; other site 1004785007780 G4 box; other site 1004785007781 G5 box; other site 1004785007782 KH domain; Region: KH_2; pfam07650 1004785007783 ribonuclease III; Reviewed; Region: rnc; PRK00102 1004785007784 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 1004785007785 dimerization interface [polypeptide binding]; other site 1004785007786 active site 1004785007787 metal binding site [ion binding]; metal-binding site 1004785007788 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 1004785007789 dsRNA binding site [nucleotide binding]; other site 1004785007790 signal peptidase I; Provisional; Region: PRK10861 1004785007791 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 1004785007792 Catalytic site [active] 1004785007793 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 1004785007794 GTP-binding protein LepA; Provisional; Region: PRK05433 1004785007795 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1004785007796 G1 box; other site 1004785007797 putative GEF interaction site [polypeptide binding]; other site 1004785007798 GTP/Mg2+ binding site [chemical binding]; other site 1004785007799 Switch I region; other site 1004785007800 G2 box; other site 1004785007801 G3 box; other site 1004785007802 Switch II region; other site 1004785007803 G4 box; other site 1004785007804 G5 box; other site 1004785007805 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 1004785007806 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 1004785007807 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1004785007808 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1004785007809 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1004785007810 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 1004785007811 Mu-like prophage protein [General function prediction only]; Region: COG3941 1004785007812 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1004785007813 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1004785007814 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1004785007815 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1004785007816 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 1004785007817 dimer interface [polypeptide binding]; other site 1004785007818 ssDNA binding site [nucleotide binding]; other site 1004785007819 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1004785007820 Antirestriction protein; Region: Antirestrict; pfam03230 1004785007821 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1004785007822 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1004785007823 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1004785007824 Terminase-like family; Region: Terminase_6; pfam03237 1004785007825 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1004785007826 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1004785007827 ParB-like nuclease domain; Region: ParBc; pfam02195 1004785007828 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 1004785007829 S-adenosylmethionine binding site [chemical binding]; other site 1004785007830 Mor transcription activator family; Region: Mor; cl02360 1004785007831 VRR-NUC domain; Region: VRR_NUC; pfam08774 1004785007832 Protein of unknown function (DUF3283); Region: DUF3283; pfam11686 1004785007833 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1004785007834 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1004785007835 Predicted transcriptional regulator [Transcription]; Region: COG2932 1004785007836 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 1004785007837 sequence-specific DNA binding site [nucleotide binding]; other site 1004785007838 salt bridge; other site 1004785007839 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1004785007840 RecT family; Region: RecT; pfam03837 1004785007841 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 1004785007842 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1004785007843 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 1004785007844 active site 1004785007845 DNA binding site [nucleotide binding] 1004785007846 Int/Topo IB signature motif; other site 1004785007847 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1004785007848 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1004785007849 MucB/RseB family; Region: MucB_RseB; pfam03888 1004785007850 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1004785007851 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1004785007852 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1004785007853 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785007854 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 1004785007855 DNA binding residues [nucleotide binding] 1004785007856 L-aspartate oxidase; Provisional; Region: PRK09077 1004785007857 L-aspartate oxidase; Provisional; Region: PRK06175 1004785007858 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1004785007859 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1004785007860 active site 1004785007861 catalytic site [active] 1004785007862 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1004785007863 putative global regulator; Reviewed; Region: PRK09559 1004785007864 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1004785007865 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1004785007866 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004785007867 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1004785007868 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1004785007869 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1004785007870 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 1004785007871 homodimer interface [polypeptide binding]; other site 1004785007872 NAD binding pocket [chemical binding]; other site 1004785007873 ATP binding pocket [chemical binding]; other site 1004785007874 Mg binding site [ion binding]; other site 1004785007875 active-site loop [active] 1004785007876 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004785007877 Type II transport protein GspH; Region: GspH; pfam12019 1004785007878 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004785007879 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1004785007880 hypothetical protein; Provisional; Region: PRK10506 1004785007881 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1004785007882 Type II transport protein GspH; Region: GspH; pfam12019 1004785007883 hypothetical protein; Provisional; Region: PRK10557 1004785007884 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1004785007885 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1004785007886 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1004785007887 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1004785007888 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1004785007889 PilX N-terminal; Region: PilX_N; pfam14341 1004785007890 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004785007891 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1004785007892 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1004785007893 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1004785007894 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1004785007895 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1004785007896 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004785007897 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1004785007898 lipoprotein signal peptidase; Provisional; Region: PRK14787 1004785007899 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1004785007900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004785007901 active site 1004785007902 HIGH motif; other site 1004785007903 nucleotide binding site [chemical binding]; other site 1004785007904 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004785007905 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1004785007906 active site 1004785007907 KMSKS motif; other site 1004785007908 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1004785007909 tRNA binding surface [nucleotide binding]; other site 1004785007910 anticodon binding site; other site 1004785007911 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004785007912 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1004785007913 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1004785007914 active site 1004785007915 Riboflavin kinase; Region: Flavokinase; smart00904 1004785007916 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1004785007917 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1004785007918 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1004785007919 short chain dehydrogenase; Provisional; Region: PRK08251 1004785007920 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 1004785007921 putative NAD(P) binding site [chemical binding]; other site 1004785007922 active site 1004785007923 Phosphotransferase enzyme family; Region: APH; pfam01636 1004785007924 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 1004785007925 putative active site [active] 1004785007926 putative substrate binding site [chemical binding]; other site 1004785007927 ATP binding site [chemical binding]; other site 1004785007928 short chain dehydrogenase; Provisional; Region: PRK05650 1004785007929 classical (c) SDRs; Region: SDR_c; cd05233 1004785007930 NAD(P) binding site [chemical binding]; other site 1004785007931 active site 1004785007932 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1004785007933 Sodium Bile acid symporter family; Region: SBF; pfam01758 1004785007934 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004785007935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785007936 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 1004785007937 substrate binding pocket [chemical binding]; other site 1004785007938 dimerization interface [polypeptide binding]; other site 1004785007939 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004785007940 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1004785007941 putative active site [active] 1004785007942 putative metal binding site [ion binding]; other site 1004785007943 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 1004785007944 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004785007945 putative acyl-acceptor binding pocket; other site 1004785007946 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1004785007947 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1004785007948 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1004785007949 metal binding site [ion binding]; metal-binding site 1004785007950 dimer interface [polypeptide binding]; other site 1004785007951 periplasmic folding chaperone; Provisional; Region: PRK10788 1004785007952 SurA N-terminal domain; Region: SurA_N_3; cl07813 1004785007953 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1004785007954 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 1004785007955 IHF dimer interface [polypeptide binding]; other site 1004785007956 IHF - DNA interface [nucleotide binding]; other site 1004785007957 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1004785007958 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1004785007959 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1004785007960 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 1004785007961 Walker A motif; other site 1004785007962 ATP binding site [chemical binding]; other site 1004785007963 Walker B motif; other site 1004785007964 arginine finger; other site 1004785007965 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1004785007966 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1004785007967 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1004785007968 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 1004785007969 Walker A motif; other site 1004785007970 ATP binding site [chemical binding]; other site 1004785007971 Walker B motif; other site 1004785007972 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004785007973 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1004785007974 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1004785007975 oligomer interface [polypeptide binding]; other site 1004785007976 active site residues [active] 1004785007977 trigger factor; Provisional; Region: tig; PRK01490 1004785007978 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004785007979 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1004785007980 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1004785007981 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1004785007982 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1004785007983 homodimer interface [polypeptide binding]; other site 1004785007984 NADP binding site [chemical binding]; other site 1004785007985 substrate binding site [chemical binding]; other site 1004785007986 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1004785007987 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1004785007988 homodimer interaction site [polypeptide binding]; other site 1004785007989 cofactor binding site; other site 1004785007990 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1004785007991 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 1004785007992 dimer interface [polypeptide binding]; other site 1004785007993 motif 1; other site 1004785007994 active site 1004785007995 motif 2; other site 1004785007996 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 1004785007997 putative deacylase active site [active] 1004785007998 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 1004785007999 active site 1004785008000 motif 3; other site 1004785008001 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 1004785008002 anticodon binding site; other site 1004785008003 potential frameshift: common BLAST hit: gi|332140464|ref|YP_004426202.1| beta-lactamase-like protein 1004785008004 Phospholipase A1; Region: PLA1; pfam02253 1004785008005 dimerization interface [polypeptide binding]; other site 1004785008006 substrate binding site [chemical binding]; other site 1004785008007 active site 1004785008008 calcium binding site [ion binding]; other site 1004785008009 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1004785008010 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1004785008011 putative active site [active] 1004785008012 Zn binding site [ion binding]; other site 1004785008013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785008014 dimer interface [polypeptide binding]; other site 1004785008015 putative CheW interface [polypeptide binding]; other site 1004785008016 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004785008017 GMP synthase; Reviewed; Region: guaA; PRK00074 1004785008018 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1004785008019 AMP/PPi binding site [chemical binding]; other site 1004785008020 candidate oxyanion hole; other site 1004785008021 catalytic triad [active] 1004785008022 potential glutamine specificity residues [chemical binding]; other site 1004785008023 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 1004785008024 ATP Binding subdomain [chemical binding]; other site 1004785008025 Ligand Binding sites [chemical binding]; other site 1004785008026 Dimerization subdomain; other site 1004785008027 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1004785008028 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 1004785008029 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 1004785008030 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 1004785008031 active site 1004785008032 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1004785008033 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 1004785008034 generic binding surface II; other site 1004785008035 generic binding surface I; other site 1004785008036 GTP-binding protein Der; Reviewed; Region: PRK00093 1004785008037 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1004785008038 G1 box; other site 1004785008039 GTP/Mg2+ binding site [chemical binding]; other site 1004785008040 Switch I region; other site 1004785008041 G2 box; other site 1004785008042 Switch II region; other site 1004785008043 G3 box; other site 1004785008044 G4 box; other site 1004785008045 G5 box; other site 1004785008046 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1004785008047 G1 box; other site 1004785008048 GTP/Mg2+ binding site [chemical binding]; other site 1004785008049 Switch I region; other site 1004785008050 G2 box; other site 1004785008051 G3 box; other site 1004785008052 Switch II region; other site 1004785008053 G4 box; other site 1004785008054 G5 box; other site 1004785008055 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1004785008056 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1004785008057 Trp docking motif [polypeptide binding]; other site 1004785008058 active site 1004785008059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1004785008060 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1004785008061 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1004785008062 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 1004785008063 dimer interface [polypeptide binding]; other site 1004785008064 motif 1; other site 1004785008065 active site 1004785008066 motif 2; other site 1004785008067 motif 3; other site 1004785008068 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1004785008069 anticodon binding site; other site 1004785008070 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1004785008071 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1004785008072 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1004785008073 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1004785008074 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 1004785008075 non-specific DNA binding site [nucleotide binding]; other site 1004785008076 salt bridge; other site 1004785008077 sequence-specific DNA binding site [nucleotide binding]; other site 1004785008078 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1004785008079 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1004785008080 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 1004785008081 binding surface 1004785008082 TPR motif; other site 1004785008083 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 1004785008084 binding surface 1004785008085 TPR motif; other site 1004785008086 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 1004785008087 binding surface 1004785008088 TPR motif; other site 1004785008089 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785008090 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1004785008091 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 1004785008092 FeS/SAM binding site; other site 1004785008093 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 1004785008094 active site 1004785008095 multimer interface [polypeptide binding]; other site 1004785008096 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1004785008097 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1004785008098 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1004785008099 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1004785008100 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 1004785008101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785008102 catalytic residue [active] 1004785008103 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1004785008104 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1004785008105 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1004785008106 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1004785008107 Walker A/P-loop; other site 1004785008108 ATP binding site [chemical binding]; other site 1004785008109 Q-loop/lid; other site 1004785008110 ABC transporter signature motif; other site 1004785008111 Walker B; other site 1004785008112 D-loop; other site 1004785008113 H-loop/switch region; other site 1004785008114 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1004785008115 putative ABC transporter; Region: ycf24; CHL00085 1004785008116 cysteine desulfurase; Provisional; Region: PRK14012 1004785008117 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1004785008118 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785008119 catalytic residue [active] 1004785008120 Transcriptional regulator; Region: Rrf2; cl17282 1004785008121 Rrf2 family protein; Region: rrf2_super; TIGR00738 1004785008122 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1004785008123 serine O-acetyltransferase; Region: cysE; TIGR01172 1004785008124 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1004785008125 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 1004785008126 trimer interface [polypeptide binding]; other site 1004785008127 active site 1004785008128 substrate binding site [chemical binding]; other site 1004785008129 CoA binding site [chemical binding]; other site 1004785008130 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1004785008131 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004785008132 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004785008133 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 1004785008134 active site 1004785008135 dimerization interface [polypeptide binding]; other site 1004785008136 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1004785008137 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1004785008138 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004785008139 LytTr DNA-binding domain; Region: LytTR; smart00850 1004785008140 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1004785008141 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004785008142 Protein export membrane protein; Region: SecD_SecF; pfam02355 1004785008143 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1004785008144 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1004785008145 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004785008146 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1004785008147 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1004785008148 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1004785008149 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1004785008150 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1004785008151 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1004785008152 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1004785008153 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1004785008154 Ion channel; Region: Ion_trans_2; pfam07885 1004785008155 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 1004785008156 Predicted membrane protein [Function unknown]; Region: COG3766 1004785008157 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1004785008158 hypothetical protein; Provisional; Region: PRK11653 1004785008159 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1004785008160 Rhomboid family; Region: Rhomboid; pfam01694 1004785008161 glutaminase; Provisional; Region: PRK00971 1004785008162 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1004785008163 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1004785008164 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 1004785008165 dimer interface [polypeptide binding]; other site 1004785008166 active site 1004785008167 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1004785008168 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785008169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008170 active site 1004785008171 phosphorylation site [posttranslational modification] 1004785008172 intermolecular recognition site; other site 1004785008173 dimerization interface [polypeptide binding]; other site 1004785008174 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 1004785008175 tetramer interface [polypeptide binding]; other site 1004785008176 active site 1004785008177 Mg2+/Mn2+ binding site [ion binding]; other site 1004785008178 isocitrate lyase; Region: PLN02892 1004785008179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785008180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785008181 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 1004785008182 substrate binding pocket [chemical binding]; other site 1004785008183 dimerization interface [polypeptide binding]; other site 1004785008184 malate synthase G; Provisional; Region: PRK02999 1004785008185 active site 1004785008186 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1004785008187 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1004785008188 active site 1004785008189 nucleophile elbow; other site 1004785008190 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004785008191 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1004785008192 putative NAD(P) binding site [chemical binding]; other site 1004785008193 active site 1004785008194 putative substrate binding site [chemical binding]; other site 1004785008195 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1004785008196 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004785008197 PEP-CTERM motif; Region: VPEP; pfam07589 1004785008198 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1004785008199 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 1004785008200 TPR motif; other site 1004785008201 binding surface 1004785008202 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 1004785008203 binding surface 1004785008204 TPR motif; other site 1004785008205 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 1004785008206 binding surface 1004785008207 TPR motif; other site 1004785008208 hypothetical protein; Validated; Region: PRK08223 1004785008209 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1004785008210 ATP binding site [chemical binding]; other site 1004785008211 substrate interface [chemical binding]; other site 1004785008212 serine O-acetyltransferase; Region: cysE; TIGR01172 1004785008213 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 1004785008214 putative trimer interface [polypeptide binding]; other site 1004785008215 putative CoA binding site [chemical binding]; other site 1004785008216 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1004785008217 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 1004785008218 DXD motif; other site 1004785008219 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1004785008220 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1004785008221 putative active site [active] 1004785008222 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785008223 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1004785008224 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 1004785008225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785008226 colanic acid exporter; Provisional; Region: PRK10459 1004785008227 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1004785008228 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004785008229 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1004785008230 trimer interface [polypeptide binding]; other site 1004785008231 active site 1004785008232 substrate binding site [chemical binding]; other site 1004785008233 CoA binding site [chemical binding]; other site 1004785008234 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785008235 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1004785008236 active site 1004785008237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1004785008238 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785008239 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1004785008240 active site 1004785008241 O-Antigen ligase; Region: Wzy_C; cl04850 1004785008242 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1004785008243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1004785008244 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1004785008245 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1004785008246 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 1004785008247 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1004785008248 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004785008249 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1004785008250 SLBB domain; Region: SLBB; pfam10531 1004785008251 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1004785008252 Chain length determinant protein; Region: Wzz; cl15801 1004785008253 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1004785008254 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 1004785008255 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1004785008256 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1004785008257 GIY-YIG motif/motif A; other site 1004785008258 putative active site [active] 1004785008259 putative metal binding site [ion binding]; other site 1004785008260 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1004785008261 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004785008262 metal binding triad; other site 1004785008263 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1004785008264 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004785008265 metal binding triad; other site 1004785008266 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1004785008267 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1004785008268 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1004785008269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1004785008270 putative acyl-acceptor binding pocket; other site 1004785008271 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 1004785008272 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004785008273 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1004785008274 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785008275 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1004785008276 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785008277 active site 1004785008278 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1004785008279 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004785008280 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785008281 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785008282 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 1004785008283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785008284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785008285 metal binding site [ion binding]; metal-binding site 1004785008286 active site 1004785008287 I-site; other site 1004785008288 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 1004785008289 thymidine kinase; Provisional; Region: PRK04296 1004785008290 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785008291 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 1004785008292 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 1004785008293 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785008294 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004785008295 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785008296 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785008297 DNA binding site [nucleotide binding] 1004785008298 domain linker motif; other site 1004785008299 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 1004785008300 putative dimerization interface [polypeptide binding]; other site 1004785008301 putative ligand binding site [chemical binding]; other site 1004785008302 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785008303 active site 1004785008304 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1004785008305 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1004785008306 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 1004785008307 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1004785008308 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1004785008309 GTP/Mg2+ binding site [chemical binding]; other site 1004785008310 G4 box; other site 1004785008311 G5 box; other site 1004785008312 G1 box; other site 1004785008313 Switch I region; other site 1004785008314 G2 box; other site 1004785008315 G3 box; other site 1004785008316 Switch II region; other site 1004785008317 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1004785008318 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1004785008319 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004785008320 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004785008321 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004785008322 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1004785008323 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 1004785008324 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785008325 catalytic residue [active] 1004785008326 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1004785008327 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1004785008328 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 1004785008329 substrate binding site [chemical binding]; other site 1004785008330 oxyanion hole (OAH) forming residues; other site 1004785008331 trimer interface [polypeptide binding]; other site 1004785008332 Predicted membrane protein [Function unknown]; Region: COG4539 1004785008333 META domain; Region: META; pfam03724 1004785008334 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1004785008335 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1004785008336 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1004785008337 NAD(P) binding site [chemical binding]; other site 1004785008338 catalytic residues [active] 1004785008339 choline dehydrogenase; Validated; Region: PRK02106 1004785008340 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004785008341 BCCT family transporter; Region: BCCT; cl00569 1004785008342 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1004785008343 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 1004785008344 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1004785008345 S-adenosylmethionine binding site [chemical binding]; other site 1004785008346 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1004785008347 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1004785008348 DNA binding residues [nucleotide binding] 1004785008349 dimer interface [polypeptide binding]; other site 1004785008350 [2Fe-2S] cluster binding site [ion binding]; other site 1004785008351 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 1004785008352 active site 1004785008353 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 1004785008354 active site 1004785008355 PaaX-like protein; Region: PaaX; pfam07848 1004785008356 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1004785008357 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1004785008358 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004785008359 active site 1004785008360 DsrE/DsrF-like family; Region: DrsE; pfam02635 1004785008361 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1004785008362 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1004785008363 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1004785008364 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1004785008365 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1004785008366 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1004785008367 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1004785008368 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004785008369 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785008370 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1004785008371 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004785008372 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004785008373 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004785008374 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1004785008375 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1004785008376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785008377 dimer interface [polypeptide binding]; other site 1004785008378 active site 1004785008379 metal binding site [ion binding]; metal-binding site 1004785008380 glutathione binding site [chemical binding]; other site 1004785008381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1004785008382 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1004785008383 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1004785008384 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1004785008385 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 1004785008386 catalytic loop [active] 1004785008387 iron binding site [ion binding]; other site 1004785008388 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004785008389 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1004785008390 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1004785008391 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1004785008392 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004785008393 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004785008394 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1004785008395 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1004785008396 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 1004785008397 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1004785008398 hypothetical protein; Provisional; Region: PRK06194 1004785008399 classical (c) SDRs; Region: SDR_c; cd05233 1004785008400 NAD(P) binding site [chemical binding]; other site 1004785008401 active site 1004785008402 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1004785008403 classical (c) SDRs; Region: SDR_c; cd05233 1004785008404 NAD(P) binding site [chemical binding]; other site 1004785008405 active site 1004785008406 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1004785008407 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1004785008408 proposed catalytic triad [active] 1004785008409 conserved cys residue [active] 1004785008410 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1004785008411 putative MFS family transporter protein; Provisional; Region: PRK03633 1004785008412 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004785008413 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004785008414 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785008415 Histidine kinase; Region: His_kinase; pfam06580 1004785008416 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004785008417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008418 active site 1004785008419 phosphorylation site [posttranslational modification] 1004785008420 intermolecular recognition site; other site 1004785008421 dimerization interface [polypeptide binding]; other site 1004785008422 LytTr DNA-binding domain; Region: LytTR; smart00850 1004785008423 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1004785008424 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1004785008425 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 1004785008426 metal ion-dependent adhesion site (MIDAS); other site 1004785008427 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1004785008428 active site 1004785008429 catalytic site [active] 1004785008430 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1004785008431 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1004785008432 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1004785008433 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785008434 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1004785008435 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1004785008436 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 1004785008437 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785008438 putative catalytic residues [active] 1004785008439 potential frameshift: common BLAST hit: gi|332142228|ref|YP_004427966.1| YaeQ protein 1004785008440 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004785008441 catalytic motif [active] 1004785008442 Catalytic residue [active] 1004785008443 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 1004785008444 putative FMN binding site [chemical binding]; other site 1004785008445 putative dimer interface [polypeptide binding]; other site 1004785008446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004785008447 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 1004785008448 putative substrate translocation pore; other site 1004785008449 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1004785008450 MarR family; Region: MarR_2; pfam12802 1004785008451 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 1004785008452 nudix motif; other site 1004785008453 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1004785008454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785008455 Coenzyme A binding pocket [chemical binding]; other site 1004785008456 endonuclease VIII; Provisional; Region: PRK10445 1004785008457 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1004785008458 DNA binding site [nucleotide binding] 1004785008459 catalytic residue [active] 1004785008460 putative catalytic residues [active] 1004785008461 H2TH interface [polypeptide binding]; other site 1004785008462 intercalation triad [nucleotide binding]; other site 1004785008463 substrate specificity determining residue; other site 1004785008464 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1004785008465 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004785008466 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 1004785008467 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1004785008468 NADP binding site [chemical binding]; other site 1004785008469 dimer interface [polypeptide binding]; other site 1004785008470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1004785008471 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1004785008472 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 1004785008473 ATP binding site [chemical binding]; other site 1004785008474 putative Mg++ binding site [ion binding]; other site 1004785008475 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 1004785008476 nucleotide binding region [chemical binding]; other site 1004785008477 ATP-binding site [chemical binding]; other site 1004785008478 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1004785008479 homodimer interface [polypeptide binding]; other site 1004785008480 active site 1004785008481 SAM binding site [chemical binding]; other site 1004785008482 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 1004785008483 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785008484 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 1004785008485 binding surface 1004785008486 TPR motif; other site 1004785008487 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785008488 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 1004785008489 dimer interface [polypeptide binding]; other site 1004785008490 phosphorylation site [posttranslational modification] 1004785008491 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 1004785008492 ATP binding site [chemical binding]; other site 1004785008493 Mg2+ binding site [ion binding]; other site 1004785008494 G-X-G motif; other site 1004785008495 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785008496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008497 active site 1004785008498 phosphorylation site [posttranslational modification] 1004785008499 intermolecular recognition site; other site 1004785008500 dimerization interface [polypeptide binding]; other site 1004785008501 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785008502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008503 active site 1004785008504 phosphorylation site [posttranslational modification] 1004785008505 intermolecular recognition site; other site 1004785008506 dimerization interface [polypeptide binding]; other site 1004785008507 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 1004785008508 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 1004785008509 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1004785008510 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785008511 Phytochrome region; Region: PHY; pfam00360 1004785008512 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 1004785008513 dimer interface [polypeptide binding]; other site 1004785008514 phosphorylation site [posttranslational modification] 1004785008515 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 1004785008516 ATP binding site [chemical binding]; other site 1004785008517 Mg2+ binding site [ion binding]; other site 1004785008518 G-X-G motif; other site 1004785008519 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785008520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008521 active site 1004785008522 phosphorylation site [posttranslational modification] 1004785008523 intermolecular recognition site; other site 1004785008524 dimerization interface [polypeptide binding]; other site 1004785008525 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004785008526 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004785008527 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004785008528 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 1004785008529 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785008530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008531 active site 1004785008532 phosphorylation site [posttranslational modification] 1004785008533 intermolecular recognition site; other site 1004785008534 dimerization interface [polypeptide binding]; other site 1004785008535 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 1004785008536 DNA binding site [nucleotide binding] 1004785008537 Serpentine type 7TM GPCR chemoreceptor Srh; Region: 7TM_GPCR_Srh; cl11665 1004785008538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785008539 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 1004785008540 dimer interface [polypeptide binding]; other site 1004785008541 phosphorylation site [posttranslational modification] 1004785008542 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 1004785008543 ATP binding site [chemical binding]; other site 1004785008544 Mg2+ binding site [ion binding]; other site 1004785008545 G-X-G motif; other site 1004785008546 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1004785008547 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1004785008548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785008549 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004785008550 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1004785008551 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1004785008552 putative active site [active] 1004785008553 putative NTP binding site [chemical binding]; other site 1004785008554 putative nucleic acid binding site [nucleotide binding]; other site 1004785008555 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 1004785008556 non-specific DNA binding site [nucleotide binding]; other site 1004785008557 salt bridge; other site 1004785008558 sequence-specific DNA binding site [nucleotide binding]; other site 1004785008559 glycine dehydrogenase; Provisional; Region: PRK05367 1004785008560 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 1004785008561 tetramer interface [polypeptide binding]; other site 1004785008562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785008563 catalytic residue [active] 1004785008564 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 1004785008565 tetramer interface [polypeptide binding]; other site 1004785008566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785008567 catalytic residue [active] 1004785008568 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 1004785008569 lipoyl attachment site [posttranslational modification]; other site 1004785008570 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1004785008571 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1004785008572 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004785008573 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 1004785008574 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1004785008575 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 1004785008576 active site 1004785008577 dimer interface [polypeptide binding]; other site 1004785008578 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1004785008579 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 1004785008580 dimer interface [polypeptide binding]; other site 1004785008581 active site 1004785008582 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 1004785008583 dimer interface [polypeptide binding]; other site 1004785008584 active site 1004785008585 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1004785008586 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 1004785008587 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1004785008588 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 1004785008589 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1004785008590 active site 1004785008591 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1004785008592 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785008593 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 1004785008594 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 1004785008595 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785008596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785008597 DNA binding site [nucleotide binding] 1004785008598 domain linker motif; other site 1004785008599 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1004785008600 putative dimerization interface [polypeptide binding]; other site 1004785008601 putative ligand binding site [chemical binding]; other site 1004785008602 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785008603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785008604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785008605 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1004785008606 dimerization interface [polypeptide binding]; other site 1004785008607 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 1004785008608 Ligand Binding Site [chemical binding]; other site 1004785008609 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 1004785008610 Ligand Binding Site [chemical binding]; other site 1004785008611 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1004785008612 L-lactate permease; Region: Lactate_perm; cl00701 1004785008613 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1004785008614 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1004785008615 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1004785008616 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1004785008617 active site 1004785008618 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004785008619 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 1004785008620 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785008621 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004785008622 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004785008623 metal binding site [ion binding]; metal-binding site 1004785008624 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004785008625 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1004785008626 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1004785008627 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004785008628 proline aminopeptidase P II; Provisional; Region: PRK10879 1004785008629 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1004785008630 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 1004785008631 active site 1004785008632 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1004785008633 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004785008634 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 1004785008635 substrate binding site [chemical binding]; other site 1004785008636 dimer interface [polypeptide binding]; other site 1004785008637 ATP binding site [chemical binding]; other site 1004785008638 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 1004785008639 active site 1004785008640 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785008641 GAF domain; Region: GAF; pfam01590 1004785008642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785008643 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 1004785008644 dimer interface [polypeptide binding]; other site 1004785008645 phosphorylation site [posttranslational modification] 1004785008646 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 1004785008647 ATP binding site [chemical binding]; other site 1004785008648 Mg2+ binding site [ion binding]; other site 1004785008649 G-X-G motif; other site 1004785008650 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785008651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008652 active site 1004785008653 phosphorylation site [posttranslational modification] 1004785008654 intermolecular recognition site; other site 1004785008655 dimerization interface [polypeptide binding]; other site 1004785008656 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1004785008657 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1004785008658 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 1004785008659 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1004785008660 active site 1004785008661 dimer interface [polypeptide binding]; other site 1004785008662 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1004785008663 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1004785008664 ligand binding site [chemical binding]; other site 1004785008665 NAD binding site [chemical binding]; other site 1004785008666 tetramer interface [polypeptide binding]; other site 1004785008667 catalytic site [active] 1004785008668 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1004785008669 L-serine binding site [chemical binding]; other site 1004785008670 ACT domain interface; other site 1004785008671 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1004785008672 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1004785008673 HDOD domain; Region: HDOD; pfam08668 1004785008674 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1004785008675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1004785008676 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1004785008677 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785008678 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785008679 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785008680 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004785008681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785008682 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 1004785008683 substrate binding pocket [chemical binding]; other site 1004785008684 dimerization interface [polypeptide binding]; other site 1004785008685 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1004785008686 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004785008687 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785008688 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004785008689 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 1004785008690 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1004785008691 E3 interaction surface; other site 1004785008692 lipoyl attachment site [posttranslational modification]; other site 1004785008693 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 1004785008694 E3 interaction surface; other site 1004785008695 lipoyl attachment site [posttranslational modification]; other site 1004785008696 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 1004785008697 E3 interaction surface; other site 1004785008698 lipoyl attachment site [posttranslational modification]; other site 1004785008699 e3 binding domain; Region: E3_binding; pfam02817 1004785008700 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004785008701 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1004785008702 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 1004785008703 dimer interface [polypeptide binding]; other site 1004785008704 TPP-binding site [chemical binding]; other site 1004785008705 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1004785008706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004785008707 DNA-binding site [nucleotide binding]; DNA binding site 1004785008708 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1004785008709 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1004785008710 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1004785008711 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 1004785008712 amidase catalytic site [active] 1004785008713 substrate binding site [chemical binding]; other site 1004785008714 Zn binding residues [ion binding]; other site 1004785008715 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004785008716 catalytic motif [active] 1004785008717 Catalytic residue [active] 1004785008718 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1004785008719 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 1004785008720 dimerization interface [polypeptide binding]; other site 1004785008721 active site 1004785008722 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1004785008723 Pilin (bacterial filament); Region: Pilin; pfam00114 1004785008724 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1004785008725 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004785008726 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004785008727 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 1004785008728 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1004785008729 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1004785008730 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1004785008731 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 1004785008732 CoA-binding site [chemical binding]; other site 1004785008733 ATP-binding [chemical binding]; other site 1004785008734 hypothetical protein; Provisional; Region: PRK05287 1004785008735 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1004785008736 aspartoacylase; Provisional; Region: PRK02259 1004785008737 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004785008738 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 1004785008739 active site 1004785008740 8-oxo-dGMP binding site [chemical binding]; other site 1004785008741 nudix motif; other site 1004785008742 metal binding site [ion binding]; metal-binding site 1004785008743 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1004785008744 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1004785008745 SEC-C motif; Region: SEC-C; pfam02810 1004785008746 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004785008747 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785008748 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1004785008749 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1004785008750 cell division protein FtsZ; Validated; Region: PRK09330 1004785008751 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 1004785008752 nucleotide binding site [chemical binding]; other site 1004785008753 SulA interaction site; other site 1004785008754 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1004785008755 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1004785008756 nucleotide binding site [chemical binding]; other site 1004785008757 Cell division protein FtsA; Region: FtsA; pfam14450 1004785008758 cell division protein FtsQ; Provisional; Region: PRK10775 1004785008759 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1004785008760 Cell division protein FtsQ; Region: FtsQ; pfam03799 1004785008761 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1004785008762 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1004785008763 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785008764 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1004785008765 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004785008766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785008767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004785008768 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1004785008769 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 1004785008770 active site 1004785008771 homodimer interface [polypeptide binding]; other site 1004785008772 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1004785008773 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1004785008774 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785008775 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004785008776 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1004785008777 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 1004785008778 Mg++ binding site [ion binding]; other site 1004785008779 putative catalytic motif [active] 1004785008780 putative substrate binding site [chemical binding]; other site 1004785008781 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1004785008782 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004785008783 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785008784 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004785008785 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1004785008786 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004785008787 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004785008788 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004785008789 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1004785008790 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1004785008791 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1004785008792 Cell division protein FtsL; Region: FtsL; pfam04999 1004785008793 MraW methylase family; Region: Methyltransf_5; pfam01795 1004785008794 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1004785008795 cell division protein MraZ; Reviewed; Region: PRK00326 1004785008796 MraZ protein; Region: MraZ; pfam02381 1004785008797 MraZ protein; Region: MraZ; pfam02381 1004785008798 SapC; Region: SapC; pfam07277 1004785008799 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 1004785008800 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1004785008801 active site 1004785008802 dimer interface [polypeptide binding]; other site 1004785008803 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1004785008804 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1004785008805 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785008806 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1004785008807 Outer membrane efflux protein; Region: OEP; pfam02321 1004785008808 Outer membrane efflux protein; Region: OEP; pfam02321 1004785008809 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004785008810 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785008811 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 1004785008812 catalytic triad [active] 1004785008813 dimer interface [polypeptide binding]; other site 1004785008814 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004785008815 ParA-like protein; Provisional; Region: PHA02518 1004785008816 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 1004785008817 P-loop; other site 1004785008818 Magnesium ion binding site [ion binding]; other site 1004785008819 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785008820 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785008821 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 1004785008822 binding surface 1004785008823 TPR motif; other site 1004785008824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785008825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785008826 metal binding site [ion binding]; metal-binding site 1004785008827 active site 1004785008828 I-site; other site 1004785008829 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1004785008830 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1004785008831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008832 active site 1004785008833 phosphorylation site [posttranslational modification] 1004785008834 intermolecular recognition site; other site 1004785008835 dimerization interface [polypeptide binding]; other site 1004785008836 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 1004785008837 Walker A motif; other site 1004785008838 ATP binding site [chemical binding]; other site 1004785008839 Walker B motif; other site 1004785008840 arginine finger; other site 1004785008841 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004785008842 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1004785008843 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 1004785008844 ATP binding site [chemical binding]; other site 1004785008845 Mg2+ binding site [ion binding]; other site 1004785008846 G-X-G motif; other site 1004785008847 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1004785008848 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 1004785008849 dimer interface [polypeptide binding]; other site 1004785008850 active site 1004785008851 CoA binding pocket [chemical binding]; other site 1004785008852 Peptidase family M48; Region: Peptidase_M48; pfam01435 1004785008853 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785008854 RNA methyltransferase, RsmE family; Region: TIGR00046 1004785008855 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1004785008856 glutathione synthetase; Provisional; Region: PRK05246 1004785008857 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1004785008858 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1004785008859 hypothetical protein; Validated; Region: PRK00228 1004785008860 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1004785008861 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1004785008862 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1004785008863 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 1004785008864 ATP binding site [chemical binding]; other site 1004785008865 Walker B motif; other site 1004785008866 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1004785008867 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 1004785008868 Walker A motif; other site 1004785008869 ATP binding site [chemical binding]; other site 1004785008870 Walker B motif; other site 1004785008871 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1004785008872 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004785008873 catalytic residue [active] 1004785008874 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1004785008875 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1004785008876 YGGT family; Region: YGGT; pfam02325 1004785008877 YGGT family; Region: YGGT; pfam02325 1004785008878 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1004785008879 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785008880 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 1004785008881 active site 1004785008882 FMN binding site [chemical binding]; other site 1004785008883 2,4-decadienoyl-CoA binding site; other site 1004785008884 catalytic residue [active] 1004785008885 4Fe-4S cluster binding site [ion binding]; other site 1004785008886 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1004785008887 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 1004785008888 TPR motif; other site 1004785008889 binding surface 1004785008890 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 1004785008891 binding surface 1004785008892 TPR motif; other site 1004785008893 TPR repeat; Region: TPR_11; pfam13414 1004785008894 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785008895 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 1004785008896 active site 1004785008897 metal binding site [ion binding]; metal-binding site 1004785008898 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004785008899 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785008900 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 1004785008901 putative C-terminal domain interface [polypeptide binding]; other site 1004785008902 putative GSH binding site (G-site) [chemical binding]; other site 1004785008903 putative dimer interface [polypeptide binding]; other site 1004785008904 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004785008905 dimer interface [polypeptide binding]; other site 1004785008906 N-terminal domain interface [polypeptide binding]; other site 1004785008907 substrate binding pocket (H-site) [chemical binding]; other site 1004785008908 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1004785008909 E-class dimer interface [polypeptide binding]; other site 1004785008910 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1004785008911 P-class dimer interface [polypeptide binding]; other site 1004785008912 active site 1004785008913 Cu2+ binding site [ion binding]; other site 1004785008914 Zn2+ binding site [ion binding]; other site 1004785008915 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1004785008916 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1004785008917 AzlC protein; Region: AzlC; pfam03591 1004785008918 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1004785008919 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 1004785008920 non-specific DNA binding site [nucleotide binding]; other site 1004785008921 salt bridge; other site 1004785008922 sequence-specific DNA binding site [nucleotide binding]; other site 1004785008923 Cupin domain; Region: Cupin_2; cl17218 1004785008924 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 1004785008925 MFS transport protein AraJ; Provisional; Region: PRK10091 1004785008926 putative substrate translocation pore; other site 1004785008927 RNA recognition motif; Region: RRM; smart00360 1004785008928 hypothetical protein; Validated; Region: PRK02101 1004785008929 transaldolase-like protein; Provisional; Region: PTZ00411 1004785008930 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1004785008931 active site 1004785008932 dimer interface [polypeptide binding]; other site 1004785008933 catalytic residue [active] 1004785008934 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1004785008935 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 1004785008936 active site 1004785008937 dimer interface [polypeptide binding]; other site 1004785008938 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 1004785008939 dimer interface [polypeptide binding]; other site 1004785008940 active site 1004785008941 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 1004785008942 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1004785008943 ligand binding site [chemical binding]; other site 1004785008944 active site 1004785008945 UGI interface [polypeptide binding]; other site 1004785008946 catalytic site [active] 1004785008947 threonine synthase; Validated; Region: PRK09225 1004785008948 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1004785008949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785008950 catalytic residue [active] 1004785008951 homoserine kinase; Provisional; Region: PRK01212 1004785008952 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004785008953 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1004785008954 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1004785008955 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 1004785008956 putative catalytic residues [active] 1004785008957 putative nucleotide binding site [chemical binding]; other site 1004785008958 putative aspartate binding site [chemical binding]; other site 1004785008959 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1004785008960 dimer interface [polypeptide binding]; other site 1004785008961 putative threonine allosteric regulatory site; other site 1004785008962 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1004785008963 putative threonine allosteric regulatory site; other site 1004785008964 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1004785008965 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1004785008966 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004785008967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785008968 ABC transporter signature motif; other site 1004785008969 Walker B; other site 1004785008970 D-loop; other site 1004785008971 H-loop/switch region; other site 1004785008972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785008973 AAA domain; Region: AAA_21; pfam13304 1004785008974 Walker A/P-loop; other site 1004785008975 ATP binding site [chemical binding]; other site 1004785008976 Q-loop/lid; other site 1004785008977 ABC transporter signature motif; other site 1004785008978 Walker B; other site 1004785008979 D-loop; other site 1004785008980 H-loop/switch region; other site 1004785008981 LysR family transcriptional regulator; Provisional; Region: PRK14997 1004785008982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785008983 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 1004785008984 dimerization interface [polypeptide binding]; other site 1004785008985 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1004785008986 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1004785008987 substrate binding site [chemical binding]; other site 1004785008988 catalytic Zn binding site [ion binding]; other site 1004785008989 NAD binding site [chemical binding]; other site 1004785008990 structural Zn binding site [ion binding]; other site 1004785008991 dimer interface [polypeptide binding]; other site 1004785008992 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785008993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785008994 active site 1004785008995 phosphorylation site [posttranslational modification] 1004785008996 intermolecular recognition site; other site 1004785008997 dimerization interface [polypeptide binding]; other site 1004785008998 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 1004785008999 DNA binding residues [nucleotide binding] 1004785009000 dimerization interface [polypeptide binding]; other site 1004785009001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004785009002 Histidine kinase; Region: HisKA_3; pfam07730 1004785009003 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1004785009004 catalytic residues [active] 1004785009005 active site 1004785009006 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 1004785009007 putative Zn2+ binding site [ion binding]; other site 1004785009008 putative DNA binding site [nucleotide binding]; other site 1004785009009 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1004785009010 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1004785009011 active site 1004785009012 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1004785009013 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004785009014 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1004785009015 arsenical-resistance protein; Region: acr3; TIGR00832 1004785009016 HTH-like domain; Region: HTH_21; pfam13276 1004785009017 Integrase core domain; Region: rve; pfam00665 1004785009018 Integrase core domain; Region: rve_2; pfam13333 1004785009019 Homeodomain-like domain; Region: HTH_23; cl17451 1004785009020 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009022 active site 1004785009023 phosphorylation site [posttranslational modification] 1004785009024 intermolecular recognition site; other site 1004785009025 dimerization interface [polypeptide binding]; other site 1004785009026 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1004785009027 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1004785009028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785009029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009030 active site 1004785009031 phosphorylation site [posttranslational modification] 1004785009032 intermolecular recognition site; other site 1004785009033 dimerization interface [polypeptide binding]; other site 1004785009034 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 1004785009035 DNA binding site [nucleotide binding] 1004785009036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785009037 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 1004785009038 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 1004785009039 dimer interface [polypeptide binding]; other site 1004785009040 phosphorylation site [posttranslational modification] 1004785009041 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 1004785009042 ATP binding site [chemical binding]; other site 1004785009043 Mg2+ binding site [ion binding]; other site 1004785009044 G-X-G motif; other site 1004785009045 hypothetical protein; Provisional; Region: PRK09273 1004785009046 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1004785009047 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1004785009048 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1004785009049 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1004785009050 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 1004785009051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785009052 catalytic residue [active] 1004785009053 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1004785009054 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1004785009055 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1004785009056 putative hydrophobic ligand binding site [chemical binding]; other site 1004785009057 protein interface [polypeptide binding]; other site 1004785009058 gate; other site 1004785009059 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1004785009060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785009061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785009062 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1004785009063 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1004785009064 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1004785009065 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1004785009066 dimer interface [polypeptide binding]; other site 1004785009067 active site 1004785009068 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004785009069 catalytic residues [active] 1004785009070 substrate binding site [chemical binding]; other site 1004785009071 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 1004785009072 Predicted methyltransferases [General function prediction only]; Region: COG0313 1004785009073 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1004785009074 putative SAM binding site [chemical binding]; other site 1004785009075 putative homodimer interface [polypeptide binding]; other site 1004785009076 LppC putative lipoprotein; Region: LppC; pfam04348 1004785009077 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1004785009078 putative ligand binding site [chemical binding]; other site 1004785009079 hypothetical protein; Reviewed; Region: PRK12497 1004785009080 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785009081 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1004785009082 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 1004785009083 dimer interface [polypeptide binding]; other site 1004785009084 active site 1004785009085 BON domain; Region: BON; pfam04972 1004785009086 BON domain; Region: BON; pfam04972 1004785009087 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 1004785009088 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004785009089 putative substrate translocation pore; other site 1004785009090 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1004785009091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004785009092 Histidine kinase; Region: HisKA_3; pfam07730 1004785009093 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785009094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009095 active site 1004785009096 phosphorylation site [posttranslational modification] 1004785009097 intermolecular recognition site; other site 1004785009098 dimerization interface [polypeptide binding]; other site 1004785009099 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 1004785009100 DNA binding residues [nucleotide binding] 1004785009101 dimerization interface [polypeptide binding]; other site 1004785009102 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785009103 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 1004785009104 N-terminal plug; other site 1004785009105 ligand-binding site [chemical binding]; other site 1004785009106 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1004785009107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004785009108 DNA-binding site [nucleotide binding]; DNA binding site 1004785009109 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1004785009110 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1004785009111 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 1004785009112 tetramer interface [polypeptide binding]; other site 1004785009113 active site 1004785009114 Mg2+/Mn2+ binding site [ion binding]; other site 1004785009115 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1004785009116 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 1004785009117 dimer interface [polypeptide binding]; other site 1004785009118 active site 1004785009119 citrylCoA binding site [chemical binding]; other site 1004785009120 oxalacetate/citrate binding site [chemical binding]; other site 1004785009121 coenzyme A binding site [chemical binding]; other site 1004785009122 catalytic triad [active] 1004785009123 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1004785009124 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1004785009125 substrate binding site [chemical binding]; other site 1004785009126 ligand binding site [chemical binding]; other site 1004785009127 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 1004785009128 substrate binding site [chemical binding]; other site 1004785009129 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1004785009130 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785009131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009132 active site 1004785009133 phosphorylation site [posttranslational modification] 1004785009134 intermolecular recognition site; other site 1004785009135 dimerization interface [polypeptide binding]; other site 1004785009136 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009138 active site 1004785009139 phosphorylation site [posttranslational modification] 1004785009140 intermolecular recognition site; other site 1004785009141 dimerization interface [polypeptide binding]; other site 1004785009142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009144 metal binding site [ion binding]; metal-binding site 1004785009145 active site 1004785009146 I-site; other site 1004785009147 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 1004785009148 Na binding site [ion binding]; other site 1004785009149 Predicted membrane protein [Function unknown]; Region: COG3428 1004785009150 Bacterial PH domain; Region: DUF304; pfam03703 1004785009151 Bacterial PH domain; Region: DUF304; cl01348 1004785009152 Bacterial PH domain; Region: DUF304; pfam03703 1004785009153 Bacterial PH domain; Region: DUF304; cl01348 1004785009154 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1004785009155 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 1004785009156 putative active site [active] 1004785009157 heme pocket [chemical binding]; other site 1004785009158 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 1004785009159 dimer interface [polypeptide binding]; other site 1004785009160 phosphorylation site [posttranslational modification] 1004785009161 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 1004785009162 ATP binding site [chemical binding]; other site 1004785009163 Mg2+ binding site [ion binding]; other site 1004785009164 G-X-G motif; other site 1004785009165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009166 active site 1004785009167 phosphorylation site [posttranslational modification] 1004785009168 intermolecular recognition site; other site 1004785009169 dimerization interface [polypeptide binding]; other site 1004785009170 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 1004785009171 putative binding surface; other site 1004785009172 active site 1004785009173 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1004785009174 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 1004785009175 amidase catalytic site [active] 1004785009176 Zn binding residues [ion binding]; other site 1004785009177 substrate binding site [chemical binding]; other site 1004785009178 Bacterial SH3 domain; Region: SH3_3; pfam08239 1004785009179 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1004785009180 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 1004785009181 active site 1004785009182 dimer interface [polypeptide binding]; other site 1004785009183 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1004785009184 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 1004785009185 active site 1004785009186 FMN binding site [chemical binding]; other site 1004785009187 substrate binding site [chemical binding]; other site 1004785009188 3Fe-4S cluster binding site [ion binding]; other site 1004785009189 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 1004785009190 domain interface; other site 1004785009191 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1004785009192 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 1004785009193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785009194 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1004785009195 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1004785009196 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1004785009197 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1004785009198 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1004785009199 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1004785009200 cobalamin binding residues [chemical binding]; other site 1004785009201 putative BtuC binding residues; other site 1004785009202 dimer interface [polypeptide binding]; other site 1004785009203 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 1004785009204 active site residue [active] 1004785009205 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1004785009206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785009207 Coenzyme A binding pocket [chemical binding]; other site 1004785009208 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1004785009209 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1004785009210 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1004785009211 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004785009212 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785009213 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 1004785009214 DNA binding residues [nucleotide binding] 1004785009215 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1004785009216 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1004785009217 active site 1004785009218 HIGH motif; other site 1004785009219 dimer interface [polypeptide binding]; other site 1004785009220 KMSKS motif; other site 1004785009221 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 1004785009222 RNA binding surface [nucleotide binding]; other site 1004785009223 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1004785009224 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1004785009225 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785009226 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1004785009227 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1004785009228 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004785009229 L-fucose transporter; Provisional; Region: PRK10133; cl17665 1004785009230 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1004785009231 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004785009232 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 1004785009233 FMN binding site [chemical binding]; other site 1004785009234 active site 1004785009235 substrate binding site [chemical binding]; other site 1004785009236 catalytic residue [active] 1004785009237 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1004785009238 putative hydrophobic ligand binding site [chemical binding]; other site 1004785009239 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1004785009240 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 1004785009241 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785009242 catalytic residue [active] 1004785009243 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1004785009244 NAD binding site [chemical binding]; other site 1004785009245 ligand binding site [chemical binding]; other site 1004785009246 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1004785009247 catalytic site [active] 1004785009248 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785009249 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004785009250 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1004785009251 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1004785009252 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1004785009253 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1004785009254 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1004785009255 Switch I; other site 1004785009256 Switch II; other site 1004785009257 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1004785009258 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1004785009259 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1004785009260 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1004785009261 Class II fumarases; Region: Fumarase_classII; cd01362 1004785009262 active site 1004785009263 tetramer interface [polypeptide binding]; other site 1004785009264 azurin; Region: azurin; TIGR02695 1004785009265 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 1004785009266 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1004785009267 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 1004785009268 Cl- selectivity filter; other site 1004785009269 Cl- binding residues [ion binding]; other site 1004785009270 pore gating glutamate residue; other site 1004785009271 dimer interface [polypeptide binding]; other site 1004785009272 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1004785009273 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1004785009274 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1004785009275 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1004785009276 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1004785009277 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 1004785009278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785009279 homodimer interface [polypeptide binding]; other site 1004785009280 catalytic residue [active] 1004785009281 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785009282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009283 active site 1004785009284 phosphorylation site [posttranslational modification] 1004785009285 intermolecular recognition site; other site 1004785009286 dimerization interface [polypeptide binding]; other site 1004785009287 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1004785009288 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1004785009289 G1 box; other site 1004785009290 putative GEF interaction site [polypeptide binding]; other site 1004785009291 GTP/Mg2+ binding site [chemical binding]; other site 1004785009292 Switch I region; other site 1004785009293 G2 box; other site 1004785009294 G3 box; other site 1004785009295 Switch II region; other site 1004785009296 G4 box; other site 1004785009297 G5 box; other site 1004785009298 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 1004785009299 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 1004785009300 glutamine synthetase; Provisional; Region: glnA; PRK09469 1004785009301 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1004785009302 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1004785009303 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1004785009304 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 1004785009305 putative active site [active] 1004785009306 heme pocket [chemical binding]; other site 1004785009307 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 1004785009308 dimer interface [polypeptide binding]; other site 1004785009309 phosphorylation site [posttranslational modification] 1004785009310 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 1004785009311 ATP binding site [chemical binding]; other site 1004785009312 Mg2+ binding site [ion binding]; other site 1004785009313 G-X-G motif; other site 1004785009314 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1004785009315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009316 active site 1004785009317 phosphorylation site [posttranslational modification] 1004785009318 intermolecular recognition site; other site 1004785009319 dimerization interface [polypeptide binding]; other site 1004785009320 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 1004785009321 Walker A motif; other site 1004785009322 ATP binding site [chemical binding]; other site 1004785009323 Walker B motif; other site 1004785009324 arginine finger; other site 1004785009325 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785009326 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 1004785009327 putative binding surface; other site 1004785009328 active site 1004785009329 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785009330 Zn2+ binding site [ion binding]; other site 1004785009331 Mg2+ binding site [ion binding]; other site 1004785009332 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1004785009333 putative acyl-acceptor binding pocket; other site 1004785009334 RNase E inhibitor protein; Provisional; Region: PRK11191 1004785009335 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1004785009336 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 1004785009337 PAS domain; Region: PAS_9; pfam13426 1004785009338 putative active site [active] 1004785009339 heme pocket [chemical binding]; other site 1004785009340 PAS domain; Region: PAS; smart00091 1004785009341 PAS domain; Region: PAS_9; pfam13426 1004785009342 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 1004785009343 putative active site [active] 1004785009344 heme pocket [chemical binding]; other site 1004785009345 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009346 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009347 metal binding site [ion binding]; metal-binding site 1004785009348 active site 1004785009349 I-site; other site 1004785009350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1004785009351 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1004785009352 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1004785009353 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1004785009354 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1004785009355 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 1004785009356 dimer interface [polypeptide binding]; other site 1004785009357 phosphorylation site [posttranslational modification] 1004785009358 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 1004785009359 ATP binding site [chemical binding]; other site 1004785009360 Mg2+ binding site [ion binding]; other site 1004785009361 G-X-G motif; other site 1004785009362 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785009363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009364 active site 1004785009365 phosphorylation site [posttranslational modification] 1004785009366 intermolecular recognition site; other site 1004785009367 dimerization interface [polypeptide binding]; other site 1004785009368 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1004785009369 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1004785009370 HIGH motif; other site 1004785009371 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004785009372 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1004785009373 active site 1004785009374 KMSKS motif; other site 1004785009375 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1004785009376 tRNA binding surface [nucleotide binding]; other site 1004785009377 anticodon binding site; other site 1004785009378 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1004785009379 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1004785009380 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1004785009381 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 1004785009382 interface (dimer of trimers) [polypeptide binding]; other site 1004785009383 Substrate-binding/catalytic site; other site 1004785009384 Zn-binding sites [ion binding]; other site 1004785009385 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1004785009386 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1004785009387 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1004785009388 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1004785009389 RDD family; Region: RDD; pfam06271 1004785009390 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785009391 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 1004785009392 N-terminal plug; other site 1004785009393 ligand-binding site [chemical binding]; other site 1004785009394 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 1004785009395 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785009396 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 1004785009397 DNA binding residues [nucleotide binding] 1004785009398 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1004785009399 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1004785009400 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1004785009401 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1004785009402 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004785009403 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1004785009404 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785009405 Cupin domain; Region: Cupin_2; cl17218 1004785009406 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 1004785009407 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785009408 C-terminal domain interface [polypeptide binding]; other site 1004785009409 GSH binding site (G-site) [chemical binding]; other site 1004785009410 dimer interface [polypeptide binding]; other site 1004785009411 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004785009412 N-terminal domain interface [polypeptide binding]; other site 1004785009413 dimer interface [polypeptide binding]; other site 1004785009414 substrate binding pocket (H-site) [chemical binding]; other site 1004785009415 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1004785009416 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1004785009417 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1004785009418 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1004785009419 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1004785009420 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1004785009421 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1004785009422 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 1004785009423 ligand binding site [chemical binding]; other site 1004785009424 flexible hinge region; other site 1004785009425 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 1004785009426 non-specific DNA interactions [nucleotide binding]; other site 1004785009427 DNA binding site [nucleotide binding] 1004785009428 sequence specific DNA binding site [nucleotide binding]; other site 1004785009429 putative cAMP binding site [chemical binding]; other site 1004785009430 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 1004785009431 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1004785009432 Putative glucoamylase; Region: Glycoamylase; pfam10091 1004785009433 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1004785009434 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1004785009435 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1004785009436 BON domain; Region: BON; pfam04972 1004785009437 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1004785009438 HflK protein; Region: hflK; TIGR01933 1004785009439 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 1004785009440 HflC protein; Region: hflC; TIGR01932 1004785009441 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 1004785009442 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009443 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009444 metal binding site [ion binding]; metal-binding site 1004785009445 active site 1004785009446 I-site; other site 1004785009447 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004785009448 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1004785009449 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004785009450 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1004785009451 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1004785009452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785009453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785009454 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 1004785009455 putative effector binding pocket; other site 1004785009456 dimerization interface [polypeptide binding]; other site 1004785009457 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1004785009458 Part of AAA domain; Region: AAA_19; pfam13245 1004785009459 Family description; Region: UvrD_C_2; pfam13538 1004785009460 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004785009461 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004785009462 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004785009463 PAS fold; Region: PAS; pfam00989 1004785009464 PAS domain; Region: PAS_8; pfam13188 1004785009465 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785009466 PAS domain S-box; Region: sensory_box; TIGR00229 1004785009467 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 1004785009468 putative active site [active] 1004785009469 heme pocket [chemical binding]; other site 1004785009470 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 1004785009471 PAS fold; Region: PAS_3; pfam08447 1004785009472 putative active site [active] 1004785009473 heme pocket [chemical binding]; other site 1004785009474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1004785009475 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 1004785009476 dimer interface [polypeptide binding]; other site 1004785009477 phosphorylation site [posttranslational modification] 1004785009478 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 1004785009479 ATP binding site [chemical binding]; other site 1004785009480 Mg2+ binding site [ion binding]; other site 1004785009481 G-X-G motif; other site 1004785009482 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009484 active site 1004785009485 phosphorylation site [posttranslational modification] 1004785009486 intermolecular recognition site; other site 1004785009487 dimerization interface [polypeptide binding]; other site 1004785009488 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1004785009489 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004785009490 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004785009491 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004785009492 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1004785009493 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004785009494 putative NAD(P) binding site [chemical binding]; other site 1004785009495 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1004785009496 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 1004785009497 dimerization domain [polypeptide binding]; other site 1004785009498 dimer interface [polypeptide binding]; other site 1004785009499 catalytic residues [active] 1004785009500 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1004785009501 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 1004785009502 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004785009503 catalytic residues [active] 1004785009504 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004785009505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009506 active site 1004785009507 phosphorylation site [posttranslational modification] 1004785009508 intermolecular recognition site; other site 1004785009509 dimerization interface [polypeptide binding]; other site 1004785009510 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 1004785009511 DNA binding site [nucleotide binding] 1004785009512 sensor protein QseC; Provisional; Region: PRK10337 1004785009513 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 1004785009514 dimer interface [polypeptide binding]; other site 1004785009515 phosphorylation site [posttranslational modification] 1004785009516 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 1004785009517 ATP binding site [chemical binding]; other site 1004785009518 Mg2+ binding site [ion binding]; other site 1004785009519 G-X-G motif; other site 1004785009520 lipid-transfer protein; Provisional; Region: PRK08256 1004785009521 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1004785009522 active site 1004785009523 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 1004785009524 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1004785009525 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004785009526 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 1004785009527 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004785009528 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 1004785009529 N-terminal plug; other site 1004785009530 ligand-binding site [chemical binding]; other site 1004785009531 Predicted membrane protein [Function unknown]; Region: COG1971 1004785009532 Domain of unknown function DUF; Region: DUF204; pfam02659 1004785009533 Domain of unknown function DUF; Region: DUF204; pfam02659 1004785009534 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1004785009535 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1004785009536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785009537 Beta-Casp domain; Region: Beta-Casp; smart01027 1004785009538 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1004785009539 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1004785009540 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1004785009541 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1004785009542 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1004785009543 hypothetical protein; Validated; Region: PRK00029 1004785009544 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1004785009545 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1004785009546 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1004785009547 active site 1004785009548 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1004785009549 NAD binding site [chemical binding]; other site 1004785009550 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004785009551 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004785009552 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009553 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009554 metal binding site [ion binding]; metal-binding site 1004785009555 active site 1004785009556 I-site; other site 1004785009557 Predicted permeases [General function prediction only]; Region: COG0679 1004785009558 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1004785009559 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1004785009560 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1004785009561 dimer interface [polypeptide binding]; other site 1004785009562 Trp docking motif [polypeptide binding]; other site 1004785009563 active site 1004785009564 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004785009565 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 1004785009566 substrate binding pocket [chemical binding]; other site 1004785009567 membrane-bound complex binding site; other site 1004785009568 hinge residues; other site 1004785009569 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1004785009570 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1004785009571 ligand binding site [chemical binding]; other site 1004785009572 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1004785009573 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004785009574 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004785009575 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004785009576 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1004785009577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785009578 Walker A/P-loop; other site 1004785009579 ATP binding site [chemical binding]; other site 1004785009580 Q-loop/lid; other site 1004785009581 ABC transporter signature motif; other site 1004785009582 Walker B; other site 1004785009583 D-loop; other site 1004785009584 H-loop/switch region; other site 1004785009585 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1004785009586 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1004785009587 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1004785009588 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 1004785009589 interface (dimer of trimers) [polypeptide binding]; other site 1004785009590 Substrate-binding/catalytic site; other site 1004785009591 Zn-binding sites [ion binding]; other site 1004785009592 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1004785009593 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1004785009594 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1004785009595 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1004785009596 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1004785009597 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 1004785009598 FeS/SAM binding site; other site 1004785009599 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1004785009600 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004785009601 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785009602 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785009603 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785009604 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 1004785009605 Gram-negative porin; Region: Porin_4; pfam13609 1004785009606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785009607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009608 active site 1004785009609 phosphorylation site [posttranslational modification] 1004785009610 intermolecular recognition site; other site 1004785009611 dimerization interface [polypeptide binding]; other site 1004785009612 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 1004785009613 DNA binding residues [nucleotide binding] 1004785009614 dimerization interface [polypeptide binding]; other site 1004785009615 PAS fold; Region: PAS_7; pfam12860 1004785009616 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785009617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785009618 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 1004785009619 dimer interface [polypeptide binding]; other site 1004785009620 phosphorylation site [posttranslational modification] 1004785009621 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 1004785009622 ATP binding site [chemical binding]; other site 1004785009623 G-X-G motif; other site 1004785009624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009625 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009626 active site 1004785009627 phosphorylation site [posttranslational modification] 1004785009628 intermolecular recognition site; other site 1004785009629 dimerization interface [polypeptide binding]; other site 1004785009630 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1004785009631 FIST N domain; Region: FIST; pfam08495 1004785009632 FIST C domain; Region: FIST_C; pfam10442 1004785009633 FMN-binding domain; Region: FMN_bind; cl01081 1004785009634 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1004785009635 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1004785009636 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1004785009637 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1004785009638 NAD(P) binding site [chemical binding]; other site 1004785009639 catalytic residues [active] 1004785009640 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785009641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009642 active site 1004785009643 phosphorylation site [posttranslational modification] 1004785009644 intermolecular recognition site; other site 1004785009645 dimerization interface [polypeptide binding]; other site 1004785009646 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1004785009647 DNA binding residues [nucleotide binding] 1004785009648 dimerization interface [polypeptide binding]; other site 1004785009649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004785009650 Histidine kinase; Region: HisKA_3; pfam07730 1004785009651 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 1004785009652 ATP binding site [chemical binding]; other site 1004785009653 Mg2+ binding site [ion binding]; other site 1004785009654 G-X-G motif; other site 1004785009655 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 1004785009656 PAS domain; Region: PAS_9; pfam13426 1004785009657 putative active site [active] 1004785009658 heme pocket [chemical binding]; other site 1004785009659 PAS domain; Region: PAS_9; pfam13426 1004785009660 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 1004785009661 putative active site [active] 1004785009662 heme pocket [chemical binding]; other site 1004785009663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785009664 dimer interface [polypeptide binding]; other site 1004785009665 putative CheW interface [polypeptide binding]; other site 1004785009666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785009667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785009668 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 1004785009669 dimerization interface [polypeptide binding]; other site 1004785009670 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1004785009671 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1004785009672 tetrameric interface [polypeptide binding]; other site 1004785009673 NAD binding site [chemical binding]; other site 1004785009674 catalytic residues [active] 1004785009675 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004785009676 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1004785009677 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 1004785009678 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 1004785009679 active site 1004785009680 BCCT family transporter; Region: BCCT; pfam02028 1004785009681 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1004785009682 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1004785009683 active site 1004785009684 substrate binding site [chemical binding]; other site 1004785009685 FMN binding site [chemical binding]; other site 1004785009686 putative catalytic residues [active] 1004785009687 D-lactate dehydrogenase; Provisional; Region: PRK11183 1004785009688 FAD binding domain; Region: FAD_binding_4; pfam01565 1004785009689 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1004785009690 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785009691 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 1004785009692 DNA binding residues [nucleotide binding] 1004785009693 dimerization interface [polypeptide binding]; other site 1004785009694 lipoprotein; Provisional; Region: PRK11443 1004785009695 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1004785009696 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1004785009697 Curli assembly protein CsgE; Region: CsgE; pfam10627 1004785009698 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1004785009699 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1004785009700 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1004785009701 catalytic triad [active] 1004785009702 putative active site [active] 1004785009703 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1004785009704 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 1004785009705 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785009706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009707 active site 1004785009708 phosphorylation site [posttranslational modification] 1004785009709 intermolecular recognition site; other site 1004785009710 dimerization interface [polypeptide binding]; other site 1004785009711 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 1004785009712 DNA binding residues [nucleotide binding] 1004785009713 dimerization interface [polypeptide binding]; other site 1004785009714 MASE1; Region: MASE1; cl17823 1004785009715 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 1004785009716 Histidine kinase; Region: HisKA_3; pfam07730 1004785009717 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 1004785009718 ATP binding site [chemical binding]; other site 1004785009719 Mg2+ binding site [ion binding]; other site 1004785009720 G-X-G motif; other site 1004785009721 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1004785009722 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1004785009723 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 1004785009724 ATP binding site [chemical binding]; other site 1004785009725 Mg++ binding site [ion binding]; other site 1004785009726 motif III; other site 1004785009727 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 1004785009728 nucleotide binding region [chemical binding]; other site 1004785009729 ATP-binding site [chemical binding]; other site 1004785009730 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785009731 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1004785009732 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1004785009733 heme binding site [chemical binding]; other site 1004785009734 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1004785009735 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004785009736 PAS domain S-box; Region: sensory_box; TIGR00229 1004785009737 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 1004785009738 putative active site [active] 1004785009739 heme pocket [chemical binding]; other site 1004785009740 PAS domain S-box; Region: sensory_box; TIGR00229 1004785009741 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 1004785009742 putative active site [active] 1004785009743 heme pocket [chemical binding]; other site 1004785009744 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 1004785009745 PAS domain; Region: PAS_9; pfam13426 1004785009746 putative active site [active] 1004785009747 heme pocket [chemical binding]; other site 1004785009748 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785009749 putative CheW interface [polypeptide binding]; other site 1004785009750 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1004785009751 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1004785009752 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1004785009753 putative active site [active] 1004785009754 putative active site [active] 1004785009755 catalytic site [active] 1004785009756 catalytic site [active] 1004785009757 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1004785009758 putative active site [active] 1004785009759 catalytic site [active] 1004785009760 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1004785009761 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004785009762 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004785009763 putative catalytic site [active] 1004785009764 putative metal binding site [ion binding]; other site 1004785009765 putative phosphate binding site [ion binding]; other site 1004785009766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785009767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785009768 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 1004785009769 dimerization interface [polypeptide binding]; other site 1004785009770 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785009771 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 1004785009772 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 1004785009773 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004785009774 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1004785009775 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 1004785009776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785009777 homodimer interface [polypeptide binding]; other site 1004785009778 catalytic residue [active] 1004785009779 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009781 active site 1004785009782 phosphorylation site [posttranslational modification] 1004785009783 intermolecular recognition site; other site 1004785009784 dimerization interface [polypeptide binding]; other site 1004785009785 CheC-like family; Region: CheC; pfam04509 1004785009786 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1004785009787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785009788 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 1004785009789 ATP binding site [chemical binding]; other site 1004785009790 Mg2+ binding site [ion binding]; other site 1004785009791 G-X-G motif; other site 1004785009792 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1004785009793 DNA polymerase II; Reviewed; Region: PRK05762 1004785009794 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1004785009795 active site 1004785009796 catalytic site [active] 1004785009797 substrate binding site [chemical binding]; other site 1004785009798 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 1004785009799 active site 1004785009800 metal-binding site 1004785009801 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 1004785009802 pseudo EF-hand loop; other site 1004785009803 peptide binding pocket; other site 1004785009804 Ca2+ binding site [ion binding]; other site 1004785009805 AMP-binding domain protein; Validated; Region: PRK08315 1004785009806 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004785009807 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1004785009808 acyl-activating enzyme (AAE) consensus motif; other site 1004785009809 acyl-activating enzyme (AAE) consensus motif; other site 1004785009810 putative AMP binding site [chemical binding]; other site 1004785009811 putative active site [active] 1004785009812 putative CoA binding site [chemical binding]; other site 1004785009813 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1004785009814 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1004785009815 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1004785009816 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 1004785009817 S-adenosylmethionine binding site [chemical binding]; other site 1004785009818 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1004785009819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004785009820 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 1004785009821 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1004785009822 Di-iron ligands [ion binding]; other site 1004785009823 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 1004785009824 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1004785009825 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785009826 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785009827 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004785009828 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1004785009829 ligand binding site [chemical binding]; other site 1004785009830 active site 1004785009831 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785009832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785009833 active site 1004785009834 phosphorylation site [posttranslational modification] 1004785009835 intermolecular recognition site; other site 1004785009836 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004785009837 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009839 metal binding site [ion binding]; metal-binding site 1004785009840 active site 1004785009841 I-site; other site 1004785009842 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 1004785009843 TIGR03899 family protein; Region: TIGR03899 1004785009844 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1004785009845 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 1004785009846 Active Sites [active] 1004785009847 sulfite reductase subunit beta; Provisional; Region: PRK13504 1004785009848 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004785009849 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004785009850 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1004785009851 Flavodoxin; Region: Flavodoxin_1; pfam00258 1004785009852 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 1004785009853 FAD binding pocket [chemical binding]; other site 1004785009854 FAD binding motif [chemical binding]; other site 1004785009855 catalytic residues [active] 1004785009856 NAD binding pocket [chemical binding]; other site 1004785009857 phosphate binding motif [ion binding]; other site 1004785009858 beta-alpha-beta structure motif; other site 1004785009859 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1004785009860 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1004785009861 PspC domain; Region: PspC; pfam04024 1004785009862 phage shock protein A; Region: phageshock_pspA; TIGR02977 1004785009863 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1004785009864 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 1004785009865 FMN binding site [chemical binding]; other site 1004785009866 active site 1004785009867 catalytic residues [active] 1004785009868 substrate binding site [chemical binding]; other site 1004785009869 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1004785009870 hypothetical protein; Provisional; Region: PRK11281 1004785009871 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785009872 ligand binding site [chemical binding]; other site 1004785009873 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 1004785009874 Rab subfamily motif 1 (RabSF1); other site 1004785009875 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1004785009876 G1 box; other site 1004785009877 GTP/Mg2+ binding site [chemical binding]; other site 1004785009878 Rab subfamily motif 2 (RabSF2); other site 1004785009879 Switch I region; other site 1004785009880 G2 box; other site 1004785009881 effector interaction site; other site 1004785009882 GDI interaction site; other site 1004785009883 Rab family motif 1 (RabF1); other site 1004785009884 GEF interaction site [polypeptide binding]; other site 1004785009885 Rab family motif 2 (RabF2); other site 1004785009886 G3 box; other site 1004785009887 Switch II region; other site 1004785009888 Rab family motif 3 (RabF3); other site 1004785009889 Rab family motif 4 (RabF4); other site 1004785009890 Rab family motif 5 (RabF5); other site 1004785009891 Rab subfamily motif 3 (RabSF3); other site 1004785009892 G4 box; other site 1004785009893 G5 box; other site 1004785009894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009896 metal binding site [ion binding]; metal-binding site 1004785009897 active site 1004785009898 I-site; other site 1004785009899 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 1004785009900 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1004785009901 S-formylglutathione hydrolase; Region: PLN02442 1004785009902 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004785009903 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1004785009904 putative acyl-acceptor binding pocket; other site 1004785009905 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004785009906 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1004785009907 putative acyl-acceptor binding pocket; other site 1004785009908 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785009909 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785009910 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1004785009911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785009912 NAD(P) binding site [chemical binding]; other site 1004785009913 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004785009914 active site 1004785009915 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1004785009916 Na2 binding site [ion binding]; other site 1004785009917 putative substrate binding site 1 [chemical binding]; other site 1004785009918 Na binding site 1 [ion binding]; other site 1004785009919 putative substrate binding site 2 [chemical binding]; other site 1004785009920 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1004785009921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785009922 NAD(P) binding site [chemical binding]; other site 1004785009923 active site 1004785009924 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1004785009925 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1004785009926 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1004785009927 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1004785009928 putative active site [active] 1004785009929 putative metal binding site [ion binding]; other site 1004785009930 flavodoxin FldB; Provisional; Region: PRK12359 1004785009931 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004785009932 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004785009933 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1004785009934 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1004785009935 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1004785009936 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1004785009937 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 1004785009938 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1004785009939 DXD motif; other site 1004785009940 PilZ domain; Region: PilZ; pfam07238 1004785009941 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004785009942 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1004785009943 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 1004785009944 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1004785009945 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1004785009946 NAD binding site [chemical binding]; other site 1004785009947 active site 1004785009948 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1004785009949 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004785009950 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785009951 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1004785009952 active site 1004785009953 catalytic residues [active] 1004785009954 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 1004785009955 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004785009956 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004785009957 catalytic residues [active] 1004785009958 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1004785009959 pentamer interface [polypeptide binding]; other site 1004785009960 dodecaamer interface [polypeptide binding]; other site 1004785009961 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004785009962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785009963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785009964 metal binding site [ion binding]; metal-binding site 1004785009965 active site 1004785009966 I-site; other site 1004785009967 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 1004785009968 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1004785009969 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 1004785009970 tetramer interface [polypeptide binding]; other site 1004785009971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785009972 catalytic residue [active] 1004785009973 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1004785009974 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 1004785009975 active site 1004785009976 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1004785009977 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1004785009978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785009979 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 1004785009980 active site 1004785009981 metal binding site [ion binding]; metal-binding site 1004785009982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785009983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785009984 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 1004785009985 dimerization interface [polypeptide binding]; other site 1004785009986 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1004785009987 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1004785009988 putative active site [active] 1004785009989 putative dimer interface [polypeptide binding]; other site 1004785009990 Predicted membrane protein [Function unknown]; Region: COG4682 1004785009991 yiaA/B two helix domain; Region: YiaAB; pfam05360 1004785009992 yiaA/B two helix domain; Region: YiaAB; pfam05360 1004785009993 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1004785009994 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1004785009995 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 1004785009996 ligand binding site [chemical binding]; other site 1004785009997 flexible hinge region; other site 1004785009998 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1004785009999 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1004785010000 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1004785010001 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1004785010002 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1004785010003 GntP family permease; Region: GntP_permease; pfam02447 1004785010004 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1004785010005 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785010006 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785010007 DNA binding site [nucleotide binding] 1004785010008 domain linker motif; other site 1004785010009 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1004785010010 putative dimerization interface [polypeptide binding]; other site 1004785010011 putative ligand binding site [chemical binding]; other site 1004785010012 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004785010013 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1004785010014 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1004785010015 active site 1004785010016 DNA polymerase IV; Validated; Region: PRK02406 1004785010017 DNA binding site [nucleotide binding] 1004785010018 Family description; Region: VCBS; pfam13517 1004785010019 Family description; Region: VCBS; pfam13517 1004785010020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1004785010021 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1004785010022 ApbE family; Region: ApbE; pfam02424 1004785010023 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1004785010024 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 1004785010025 FAD binding pocket [chemical binding]; other site 1004785010026 FAD binding motif [chemical binding]; other site 1004785010027 phosphate binding motif [ion binding]; other site 1004785010028 beta-alpha-beta structure motif; other site 1004785010029 NAD binding pocket [chemical binding]; other site 1004785010030 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1004785010031 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1004785010032 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1004785010033 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1004785010034 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1004785010035 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1004785010036 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1004785010037 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1004785010038 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1004785010039 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1004785010040 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1004785010041 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1004785010042 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1004785010043 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004785010044 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1004785010045 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1004785010046 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 1004785010047 malate dehydrogenase; Provisional; Region: PRK05086 1004785010048 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1004785010049 NAD binding site [chemical binding]; other site 1004785010050 dimerization interface [polypeptide binding]; other site 1004785010051 Substrate binding site [chemical binding]; other site 1004785010052 arginine repressor; Provisional; Region: PRK05066 1004785010053 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1004785010054 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1004785010055 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1004785010056 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1004785010057 potential catalytic triad [active] 1004785010058 conserved cys residue [active] 1004785010059 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004785010060 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 1004785010061 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1004785010062 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1004785010063 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 1004785010064 Sugar specificity; other site 1004785010065 Pyrimidine base specificity; other site 1004785010066 ATP-binding site [chemical binding]; other site 1004785010067 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1004785010068 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1004785010069 Nucleoside recognition; Region: Gate; pfam07670 1004785010070 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1004785010071 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1004785010072 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1004785010073 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1004785010074 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 1004785010075 TPR motif; other site 1004785010076 TPR repeat; Region: TPR_11; pfam13414 1004785010077 binding surface 1004785010078 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 1004785010079 binding surface 1004785010080 TPR motif; other site 1004785010081 TPR repeat; Region: TPR_11; pfam13414 1004785010082 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1004785010083 Fasciclin domain; Region: Fasciclin; pfam02469 1004785010084 MAPEG family; Region: MAPEG; pfam01124 1004785010085 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785010086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010087 active site 1004785010088 phosphorylation site [posttranslational modification] 1004785010089 intermolecular recognition site; other site 1004785010090 dimerization interface [polypeptide binding]; other site 1004785010091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785010092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785010093 metal binding site [ion binding]; metal-binding site 1004785010094 active site 1004785010095 I-site; other site 1004785010096 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1004785010097 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1004785010098 active site 1004785010099 catalytic site [active] 1004785010100 substrate binding site [chemical binding]; other site 1004785010101 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1004785010102 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 1004785010103 ligand binding site [chemical binding]; other site 1004785010104 flexible hinge region; other site 1004785010105 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 1004785010106 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004785010107 metal binding triad; other site 1004785010108 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1004785010109 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1004785010110 Na binding site [ion binding]; other site 1004785010111 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1004785010112 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1004785010113 Na binding site [ion binding]; other site 1004785010114 PAS fold; Region: PAS_7; pfam12860 1004785010115 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1004785010116 dimer interface [polypeptide binding]; other site 1004785010117 phosphorylation site [posttranslational modification] 1004785010118 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 1004785010119 ATP binding site [chemical binding]; other site 1004785010120 Mg2+ binding site [ion binding]; other site 1004785010121 G-X-G motif; other site 1004785010122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010123 active site 1004785010124 phosphorylation site [posttranslational modification] 1004785010125 intermolecular recognition site; other site 1004785010126 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004785010127 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785010128 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1004785010129 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1004785010130 Predicted deacylase [General function prediction only]; Region: COG3608 1004785010131 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1004785010132 putative active site [active] 1004785010133 Zn binding site [ion binding]; other site 1004785010134 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1004785010135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785010136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010137 active site 1004785010138 phosphorylation site [posttranslational modification] 1004785010139 intermolecular recognition site; other site 1004785010140 dimerization interface [polypeptide binding]; other site 1004785010141 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 1004785010142 DNA binding residues [nucleotide binding] 1004785010143 dimerization interface [polypeptide binding]; other site 1004785010144 acetyl-CoA synthetase; Provisional; Region: PRK00174 1004785010145 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1004785010146 active site 1004785010147 CoA binding site [chemical binding]; other site 1004785010148 acyl-activating enzyme (AAE) consensus motif; other site 1004785010149 AMP binding site [chemical binding]; other site 1004785010150 acetate binding site [chemical binding]; other site 1004785010151 Porin subfamily; Region: Porin_2; pfam02530 1004785010152 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 1004785010153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004785010154 active site 1004785010155 catalytic tetrad [active] 1004785010156 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1004785010157 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004785010158 active site 1004785010159 catalytic residues [active] 1004785010160 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 1004785010161 phosphopeptide binding site; other site 1004785010162 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785010163 GAF domain; Region: GAF_2; pfam13185 1004785010164 Protein kinase domain; Region: Pkinase; pfam00069 1004785010165 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1004785010166 active site 1004785010167 ATP binding site [chemical binding]; other site 1004785010168 substrate binding site [chemical binding]; other site 1004785010169 activation loop (A-loop); other site 1004785010170 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785010171 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 1004785010172 TPR motif; other site 1004785010173 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004785010174 binding surface 1004785010175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1004785010176 Histidine kinase; Region: HisKA_3; pfam07730 1004785010177 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 1004785010178 ATP binding site [chemical binding]; other site 1004785010179 Mg2+ binding site [ion binding]; other site 1004785010180 G-X-G motif; other site 1004785010181 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785010182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010183 active site 1004785010184 phosphorylation site [posttranslational modification] 1004785010185 intermolecular recognition site; other site 1004785010186 dimerization interface [polypeptide binding]; other site 1004785010187 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 1004785010188 DNA binding residues [nucleotide binding] 1004785010189 dimerization interface [polypeptide binding]; other site 1004785010190 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1004785010191 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004785010192 active site 1004785010193 catalytic residues [active] 1004785010194 S-layer homology domain; Region: SLH; pfam00395 1004785010195 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1004785010196 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 1004785010197 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1004785010198 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1004785010199 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1004785010200 tetramer interface [polypeptide binding]; other site 1004785010201 heme binding pocket [chemical binding]; other site 1004785010202 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1004785010203 elongation factor Tu; Reviewed; Region: PRK00049 1004785010204 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1004785010205 G1 box; other site 1004785010206 GEF interaction site [polypeptide binding]; other site 1004785010207 GTP/Mg2+ binding site [chemical binding]; other site 1004785010208 Switch I region; other site 1004785010209 G2 box; other site 1004785010210 G3 box; other site 1004785010211 Switch II region; other site 1004785010212 G4 box; other site 1004785010213 G5 box; other site 1004785010214 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 1004785010215 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 1004785010216 Antibiotic Binding Site [chemical binding]; other site 1004785010217 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1004785010218 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 1004785010219 putative DNA binding site [nucleotide binding]; other site 1004785010220 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1004785010221 putative Zn2+ binding site [ion binding]; other site 1004785010222 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1004785010223 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1004785010224 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1004785010225 FAD binding domain; Region: FAD_binding_4; pfam01565 1004785010226 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1004785010227 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004785010228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785010229 dimer interface [polypeptide binding]; other site 1004785010230 putative CheW interface [polypeptide binding]; other site 1004785010231 Outer membrane efflux protein; Region: OEP; pfam02321 1004785010232 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785010233 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 1004785010234 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785010235 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1004785010236 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785010237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785010238 Walker A/P-loop; other site 1004785010239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785010240 Q-loop/lid; other site 1004785010241 Q-loop/lid; other site 1004785010242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785010243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785010244 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 1004785010245 dimerization interface [polypeptide binding]; other site 1004785010246 Flagellin N-methylase; Region: FliB; pfam03692 1004785010247 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1004785010248 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1004785010249 Substrate binding site; other site 1004785010250 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1004785010251 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1004785010252 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1004785010253 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1004785010254 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1004785010255 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 1004785010256 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004785010257 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1004785010258 Probable Catalytic site; other site 1004785010259 metal-binding site 1004785010260 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1004785010261 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1004785010262 NAD binding site [chemical binding]; other site 1004785010263 substrate binding site [chemical binding]; other site 1004785010264 homodimer interface [polypeptide binding]; other site 1004785010265 active site 1004785010266 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1004785010267 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1004785010268 NADP binding site [chemical binding]; other site 1004785010269 active site 1004785010270 putative substrate binding site [chemical binding]; other site 1004785010271 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1004785010272 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1004785010273 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1004785010274 substrate binding site; other site 1004785010275 tetramer interface; other site 1004785010276 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1004785010277 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 1004785010278 active site 1004785010279 substrate binding site [chemical binding]; other site 1004785010280 metal binding site [ion binding]; metal-binding site 1004785010281 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004785010282 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 1004785010283 active site 1004785010284 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1004785010285 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785010286 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 1004785010287 active site 1004785010288 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 1004785010289 active site 1004785010290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004785010291 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1004785010292 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1004785010293 trimer interface [polypeptide binding]; other site 1004785010294 active site 1004785010295 substrate binding site [chemical binding]; other site 1004785010296 CoA binding site [chemical binding]; other site 1004785010297 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004785010298 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 1004785010299 active site 1004785010300 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1004785010301 flagellin; Reviewed; Region: PRK08869 1004785010302 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004785010303 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004785010304 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1004785010305 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1004785010306 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1004785010307 alphaNTD homodimer interface [polypeptide binding]; other site 1004785010308 alphaNTD - beta interaction site [polypeptide binding]; other site 1004785010309 alphaNTD - beta' interaction site [polypeptide binding]; other site 1004785010310 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1004785010311 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1004785010312 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1004785010313 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 1004785010314 RNA binding surface [nucleotide binding]; other site 1004785010315 30S ribosomal protein S11; Validated; Region: PRK05309 1004785010316 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1004785010317 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1004785010318 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1004785010319 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1004785010320 SecY translocase; Region: SecY; pfam00344 1004785010321 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1004785010322 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 1004785010323 23S rRNA binding site [nucleotide binding]; other site 1004785010324 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1004785010325 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1004785010326 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1004785010327 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 1004785010328 5S rRNA interface [nucleotide binding]; other site 1004785010329 23S rRNA interface [nucleotide binding]; other site 1004785010330 L5 interface [polypeptide binding]; other site 1004785010331 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1004785010332 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1004785010333 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1004785010334 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1004785010335 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1004785010336 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1004785010337 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1004785010338 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1004785010339 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1004785010340 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1004785010341 RNA binding site [nucleotide binding]; other site 1004785010342 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1004785010343 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785010344 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004785010345 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 1004785010346 putative active site [active] 1004785010347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785010348 heme pocket [chemical binding]; other site 1004785010349 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 1004785010350 dimer interface [polypeptide binding]; other site 1004785010351 phosphorylation site [posttranslational modification] 1004785010352 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 1004785010353 ATP binding site [chemical binding]; other site 1004785010354 Mg2+ binding site [ion binding]; other site 1004785010355 G-X-G motif; other site 1004785010356 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785010357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010358 active site 1004785010359 phosphorylation site [posttranslational modification] 1004785010360 intermolecular recognition site; other site 1004785010361 dimerization interface [polypeptide binding]; other site 1004785010362 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004785010363 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1004785010364 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1004785010365 active site 1004785010366 catalytic residues [active] 1004785010367 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1004785010368 HTH-like domain; Region: HTH_21; pfam13276 1004785010369 Integrase core domain; Region: rve; pfam00665 1004785010370 Integrase core domain; Region: rve_2; pfam13333 1004785010371 Homeodomain-like domain; Region: HTH_23; cl17451 1004785010372 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1004785010373 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1004785010374 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004785010375 ribonuclease R; Region: RNase_R; TIGR02063 1004785010376 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1004785010377 RNB domain; Region: RNB; pfam00773 1004785010378 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 1004785010379 RNA binding site [nucleotide binding]; other site 1004785010380 PhoD-like phosphatase; Region: PhoD; pfam09423 1004785010381 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1004785010382 putative active site [active] 1004785010383 putative metal binding site [ion binding]; other site 1004785010384 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1004785010385 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1004785010386 Predicted transcriptional regulator [Transcription]; Region: COG3905 1004785010387 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004785010388 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004785010389 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 1004785010390 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1004785010391 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 1004785010392 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1004785010393 Sel1-like repeats; Region: SEL1; smart00671 1004785010394 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1004785010395 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1004785010396 FMN reductase; Validated; Region: fre; PRK08051 1004785010397 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 1004785010398 FAD binding pocket [chemical binding]; other site 1004785010399 FAD binding motif [chemical binding]; other site 1004785010400 phosphate binding motif [ion binding]; other site 1004785010401 beta-alpha-beta structure motif; other site 1004785010402 NAD binding pocket [chemical binding]; other site 1004785010403 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1004785010404 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004785010405 putative metal binding site [ion binding]; other site 1004785010406 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 1004785010407 Interdomain contacts; other site 1004785010408 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1004785010409 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1004785010410 substrate binding pocket [chemical binding]; other site 1004785010411 membrane-bound complex binding site; other site 1004785010412 hinge residues; other site 1004785010413 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1004785010414 GAF domain; Region: GAF; pfam01590 1004785010415 Phytochrome region; Region: PHY; pfam00360 1004785010416 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 1004785010417 dimer interface [polypeptide binding]; other site 1004785010418 phosphorylation site [posttranslational modification] 1004785010419 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 1004785010420 ATP binding site [chemical binding]; other site 1004785010421 Mg2+ binding site [ion binding]; other site 1004785010422 G-X-G motif; other site 1004785010423 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785010424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010425 active site 1004785010426 phosphorylation site [posttranslational modification] 1004785010427 intermolecular recognition site; other site 1004785010428 dimerization interface [polypeptide binding]; other site 1004785010429 Predicted transcriptional regulators [Transcription]; Region: COG1510 1004785010430 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 1004785010431 putative DNA binding site [nucleotide binding]; other site 1004785010432 putative Zn2+ binding site [ion binding]; other site 1004785010433 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1004785010434 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1004785010435 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1004785010436 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1004785010437 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 1004785010438 putative DNA binding site [nucleotide binding]; other site 1004785010439 putative Zn2+ binding site [ion binding]; other site 1004785010440 AsnC family; Region: AsnC_trans_reg; pfam01037 1004785010441 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 1004785010442 DNA-binding site [nucleotide binding]; DNA binding site 1004785010443 RNA-binding motif; other site 1004785010444 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1004785010445 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1004785010446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1004785010447 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1004785010448 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1004785010449 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 1004785010450 S-adenosylmethionine binding site [chemical binding]; other site 1004785010451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1004785010452 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1004785010453 oligopeptidase A; Provisional; Region: PRK10911 1004785010454 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1004785010455 active site 1004785010456 Zn binding site [ion binding]; other site 1004785010457 Helix-turn-helix domain; Region: HTH_17; pfam12728 1004785010458 Response regulator receiver domain; Region: Response_reg; pfam00072 1004785010459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010460 active site 1004785010461 phosphorylation site [posttranslational modification] 1004785010462 intermolecular recognition site; other site 1004785010463 dimerization interface [polypeptide binding]; other site 1004785010464 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1004785010465 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 1004785010466 dimerization interface [polypeptide binding]; other site 1004785010467 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 1004785010468 dimer interface [polypeptide binding]; other site 1004785010469 phosphorylation site [posttranslational modification] 1004785010470 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 1004785010471 ATP binding site [chemical binding]; other site 1004785010472 Mg2+ binding site [ion binding]; other site 1004785010473 G-X-G motif; other site 1004785010474 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004785010475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010476 active site 1004785010477 phosphorylation site [posttranslational modification] 1004785010478 intermolecular recognition site; other site 1004785010479 dimerization interface [polypeptide binding]; other site 1004785010480 HD domain; Region: HD_5; pfam13487 1004785010481 glutathione reductase; Validated; Region: PRK06116 1004785010482 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004785010483 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785010484 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004785010485 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1004785010486 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 1004785010487 putative [Fe4-S4] binding site [ion binding]; other site 1004785010488 putative molybdopterin cofactor binding site [chemical binding]; other site 1004785010489 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 1004785010490 putative molybdopterin cofactor binding site; other site 1004785010491 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004785010492 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 1004785010493 N-terminal plug; other site 1004785010494 ligand-binding site [chemical binding]; other site 1004785010495 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004785010496 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1004785010497 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004785010498 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1004785010499 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004785010500 Amidohydrolase; Region: Amidohydro_5; pfam13594 1004785010501 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 1004785010502 active site 1004785010503 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 1004785010504 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1004785010505 tetramerization interface [polypeptide binding]; other site 1004785010506 substrate binding pocket [chemical binding]; other site 1004785010507 catalytic residues [active] 1004785010508 inhibitor binding sites; inhibition site 1004785010509 NADP(H) binding site [chemical binding]; other site 1004785010510 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1004785010511 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1004785010512 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785010513 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1004785010514 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 1004785010515 putative active site [active] 1004785010516 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785010517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785010518 Walker A/P-loop; other site 1004785010519 ATP binding site [chemical binding]; other site 1004785010520 Q-loop/lid; other site 1004785010521 ABC transporter signature motif; other site 1004785010522 Walker B; other site 1004785010523 D-loop; other site 1004785010524 H-loop/switch region; other site 1004785010525 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004785010526 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 1004785010527 DNA binding residues [nucleotide binding] 1004785010528 dimerization interface [polypeptide binding]; other site 1004785010529 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004785010530 putative regulator PrlF; Provisional; Region: PRK09974 1004785010531 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1004785010532 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1004785010533 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1004785010534 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 1004785010535 Walker A motif; other site 1004785010536 ATP binding site [chemical binding]; other site 1004785010537 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1004785010538 Walker B motif; other site 1004785010539 arginine finger; other site 1004785010540 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004785010541 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 1004785010542 active site 1004785010543 HslU subunit interaction site [polypeptide binding]; other site 1004785010544 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1004785010545 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1004785010546 Sporulation related domain; Region: SPOR; pfam05036 1004785010547 primosome assembly protein PriA; Validated; Region: PRK05580 1004785010548 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 1004785010549 ATP binding site [chemical binding]; other site 1004785010550 putative Mg++ binding site [ion binding]; other site 1004785010551 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1004785010552 ATP-binding site [chemical binding]; other site 1004785010553 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1004785010554 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1004785010555 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1004785010556 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1004785010557 putative NAD(P) binding site [chemical binding]; other site 1004785010558 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 1004785010559 DNA binding site [nucleotide binding] 1004785010560 dimerization interface [polypeptide binding]; other site 1004785010561 corepressor binding sites; other site 1004785010562 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 1004785010563 FAD binding site [chemical binding]; other site 1004785010564 hypothetical protein; Reviewed; Region: PRK01637 1004785010565 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1004785010566 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1004785010567 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 1004785010568 putative active site [active] 1004785010569 dimerization interface [polypeptide binding]; other site 1004785010570 putative tRNAtyr binding site [nucleotide binding]; other site 1004785010571 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004785010572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785010573 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785010574 Coenzyme A binding pocket [chemical binding]; other site 1004785010575 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1004785010576 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1004785010577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785010578 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 1004785010579 DNA binding residues [nucleotide binding] 1004785010580 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1004785010581 EAL domain; Region: EAL; pfam00563 1004785010582 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1004785010583 EAL domain; Region: EAL; pfam00563 1004785010584 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1004785010585 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1004785010586 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1004785010587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785010588 Walker A/P-loop; other site 1004785010589 ATP binding site [chemical binding]; other site 1004785010590 Q-loop/lid; other site 1004785010591 ABC transporter signature motif; other site 1004785010592 Walker B; other site 1004785010593 D-loop; other site 1004785010594 H-loop/switch region; other site 1004785010595 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1004785010596 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1004785010597 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 1004785010598 P loop; other site 1004785010599 GTP binding site [chemical binding]; other site 1004785010600 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 1004785010601 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1004785010602 MarC family integral membrane protein; Region: MarC; cl00919 1004785010603 aminopeptidase B; Provisional; Region: PRK05015 1004785010604 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 1004785010605 interface (dimer of trimers) [polypeptide binding]; other site 1004785010606 Substrate-binding/catalytic site; other site 1004785010607 Zn-binding sites [ion binding]; other site 1004785010608 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1004785010609 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1004785010610 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1004785010611 active site 1004785010612 HIGH motif; other site 1004785010613 nucleotide binding site [chemical binding]; other site 1004785010614 active site 1004785010615 KMSKS motif; other site 1004785010616 poly(A) polymerase; Region: pcnB; TIGR01942 1004785010617 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1004785010618 active site 1004785010619 NTP binding site [chemical binding]; other site 1004785010620 metal binding triad [ion binding]; metal-binding site 1004785010621 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1004785010622 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1004785010623 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 1004785010624 catalytic center binding site [active] 1004785010625 ATP binding site [chemical binding]; other site 1004785010626 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 1004785010627 oligomerization interface [polypeptide binding]; other site 1004785010628 active site 1004785010629 metal binding site [ion binding]; metal-binding site 1004785010630 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1004785010631 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1004785010632 active site 1004785010633 ATP-binding site [chemical binding]; other site 1004785010634 pantoate-binding site; other site 1004785010635 HXXH motif; other site 1004785010636 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 1004785010637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004785010638 catalytic residue [active] 1004785010639 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 1004785010640 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 1004785010641 S-adenosylmethionine binding site [chemical binding]; other site 1004785010642 inner membrane transport permease; Provisional; Region: PRK15066 1004785010643 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1004785010644 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1004785010645 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1004785010646 Walker A/P-loop; other site 1004785010647 ATP binding site [chemical binding]; other site 1004785010648 Q-loop/lid; other site 1004785010649 ABC transporter signature motif; other site 1004785010650 Walker B; other site 1004785010651 D-loop; other site 1004785010652 H-loop/switch region; other site 1004785010653 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1004785010654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785010655 active site 1004785010656 phosphorylation site [posttranslational modification] 1004785010657 intermolecular recognition site; other site 1004785010658 dimerization interface [polypeptide binding]; other site 1004785010659 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 1004785010660 DNA binding site [nucleotide binding] 1004785010661 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1004785010662 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 1004785010663 putative ligand binding site [chemical binding]; other site 1004785010664 HAMP domain; Region: HAMP; pfam00672 1004785010665 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 1004785010666 dimer interface [polypeptide binding]; other site 1004785010667 phosphorylation site [posttranslational modification] 1004785010668 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 1004785010669 ATP binding site [chemical binding]; other site 1004785010670 Mg2+ binding site [ion binding]; other site 1004785010671 G-X-G motif; other site 1004785010672 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004785010673 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785010674 Domain of unknown function DUF21; Region: DUF21; pfam01595 1004785010675 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 1004785010676 Predicted permeases [General function prediction only]; Region: COG0701 1004785010677 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1004785010678 Carbon starvation protein CstA; Region: CstA; pfam02554 1004785010679 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1004785010680 Flavodoxin; Region: Flavodoxin_1; pfam00258 1004785010681 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1004785010682 FAD binding pocket [chemical binding]; other site 1004785010683 conserved FAD binding motif [chemical binding]; other site 1004785010684 phosphate binding motif [ion binding]; other site 1004785010685 beta-alpha-beta structure motif; other site 1004785010686 NAD binding pocket [chemical binding]; other site 1004785010687 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1004785010688 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1004785010689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1004785010690 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1004785010691 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1004785010692 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004785010693 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004785010694 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004785010695 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 1004785010696 TPR motif; other site 1004785010697 binding surface 1004785010698 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 1004785010699 TPR motif; other site 1004785010700 binding surface 1004785010701 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 1004785010702 binding surface 1004785010703 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004785010704 TPR motif; other site 1004785010705 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004785010706 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004785010707 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1004785010708 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004785010709 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004785010710 outer membrane receptor FepA; Provisional; Region: PRK13524 1004785010711 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 1004785010712 N-terminal plug; other site 1004785010713 ligand-binding site [chemical binding]; other site 1004785010714 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1004785010715 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1004785010716 active site 1004785010717 substrate binding site [chemical binding]; other site 1004785010718 FMN binding site [chemical binding]; other site 1004785010719 putative catalytic residues [active] 1004785010720 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1004785010721 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1004785010722 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 1004785010723 N-terminal plug; other site 1004785010724 ligand-binding site [chemical binding]; other site 1004785010725 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1004785010726 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1004785010727 TraB family; Region: TraB; pfam01963 1004785010728 potential frameshift: common BLAST hit: gi|332143091|ref|YP_004428829.1| elongation factor Tu 1004785010729 elongation factor G; Reviewed; Region: PRK00007 1004785010730 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1004785010731 G1 box; other site 1004785010732 putative GEF interaction site [polypeptide binding]; other site 1004785010733 GTP/Mg2+ binding site [chemical binding]; other site 1004785010734 Switch I region; other site 1004785010735 G2 box; other site 1004785010736 G3 box; other site 1004785010737 Switch II region; other site 1004785010738 G4 box; other site 1004785010739 G5 box; other site 1004785010740 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 1004785010741 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 1004785010742 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 1004785010743 30S ribosomal protein S7; Validated; Region: PRK05302 1004785010744 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 1004785010745 S17 interaction site [polypeptide binding]; other site 1004785010746 S8 interaction site; other site 1004785010747 16S rRNA interaction site [nucleotide binding]; other site 1004785010748 streptomycin interaction site [chemical binding]; other site 1004785010749 23S rRNA interaction site [nucleotide binding]; other site 1004785010750 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1004785010751 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1004785010752 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1004785010753 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1004785010754 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1004785010755 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1004785010756 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1004785010757 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1004785010758 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1004785010759 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1004785010760 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1004785010761 DNA binding site [nucleotide binding] 1004785010762 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1004785010763 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1004785010764 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 1004785010765 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1004785010766 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 1004785010767 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1004785010768 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 1004785010769 RPB3 interaction site [polypeptide binding]; other site 1004785010770 RPB1 interaction site [polypeptide binding]; other site 1004785010771 RPB11 interaction site [polypeptide binding]; other site 1004785010772 RPB10 interaction site [polypeptide binding]; other site 1004785010773 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 1004785010774 23S rRNA interface [nucleotide binding]; other site 1004785010775 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1004785010776 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 1004785010777 mRNA/rRNA interface [nucleotide binding]; other site 1004785010778 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1004785010779 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 1004785010780 23S rRNA interface [nucleotide binding]; other site 1004785010781 L7/L12 interface [polypeptide binding]; other site 1004785010782 putative thiostrepton binding site; other site 1004785010783 L25 interface [polypeptide binding]; other site 1004785010784 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1004785010785 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1004785010786 putative homodimer interface [polypeptide binding]; other site 1004785010787 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1004785010788 heterodimer interface [polypeptide binding]; other site 1004785010789 homodimer interface [polypeptide binding]; other site 1004785010790 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1004785010791 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1004785010792 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785010793 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1004785010794 Walker A/P-loop; other site 1004785010795 ATP binding site [chemical binding]; other site 1004785010796 Q-loop/lid; other site 1004785010797 ABC transporter signature motif; other site 1004785010798 Walker B; other site 1004785010799 D-loop; other site 1004785010800 H-loop/switch region; other site 1004785010801 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1004785010802 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1004785010803 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1004785010804 active site 1004785010805 Zn binding site [ion binding]; other site 1004785010806 YhhN-like protein; Region: YhhN; pfam07947 1004785010807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1004785010808 ACT domain; Region: ACT_3; pfam10000 1004785010809 Family description; Region: ACT_7; pfam13840 1004785010810 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 1004785010811 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1004785010812 ATP binding site [chemical binding]; other site 1004785010813 Mg++ binding site [ion binding]; other site 1004785010814 motif III; other site 1004785010815 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 1004785010816 nucleotide binding region [chemical binding]; other site 1004785010817 ATP-binding site [chemical binding]; other site 1004785010818 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1004785010819 putative RNA binding site [nucleotide binding]; other site 1004785010820 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004785010821 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 1004785010822 active site 1004785010823 substrate binding pocket [chemical binding]; other site 1004785010824 dimer interface [polypeptide binding]; other site 1004785010825 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1004785010826 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1004785010827 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 1004785010828 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004785010829 active site 1004785010830 catalytic tetrad [active] 1004785010831 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 1004785010832 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785010833 putative metal binding site [ion binding]; other site 1004785010834 Conserved TM helix; Region: TM_helix; pfam05552 1004785010835 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004785010836 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004785010837 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 1004785010838 putative substrate translocation pore; other site 1004785010839 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1004785010840 trehalose synthase; Region: treS_nterm; TIGR02456 1004785010841 active site 1004785010842 catalytic site [active] 1004785010843 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1004785010844 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1004785010845 active site 1004785010846 dihydromonapterin reductase; Provisional; Region: PRK06483 1004785010847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004785010848 NAD(P) binding site [chemical binding]; other site 1004785010849 active site 1004785010850 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1004785010851 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1004785010852 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1004785010853 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1004785010854 putative active site; other site 1004785010855 catalytic triad [active] 1004785010856 putative dimer interface [polypeptide binding]; other site 1004785010857 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1004785010858 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004785010859 putative active site [active] 1004785010860 putative metal binding site [ion binding]; other site 1004785010861 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1004785010862 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 1004785010863 ATP binding site [chemical binding]; other site 1004785010864 putative Mg++ binding site [ion binding]; other site 1004785010865 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 1004785010866 nucleotide binding region [chemical binding]; other site 1004785010867 ATP-binding site [chemical binding]; other site 1004785010868 DEAD/H associated; Region: DEAD_assoc; pfam08494 1004785010869 Predicted membrane protein [Function unknown]; Region: COG2311 1004785010870 Protein of unknown function (DUF418); Region: DUF418; cl12135 1004785010871 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1004785010872 membrane-bound complex binding site; other site 1004785010873 hinge residues; other site 1004785010874 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1004785010875 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004785010876 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004785010877 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 1004785010878 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1004785010879 active site 1004785010880 DNA binding site [nucleotide binding] 1004785010881 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 1004785010882 DNA binding site [nucleotide binding] 1004785010883 elongation factor P; Provisional; Region: PRK04542 1004785010884 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1004785010885 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 1004785010886 RNA binding site [nucleotide binding]; other site 1004785010887 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 1004785010888 RNA binding site [nucleotide binding]; other site 1004785010889 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004785010890 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1004785010891 putative substrate binding site [chemical binding]; other site 1004785010892 putative ATP binding site [chemical binding]; other site 1004785010893 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 1004785010894 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1004785010895 non-specific DNA interactions [nucleotide binding]; other site 1004785010896 DNA binding site [nucleotide binding] 1004785010897 sequence specific DNA binding site [nucleotide binding]; other site 1004785010898 putative cAMP binding site [chemical binding]; other site 1004785010899 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1004785010900 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004785010901 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1004785010902 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785010903 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1004785010904 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 1004785010905 C-terminal domain interface [polypeptide binding]; other site 1004785010906 GSH binding site (G-site) [chemical binding]; other site 1004785010907 dimer interface [polypeptide binding]; other site 1004785010908 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004785010909 N-terminal domain interface [polypeptide binding]; other site 1004785010910 dimer interface [polypeptide binding]; other site 1004785010911 substrate binding pocket (H-site) [chemical binding]; other site 1004785010912 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785010913 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 1004785010914 putative C-terminal domain interface [polypeptide binding]; other site 1004785010915 putative GSH binding site (G-site) [chemical binding]; other site 1004785010916 putative dimer interface [polypeptide binding]; other site 1004785010917 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004785010918 N-terminal domain interface [polypeptide binding]; other site 1004785010919 dimer interface [polypeptide binding]; other site 1004785010920 substrate binding pocket (H-site) [chemical binding]; other site 1004785010921 lipase chaperone; Provisional; Region: PRK01294 1004785010922 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1004785010923 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1004785010924 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1004785010925 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1004785010926 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 1004785010927 S-adenosylmethionine binding site [chemical binding]; other site 1004785010928 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1004785010929 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1004785010930 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1004785010931 NAD(P) binding site [chemical binding]; other site 1004785010932 catalytic residues [active] 1004785010933 acetolactate synthase; Reviewed; Region: PRK08322 1004785010934 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1004785010935 PYR/PP interface [polypeptide binding]; other site 1004785010936 dimer interface [polypeptide binding]; other site 1004785010937 TPP binding site [chemical binding]; other site 1004785010938 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1004785010939 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 1004785010940 TPP-binding site [chemical binding]; other site 1004785010941 dimer interface [polypeptide binding]; other site 1004785010942 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1004785010943 ferrochelatase; Reviewed; Region: hemH; PRK00035 1004785010944 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 1004785010945 C-terminal domain interface [polypeptide binding]; other site 1004785010946 active site 1004785010947 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 1004785010948 active site 1004785010949 N-terminal domain interface [polypeptide binding]; other site 1004785010950 potential frameshift: common BLAST hit: gi|333895386|ref|YP_004469261.1| putative p-aminobenzoyl-glutamate transport protein 1004785010951 FtsH protease regulator HflC; Provisional; Region: PRK11029 1004785010952 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 1004785010953 FtsH protease regulator HflK; Provisional; Region: PRK10930 1004785010954 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1004785010955 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 1004785010956 GTPase HflX; Provisional; Region: PRK11058 1004785010957 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1004785010958 HflX GTPase family; Region: HflX; cd01878 1004785010959 G1 box; other site 1004785010960 GTP/Mg2+ binding site [chemical binding]; other site 1004785010961 Switch I region; other site 1004785010962 G2 box; other site 1004785010963 G3 box; other site 1004785010964 Switch II region; other site 1004785010965 G4 box; other site 1004785010966 G5 box; other site 1004785010967 bacterial Hfq-like; Region: Hfq; cd01716 1004785010968 hexamer interface [polypeptide binding]; other site 1004785010969 Sm1 motif; other site 1004785010970 RNA binding site [nucleotide binding]; other site 1004785010971 Sm2 motif; other site 1004785010972 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1004785010973 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1004785010974 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1004785010975 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 1004785010976 ATP binding site [chemical binding]; other site 1004785010977 Mg2+ binding site [ion binding]; other site 1004785010978 G-X-G motif; other site 1004785010979 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 1004785010980 ATP binding site [chemical binding]; other site 1004785010981 AMIN domain; Region: AMIN; pfam11741 1004785010982 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1004785010983 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 1004785010984 active site 1004785010985 metal binding site [ion binding]; metal-binding site 1004785010986 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004785010987 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1004785010988 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1004785010989 putative carbohydrate kinase; Provisional; Region: PRK10565 1004785010990 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1004785010991 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 1004785010992 putative substrate binding site [chemical binding]; other site 1004785010993 putative ATP binding site [chemical binding]; other site 1004785010994 epoxyqueuosine reductase; Region: TIGR00276 1004785010995 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1004785010996 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1004785010997 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 1004785010998 substrate binding site [chemical binding]; other site 1004785010999 active site 1004785011000 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1004785011001 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1004785011002 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1004785011003 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 1004785011004 putative NADH binding site [chemical binding]; other site 1004785011005 putative active site [active] 1004785011006 nudix motif; other site 1004785011007 putative metal binding site [ion binding]; other site 1004785011008 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1004785011009 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1004785011010 metal binding site 2 [ion binding]; metal-binding site 1004785011011 putative DNA binding helix; other site 1004785011012 metal binding site 1 [ion binding]; metal-binding site 1004785011013 dimer interface [polypeptide binding]; other site 1004785011014 structural Zn2+ binding site [ion binding]; other site 1004785011015 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1004785011016 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1004785011017 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1004785011018 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004785011019 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785011020 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004785011021 ligand binding site [chemical binding]; other site 1004785011022 HTH-like domain; Region: HTH_21; pfam13276 1004785011023 Integrase core domain; Region: rve; pfam00665 1004785011024 Integrase core domain; Region: rve_2; pfam13333 1004785011025 replicative DNA helicase; Region: DnaB; TIGR00665 1004785011026 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1004785011027 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 1004785011028 Walker A motif; other site 1004785011029 ATP binding site [chemical binding]; other site 1004785011030 Walker B motif; other site 1004785011031 DNA binding loops [nucleotide binding] 1004785011032 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1004785011033 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004785011034 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785011035 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 1004785011036 DNA binding residues [nucleotide binding] 1004785011037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1004785011038 MOSC domain; Region: MOSC; pfam03473 1004785011039 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1004785011040 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1004785011041 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004785011042 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004785011043 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004785011044 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004785011045 Protein export membrane protein; Region: SecD_SecF; cl14618 1004785011046 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1004785011047 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1004785011048 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1004785011049 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1004785011050 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1004785011051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785011052 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 1004785011053 dimer interface [polypeptide binding]; other site 1004785011054 phosphorylation site [posttranslational modification] 1004785011055 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 1004785011056 ATP binding site [chemical binding]; other site 1004785011057 Mg2+ binding site [ion binding]; other site 1004785011058 G-X-G motif; other site 1004785011059 YebG protein; Region: YebG; pfam07130 1004785011060 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1004785011061 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004785011062 Walker A/P-loop; other site 1004785011063 ATP binding site [chemical binding]; other site 1004785011064 Q-loop/lid; other site 1004785011065 ABC transporter signature motif; other site 1004785011066 Walker B; other site 1004785011067 D-loop; other site 1004785011068 H-loop/switch region; other site 1004785011069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004785011070 FtsX-like permease family; Region: FtsX; pfam02687 1004785011071 PAS domain; Region: PAS_9; pfam13426 1004785011072 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 1004785011073 putative active site [active] 1004785011074 heme pocket [chemical binding]; other site 1004785011075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785011076 dimer interface [polypeptide binding]; other site 1004785011077 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1004785011078 putative CheW interface [polypeptide binding]; other site 1004785011079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785011080 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 1004785011081 ATP binding site [chemical binding]; other site 1004785011082 Mg2+ binding site [ion binding]; other site 1004785011083 G-X-G motif; other site 1004785011084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004785011085 dimer interface [polypeptide binding]; other site 1004785011086 putative CheW interface [polypeptide binding]; other site 1004785011087 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1004785011088 Predicted membrane protein [Function unknown]; Region: COG2855 1004785011089 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1004785011090 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1004785011091 active site 1004785011092 catalytic residues [active] 1004785011093 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785011094 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 1004785011095 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 1004785011096 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1004785011097 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1004785011098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1004785011099 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 1004785011100 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004785011101 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1004785011102 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1004785011103 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004785011104 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 1004785011105 putative substrate translocation pore; other site 1004785011106 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1004785011107 beta-galactosidase; Region: BGL; TIGR03356 1004785011108 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785011109 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785011110 DNA binding site [nucleotide binding] 1004785011111 domain linker motif; other site 1004785011112 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1004785011113 dimerization interface (closed form) [polypeptide binding]; other site 1004785011114 ligand binding site [chemical binding]; other site 1004785011115 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1004785011116 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 1004785011117 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 1004785011118 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1004785011119 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1004785011120 ATP binding site [chemical binding]; other site 1004785011121 Q-loop/lid; other site 1004785011122 ABC transporter signature motif; other site 1004785011123 Walker B; other site 1004785011124 D-loop; other site 1004785011125 H-loop/switch region; other site 1004785011126 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004785011127 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 1004785011128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785011129 Walker A/P-loop; other site 1004785011130 ATP binding site [chemical binding]; other site 1004785011131 Q-loop/lid; other site 1004785011132 ABC transporter signature motif; other site 1004785011133 Walker B; other site 1004785011134 D-loop; other site 1004785011135 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1004785011136 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1004785011137 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1004785011138 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1004785011139 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1004785011140 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1004785011141 PAS fold; Region: PAS_4; pfam08448 1004785011142 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 1004785011143 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1004785011144 Walker A motif; other site 1004785011145 ATP binding site [chemical binding]; other site 1004785011146 Walker B motif; other site 1004785011147 arginine finger; other site 1004785011148 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004785011149 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 1004785011150 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1004785011151 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004785011152 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1004785011153 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004785011154 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1004785011155 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1004785011156 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1004785011157 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1004785011158 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1004785011159 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 1004785011160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004785011161 putative substrate translocation pore; other site 1004785011162 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1004785011163 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1004785011164 FAD binding pocket [chemical binding]; other site 1004785011165 FAD binding motif [chemical binding]; other site 1004785011166 phosphate binding motif [ion binding]; other site 1004785011167 NAD binding pocket [chemical binding]; other site 1004785011168 CsbD-like; Region: CsbD; cl17424 1004785011169 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004785011170 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785011171 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 1004785011172 DNA binding residues [nucleotide binding] 1004785011173 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 1004785011174 active site 1004785011175 catalytic triad [active] 1004785011176 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1004785011177 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1004785011178 hypothetical protein; Provisional; Region: PRK09256 1004785011179 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004785011180 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004785011181 S-formylglutathione hydrolase; Region: PLN02442 1004785011182 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_27; cd04640 1004785011183 hypothetical protein; Provisional; Region: PRK03757 1004785011184 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1004785011185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785011186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004785011187 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004785011188 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 1004785011189 N-terminal plug; other site 1004785011190 ligand-binding site [chemical binding]; other site 1004785011191 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1004785011192 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1004785011193 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004785011194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785011195 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 1004785011196 dimerization interface [polypeptide binding]; other site 1004785011197 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1004785011198 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1004785011199 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1004785011200 NAD(P) binding site [chemical binding]; other site 1004785011201 substrate binding site [chemical binding]; other site 1004785011202 dimer interface [polypeptide binding]; other site 1004785011203 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785011204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785011205 metal binding site [ion binding]; metal-binding site 1004785011206 active site 1004785011207 I-site; other site 1004785011208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004785011209 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 1004785011210 dimerization interface [polypeptide binding]; other site 1004785011211 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 1004785011212 dimer interface [polypeptide binding]; other site 1004785011213 phosphorylation site [posttranslational modification] 1004785011214 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 1004785011215 ATP binding site [chemical binding]; other site 1004785011216 Mg2+ binding site [ion binding]; other site 1004785011217 G-X-G motif; other site 1004785011218 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004785011219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785011220 active site 1004785011221 phosphorylation site [posttranslational modification] 1004785011222 intermolecular recognition site; other site 1004785011223 dimerization interface [polypeptide binding]; other site 1004785011224 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1004785011225 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1004785011226 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1004785011227 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1004785011228 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1004785011229 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 1004785011230 glutaminase active site [active] 1004785011231 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 1004785011232 dimer interface [polypeptide binding]; other site 1004785011233 active site 1004785011234 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 1004785011235 dimer interface [polypeptide binding]; other site 1004785011236 active site 1004785011237 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1004785011238 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1004785011239 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1004785011240 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004785011241 putative oxidoreductase; Provisional; Region: PRK11579 1004785011242 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004785011243 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1004785011244 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1004785011245 Substrate binding site; other site 1004785011246 Mg++ binding site; other site 1004785011247 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 1004785011248 active site 1004785011249 substrate binding site [chemical binding]; other site 1004785011250 CoA binding site [chemical binding]; other site 1004785011251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785011252 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785011253 metal binding site [ion binding]; metal-binding site 1004785011254 active site 1004785011255 I-site; other site 1004785011256 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004785011257 EamA-like transporter family; Region: EamA; pfam00892 1004785011258 EamA-like transporter family; Region: EamA; pfam00892 1004785011259 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 1004785011260 DNA binding site [nucleotide binding] 1004785011261 active site 1004785011262 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1004785011263 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785011264 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1004785011265 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1004785011266 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1004785011267 minor groove reading motif; other site 1004785011268 helix-hairpin-helix signature motif; other site 1004785011269 substrate binding pocket [chemical binding]; other site 1004785011270 active site 1004785011271 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004785011272 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004785011273 arginine decarboxylase; Provisional; Region: PRK05354 1004785011274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1004785011275 dimer interface [polypeptide binding]; other site 1004785011276 active site 1004785011277 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004785011278 catalytic residues [active] 1004785011279 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1004785011280 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1004785011281 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1004785011282 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1004785011283 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1004785011284 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1004785011285 ligand binding site [chemical binding]; other site 1004785011286 homodimer interface [polypeptide binding]; other site 1004785011287 NAD(P) binding site [chemical binding]; other site 1004785011288 trimer interface B [polypeptide binding]; other site 1004785011289 trimer interface A [polypeptide binding]; other site 1004785011290 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785011291 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 1004785011292 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 1004785011293 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785011294 SapC; Region: SapC; pfam07277 1004785011295 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1004785011296 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1004785011297 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1004785011298 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 1004785011299 N-terminal plug; other site 1004785011300 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1004785011301 ligand-binding site [chemical binding]; other site 1004785011302 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004785011303 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785011304 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 1004785011305 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 1004785011306 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1004785011307 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785011308 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 1004785011309 DNA binding residues [nucleotide binding] 1004785011310 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1004785011311 FecR protein; Region: FecR; pfam04773 1004785011312 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1004785011313 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004785011314 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1004785011315 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004785011316 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1004785011317 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1004785011318 Subunit I/III interface [polypeptide binding]; other site 1004785011319 Subunit III/IV interface [polypeptide binding]; other site 1004785011320 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1004785011321 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1004785011322 D-pathway; other site 1004785011323 Putative ubiquinol binding site [chemical binding]; other site 1004785011324 Low-spin heme (heme b) binding site [chemical binding]; other site 1004785011325 Putative water exit pathway; other site 1004785011326 Binuclear center (heme o3/CuB) [ion binding]; other site 1004785011327 K-pathway; other site 1004785011328 Putative proton exit pathway; other site 1004785011329 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1004785011330 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1004785011331 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1004785011332 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1004785011333 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1004785011334 Pectate lyase; Region: Pec_lyase_C; cl01593 1004785011335 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785011336 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 1004785011337 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 1004785011338 putative pectinesterase; Region: PLN02432; cl01911 1004785011339 Amb_all domain; Region: Amb_all; smart00656 1004785011340 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004785011341 HTH-like domain; Region: HTH_21; pfam13276 1004785011342 Integrase core domain; Region: rve; pfam00665 1004785011343 Integrase core domain; Region: rve_2; pfam13333 1004785011344 Homeodomain-like domain; Region: HTH_23; cl17451 1004785011345 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1004785011346 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 1004785011347 active site 1004785011348 DNA binding site [nucleotide binding] 1004785011349 Int/Topo IB signature motif; other site 1004785011350 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1004785011351 GIY-YIG motif/motif A; other site 1004785011352 active site 1004785011353 catalytic site [active] 1004785011354 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1004785011355 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1004785011356 catalytic residues [active] 1004785011357 catalytic nucleophile [active] 1004785011358 Presynaptic Site I dimer interface [polypeptide binding]; other site 1004785011359 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1004785011360 Synaptic Flat tetramer interface [polypeptide binding]; other site 1004785011361 Synaptic Site I dimer interface [polypeptide binding]; other site 1004785011362 DNA binding site [nucleotide binding] 1004785011363 Helix-turn-helix domain; Region: HTH_38; pfam13936 1004785011364 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 1004785011365 T5orf172 domain; Region: T5orf172; pfam10544 1004785011366 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1004785011367 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 1004785011368 ring oligomerisation interface [polypeptide binding]; other site 1004785011369 ATP/Mg binding site [chemical binding]; other site 1004785011370 stacking interactions; other site 1004785011371 hinge regions; other site 1004785011372 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 1004785011373 oligomerisation interface [polypeptide binding]; other site 1004785011374 mobile loop; other site 1004785011375 roof hairpin; other site 1004785011376 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1004785011377 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 1004785011378 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1004785011379 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1004785011380 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1004785011381 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 1004785011382 DsbD alpha interface [polypeptide binding]; other site 1004785011383 catalytic residues [active] 1004785011384 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004785011385 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004785011386 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 1004785011387 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1004785011388 active site 1004785011389 trimer interface [polypeptide binding]; other site 1004785011390 dimer interface [polypeptide binding]; other site 1004785011391 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1004785011392 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 1004785011393 carboxyltransferase (CT) interaction site; other site 1004785011394 biotinylation site [posttranslational modification]; other site 1004785011395 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1004785011396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004785011397 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1004785011398 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1004785011399 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 1004785011400 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1004785011401 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1004785011402 active site 1004785011403 catalytic site [active] 1004785011404 substrate binding site [chemical binding]; other site 1004785011405 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1004785011406 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1004785011407 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1004785011408 amidase; Provisional; Region: PRK08137 1004785011409 Amidase; Region: Amidase; pfam01425 1004785011410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004785011411 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 1004785011412 substrate binding pocket [chemical binding]; other site 1004785011413 membrane-bound complex binding site; other site 1004785011414 hinge residues; other site 1004785011415 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1004785011416 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 1004785011417 S-adenosylmethionine binding site [chemical binding]; other site 1004785011418 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1004785011419 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 1004785011420 FMN binding site [chemical binding]; other site 1004785011421 active site 1004785011422 catalytic residues [active] 1004785011423 substrate binding site [chemical binding]; other site 1004785011424 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004785011425 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1004785011426 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 1004785011427 purine monophosphate binding site [chemical binding]; other site 1004785011428 dimer interface [polypeptide binding]; other site 1004785011429 putative catalytic residues [active] 1004785011430 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1004785011431 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1004785011432 Predicted methyltransferase [General function prediction only]; Region: COG4798 1004785011433 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004785011434 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1004785011435 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1004785011436 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1004785011437 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1004785011438 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 1004785011439 putative ligand binding site [chemical binding]; other site 1004785011440 Ion transport protein; Region: Ion_trans; pfam00520 1004785011441 Ion channel; Region: Ion_trans_2; pfam07885 1004785011442 phosphoribulokinase; Provisional; Region: PRK15453 1004785011443 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1004785011444 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1004785011445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004785011446 active site 1004785011447 phosphorylation site [posttranslational modification] 1004785011448 intermolecular recognition site; other site 1004785011449 dimerization interface [polypeptide binding]; other site 1004785011450 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 1004785011451 DNA binding site [nucleotide binding] 1004785011452 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1004785011453 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 1004785011454 dimerization interface [polypeptide binding]; other site 1004785011455 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 1004785011456 dimer interface [polypeptide binding]; other site 1004785011457 phosphorylation site [posttranslational modification] 1004785011458 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 1004785011459 ATP binding site [chemical binding]; other site 1004785011460 Mg2+ binding site [ion binding]; other site 1004785011461 G-X-G motif; other site 1004785011462 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 1004785011463 putative substrate translocation pore; other site 1004785011464 alpha-glucosidase; Provisional; Region: PRK10426 1004785011465 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1004785011466 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 1004785011467 putative active site [active] 1004785011468 putative catalytic site [active] 1004785011469 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 1004785011470 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1004785011471 active site 1004785011472 substrate-binding site [chemical binding]; other site 1004785011473 metal-binding site [ion binding] 1004785011474 ATP binding site [chemical binding]; other site 1004785011475 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1004785011476 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 1004785011477 dimerization interface [polypeptide binding]; other site 1004785011478 domain crossover interface; other site 1004785011479 redox-dependent activation switch; other site 1004785011480 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 1004785011481 RNA binding surface [nucleotide binding]; other site 1004785011482 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1004785011483 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1004785011484 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 1004785011485 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1004785011486 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004785011487 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004785011488 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004785011489 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1004785011490 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1004785011491 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 1004785011492 Walker A motif; other site 1004785011493 ATP binding site [chemical binding]; other site 1004785011494 Walker B motif; other site 1004785011495 type II secretion system protein F; Region: GspF; TIGR02120 1004785011496 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004785011497 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004785011498 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1004785011499 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1004785011500 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1004785011501 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004785011502 type II secretion system protein I; Region: gspI; TIGR01707 1004785011503 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1004785011504 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004785011505 type II secretion system protein J; Region: gspJ; TIGR01711 1004785011506 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1004785011507 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1004785011508 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1004785011509 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1004785011510 GspL periplasmic domain; Region: GspL_C; pfam12693 1004785011511 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1004785011512 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1004785011513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1004785011514 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1004785011515 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1004785011516 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1004785011517 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1004785011518 NAD(P) binding site [chemical binding]; other site 1004785011519 catalytic residues [active] 1004785011520 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1004785011521 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1004785011522 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 1004785011523 motif II; other site 1004785011524 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1004785011525 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 1004785011526 dimer interface [polypeptide binding]; other site 1004785011527 ADP-ribose binding site [chemical binding]; other site 1004785011528 active site 1004785011529 nudix motif; other site 1004785011530 metal binding site [ion binding]; metal-binding site 1004785011531 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 1004785011532 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004785011533 active site 1004785011534 YceI-like domain; Region: YceI; pfam04264 1004785011535 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1004785011536 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004785011537 Ligand binding site; other site 1004785011538 DXD motif; other site 1004785011539 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1004785011540 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1004785011541 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1004785011542 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 1004785011543 putative hydrolase; Provisional; Region: PRK10985 1004785011544 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1004785011545 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1004785011546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004785011547 Walker A/P-loop; other site 1004785011548 ATP binding site [chemical binding]; other site 1004785011549 Q-loop/lid; other site 1004785011550 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785011551 ABC transporter; Region: ABC_tran_2; pfam12848 1004785011552 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004785011553 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1004785011554 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004785011555 SlyX; Region: SlyX; pfam04102 1004785011556 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1004785011557 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 1004785011558 structural tetrad; other site 1004785011559 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1004785011560 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1004785011561 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004785011562 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1004785011563 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1004785011564 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1004785011565 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1004785011566 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1004785011567 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1004785011568 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 1004785011569 RNA binding site [nucleotide binding]; other site 1004785011570 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785011571 Cupin-like domain; Region: Cupin_8; pfam13621 1004785011572 SapC; Region: SapC; pfam07277 1004785011573 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 1004785011574 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 1004785011575 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 1004785011576 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785011577 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1004785011578 putative dimerization interface [polypeptide binding]; other site 1004785011579 putative ligand binding site [chemical binding]; other site 1004785011580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004785011581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004785011582 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1004785011583 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1004785011584 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 1004785011585 substrate binding site [chemical binding]; other site 1004785011586 active site 1004785011587 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 1004785011588 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1004785011589 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1004785011590 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1004785011591 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 1004785011592 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 1004785011593 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 1004785011594 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004785011595 active site 1004785011596 catalytic tetrad [active] 1004785011597 transketolase; Reviewed; Region: PRK12753 1004785011598 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 1004785011599 TPP-binding site [chemical binding]; other site 1004785011600 dimer interface [polypeptide binding]; other site 1004785011601 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 1004785011602 PYR/PP interface [polypeptide binding]; other site 1004785011603 dimer interface [polypeptide binding]; other site 1004785011604 TPP binding site [chemical binding]; other site 1004785011605 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004785011606 xylose isomerase; Provisional; Region: PRK05474 1004785011607 xylose isomerase; Region: xylose_isom_A; TIGR02630 1004785011608 xylulokinase; Provisional; Region: PRK15027 1004785011609 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1004785011610 N- and C-terminal domain interface [polypeptide binding]; other site 1004785011611 active site 1004785011612 MgATP binding site [chemical binding]; other site 1004785011613 catalytic site [active] 1004785011614 metal binding site [ion binding]; metal-binding site 1004785011615 xylulose binding site [chemical binding]; other site 1004785011616 homodimer interface [polypeptide binding]; other site 1004785011617 transaldolase-like protein; Provisional; Region: PTZ00411 1004785011618 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1004785011619 active site 1004785011620 dimer interface [polypeptide binding]; other site 1004785011621 catalytic residue [active] 1004785011622 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1004785011623 active site 1004785011624 catalytic residues [active] 1004785011625 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004785011626 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1004785011627 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1004785011628 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1004785011629 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 1004785011630 putative substrate translocation pore; other site 1004785011631 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 1004785011632 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 1004785011633 Right handed beta helix region; Region: Beta_helix; pfam13229 1004785011634 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 1004785011635 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1004785011636 Glycosyl hydrolase family 79, N-terminal domain; Region: Glyco_hydro_79n; pfam03662 1004785011637 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1004785011638 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1004785011639 active site 1004785011640 SprA-related family; Region: SprA-related; pfam12118 1004785011641 PGAP1-like protein; Region: PGAP1; pfam07819 1004785011642 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1004785011643 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1004785011644 The Phox Homology domain, a phosphoinositide binding module; Region: PX_domain; cl02563 1004785011645 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1004785011646 putative active site [active] 1004785011647 Zn binding site [ion binding]; other site 1004785011648 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1004785011649 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1004785011650 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1004785011651 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1004785011652 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1004785011653 aspartate racemase; Region: asp_race; TIGR00035 1004785011654 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 1004785011655 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004785011656 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004785011657 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 1004785011658 S-adenosylmethionine binding site [chemical binding]; other site 1004785011659 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1004785011660 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1004785011661 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 1004785011662 putative active site [active] 1004785011663 putative metal binding site [ion binding]; other site 1004785011664 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004785011665 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004785011666 Coenzyme A binding pocket [chemical binding]; other site 1004785011667 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1004785011668 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 1004785011669 Cu(I) binding site [ion binding]; other site 1004785011670 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1004785011671 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004785011672 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1004785011673 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1004785011674 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 1004785011675 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1004785011676 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 1004785011677 Subunit III/VIIa interface [polypeptide binding]; other site 1004785011678 Phospholipid binding site [chemical binding]; other site 1004785011679 Subunit I/III interface [polypeptide binding]; other site 1004785011680 Subunit III/VIb interface [polypeptide binding]; other site 1004785011681 Subunit III/VIa interface; other site 1004785011682 Subunit III/Vb interface [polypeptide binding]; other site 1004785011683 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1004785011684 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1004785011685 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 1004785011686 Subunit I/III interface [polypeptide binding]; other site 1004785011687 D-pathway; other site 1004785011688 Subunit I/VIIc interface [polypeptide binding]; other site 1004785011689 Subunit I/IV interface [polypeptide binding]; other site 1004785011690 Subunit I/II interface [polypeptide binding]; other site 1004785011691 Low-spin heme (heme a) binding site [chemical binding]; other site 1004785011692 Subunit I/VIIa interface [polypeptide binding]; other site 1004785011693 Subunit I/VIa interface [polypeptide binding]; other site 1004785011694 Dimer interface; other site 1004785011695 Putative water exit pathway; other site 1004785011696 Binuclear center (heme a3/CuB) [ion binding]; other site 1004785011697 K-pathway; other site 1004785011698 Subunit I/Vb interface [polypeptide binding]; other site 1004785011699 Putative proton exit pathway; other site 1004785011700 Subunit I/VIb interface; other site 1004785011701 Subunit I/VIc interface [polypeptide binding]; other site 1004785011702 Electron transfer pathway; other site 1004785011703 Subunit I/VIIIb interface [polypeptide binding]; other site 1004785011704 Subunit I/VIIb interface [polypeptide binding]; other site 1004785011705 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1004785011706 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1004785011707 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1004785011708 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1004785011709 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1004785011710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1004785011711 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1004785011712 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1004785011713 LexA repressor; Validated; Region: PRK00215 1004785011714 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1004785011715 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 1004785011716 Catalytic site [active] 1004785011717 GAF domain; Region: GAF; pfam01590 1004785011718 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004785011719 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 1004785011720 PAS fold; Region: PAS_3; pfam08447 1004785011721 putative active site [active] 1004785011722 heme pocket [chemical binding]; other site 1004785011723 GAF domain; Region: GAF; cl17456 1004785011724 GAF domain; Region: GAF_2; pfam13185 1004785011725 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004785011726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004785011727 metal binding site [ion binding]; metal-binding site 1004785011728 active site 1004785011729 I-site; other site 1004785011730 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1004785011731 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1004785011732 putative acyl-acceptor binding pocket; other site 1004785011733 threonine dehydratase; Reviewed; Region: PRK09224 1004785011734 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 1004785011735 tetramer interface [polypeptide binding]; other site 1004785011736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004785011737 catalytic residue [active] 1004785011738 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1004785011739 putative Ile/Val binding site [chemical binding]; other site 1004785011740 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1004785011741 putative Ile/Val binding site [chemical binding]; other site 1004785011742 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1004785011743 UPF0126 domain; Region: UPF0126; pfam03458 1004785011744 Predicted membrane protein [Function unknown]; Region: COG2860 1004785011745 UPF0126 domain; Region: UPF0126; pfam03458 1004785011746 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1004785011747 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1004785011748 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 1004785011749 Walker A motif; other site 1004785011750 ATP binding site [chemical binding]; other site 1004785011751 Walker B motif; other site 1004785011752 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1004785011753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004785011754 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1004785011755 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1004785011756 putative dimerization interface [polypeptide binding]; other site 1004785011757 ketol-acid reductoisomerase; Validated; Region: PRK05225 1004785011758 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1004785011759 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1004785011760 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1004785011761 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 1004785011762 putative substrate translocation pore; other site 1004785011763 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004785011764 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004785011765 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1004785011766 Surface antigen; Region: Bac_surface_Ag; pfam01103 1004785011767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1004785011768 Family of unknown function (DUF490); Region: DUF490; pfam04357 1004785011769 Family of unknown function (DUF490); Region: DUF490; pfam04357 1004785011770 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004785011771 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004785011772 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 1004785011773 DNA binding residues [nucleotide binding] 1004785011774 EamA-like transporter family; Region: EamA; pfam00892 1004785011775 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004785011776 EamA-like transporter family; Region: EamA; pfam00892 1004785011777 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1004785011778 glycerate dehydrogenase; Provisional; Region: PRK06487 1004785011779 putative ligand binding site [chemical binding]; other site 1004785011780 putative NAD binding site [chemical binding]; other site 1004785011781 catalytic site [active] 1004785011782 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 1004785011783 active site 1004785011784 gamma-glutamyl kinase; Provisional; Region: PRK05429 1004785011785 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 1004785011786 nucleotide binding site [chemical binding]; other site 1004785011787 homotetrameric interface [polypeptide binding]; other site 1004785011788 putative phosphate binding site [ion binding]; other site 1004785011789 putative allosteric binding site; other site 1004785011790 PUA domain; Region: PUA; pfam01472 1004785011791 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1004785011792 Zn binding site [ion binding]; other site 1004785011793 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 1004785011794 active site 1004785011795 metal binding site [ion binding]; metal-binding site 1004785011796 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1004785011797 ABC1 family; Region: ABC1; cl17513 1004785011798 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1004785011799 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1004785011800 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004785011801 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 1004785011802 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 1004785011803 active site 1004785011804 Predicted membrane protein [Function unknown]; Region: COG1238 1004785011805 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 1004785011806 CPxP motif; other site 1004785011807 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004785011808 active site 1004785011809 ribonuclease PH; Reviewed; Region: rph; PRK00173 1004785011810 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1004785011811 hexamer interface [polypeptide binding]; other site 1004785011812 active site 1004785011813 outer membrane porin, OprD family; Region: OprD; pfam03573 1004785011814 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785011815 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004785011816 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004785011817 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 1004785011818 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 1004785011819 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 1004785011820 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1004785011821 beta-galactosidase; Region: BGL; TIGR03356 1004785011822 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1004785011823 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1004785011824 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1004785011825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004785011826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004785011827 DNA binding site [nucleotide binding] 1004785011828 domain linker motif; other site 1004785011829 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1004785011830 dimerization interface (closed form) [polypeptide binding]; other site 1004785011831 ligand binding site [chemical binding]; other site 1004785011832 Predicted membrane protein [Function unknown]; Region: COG3503 1004785011833 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004785011834 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004785011835 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004785011836 ligand binding site [chemical binding]; other site 1004785011837 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004785011838 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1004785011839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004785011840 Zn2+ binding site [ion binding]; other site 1004785011841 Mg2+ binding site [ion binding]; other site 1004785011842 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 1004785011843 DNA binding site [nucleotide binding] 1004785011844 active site 1004785011845 DTW domain; Region: DTW; cl01221 1004785011846 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004785011847 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 1004785011848 putative C-terminal domain interface [polypeptide binding]; other site 1004785011849 putative GSH binding site (G-site) [chemical binding]; other site 1004785011850 putative dimer interface [polypeptide binding]; other site 1004785011851 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004785011852 N-terminal domain interface [polypeptide binding]; other site 1004785011853 dimer interface [polypeptide binding]; other site 1004785011854 substrate binding pocket (H-site) [chemical binding]; other site 1004785011855 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1004785011856 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1004785011857 gamma subunit interface [polypeptide binding]; other site 1004785011858 epsilon subunit interface [polypeptide binding]; other site 1004785011859 LBP interface [polypeptide binding]; other site 1004785011860 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1004785011861 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1004785011862 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 1004785011863 alpha subunit interaction interface [polypeptide binding]; other site 1004785011864 Walker A motif; other site 1004785011865 ATP binding site [chemical binding]; other site 1004785011866 Walker B motif; other site 1004785011867 inhibitor binding site; inhibition site 1004785011868 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1004785011869 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1004785011870 core domain interface [polypeptide binding]; other site 1004785011871 delta subunit interface [polypeptide binding]; other site 1004785011872 epsilon subunit interface [polypeptide binding]; other site 1004785011873 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1004785011874 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1004785011875 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 1004785011876 beta subunit interaction interface [polypeptide binding]; other site 1004785011877 Walker A motif; other site 1004785011878 ATP binding site [chemical binding]; other site 1004785011879 Walker B motif; other site 1004785011880 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1004785011881 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1004785011882 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1004785011883 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1004785011884 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1004785011885 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1004785011886 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1004785011887 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1004785011888 ATP synthase I chain; Region: ATP_synt_I; cl09170 1004785011889 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1004785011890 ParB-like nuclease domain; Region: ParBc; pfam02195 1004785011891 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1004785011892 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 1004785011893 P-loop; other site 1004785011894 Magnesium ion binding site [ion binding]; other site 1004785011895 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 1004785011896 Magnesium ion binding site [ion binding]; other site 1004785011897 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1004785011898 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 1004785011899 S-adenosylmethionine binding site [chemical binding]; other site 1004785011900 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1004785011901 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1004785011902 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1004785011903 DNA replication protein DnaC; Validated; Region: PRK07952 1004785011904 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 1004785011905 Walker A motif; other site 1004785011906 ATP binding site [chemical binding]; other site 1004785011907 primosomal protein DnaI; Provisional; Region: PRK02854 1004785011908 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004785011909 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1004785011910 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1004785011911 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1004785011912 G4 box; other site 1004785011913 GTP/Mg2+ binding site [chemical binding]; other site 1004785011914 G5 box; other site 1004785011915 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1004785011916 G1 box; other site 1004785011917 G1 box; other site 1004785011918 GTP/Mg2+ binding site [chemical binding]; other site 1004785011919 Switch I region; other site 1004785011920 Switch I region; other site 1004785011921 G2 box; other site 1004785011922 G2 box; other site 1004785011923 Switch II region; other site 1004785011924 G3 box; other site 1004785011925 G3 box; other site 1004785011926 Switch II region; other site 1004785011927 G4 box; other site 1004785011928 G5 box; other site 1004785011929 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1004785011930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1004785011931 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1004785011932 membrane protein insertase; Provisional; Region: PRK01318 1004785011933 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1004785011934 Haemolytic domain; Region: Haemolytic; pfam01809 1004785011935 ribonuclease P; Reviewed; Region: rnpA; PRK01732