-- dump date 20140618_202417 -- class Genbank::misc_feature -- table misc_feature_note -- id note 529120000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 529120000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 529120000003 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 529120000004 Walker A motif; other site 529120000005 ATP binding site [chemical binding]; other site 529120000006 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 529120000007 Walker B motif; other site 529120000008 arginine finger; other site 529120000009 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 529120000010 DnaA box-binding interface [nucleotide binding]; other site 529120000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 529120000012 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 529120000013 putative DNA binding surface [nucleotide binding]; other site 529120000014 dimer interface [polypeptide binding]; other site 529120000015 beta-clamp/clamp loader binding surface; other site 529120000016 beta-clamp/translesion DNA polymerase binding surface; other site 529120000017 recombination protein F; Reviewed; Region: recF; PRK00064 529120000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120000019 Walker A/P-loop; other site 529120000020 ATP binding site [chemical binding]; other site 529120000021 Q-loop/lid; other site 529120000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120000023 ABC transporter signature motif; other site 529120000024 Walker B; other site 529120000025 D-loop; other site 529120000026 H-loop/switch region; other site 529120000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 529120000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 529120000029 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 529120000030 anchoring element; other site 529120000031 dimer interface [polypeptide binding]; other site 529120000032 ATP binding site [chemical binding]; other site 529120000033 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 529120000034 active site 529120000035 putative metal-binding site [ion binding]; other site 529120000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 529120000037 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 529120000038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 529120000039 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 529120000040 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 529120000041 dimer interface [polypeptide binding]; other site 529120000042 motif 1; other site 529120000043 active site 529120000044 motif 2; other site 529120000045 motif 3; other site 529120000046 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 529120000047 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 529120000048 Der GTPase activator; Provisional; Region: PRK05244 529120000049 Methyltransferase domain; Region: Methyltransf_23; pfam13489 529120000050 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 529120000051 Cytochrome c553 [Energy production and conversion]; Region: COG2863 529120000052 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 529120000053 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 529120000054 Cytochrome c; Region: Cytochrom_C; cl11414 529120000055 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 529120000056 G1 box; other site 529120000057 GTP/Mg2+ binding site [chemical binding]; other site 529120000058 Switch I region; other site 529120000059 G2 box; other site 529120000060 G3 box; other site 529120000061 Switch II region; other site 529120000062 G4 box; other site 529120000063 G5 box; other site 529120000064 DNA polymerase I; Provisional; Region: PRK05755 529120000065 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 529120000066 active site 529120000067 metal binding site 1 [ion binding]; metal-binding site 529120000068 putative 5' ssDNA interaction site; other site 529120000069 metal binding site 3; metal-binding site 529120000070 metal binding site 2 [ion binding]; metal-binding site 529120000071 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 529120000072 putative DNA binding site [nucleotide binding]; other site 529120000073 putative metal binding site [ion binding]; other site 529120000074 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 529120000075 active site 529120000076 catalytic site [active] 529120000077 substrate binding site [chemical binding]; other site 529120000078 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 529120000079 active site 529120000080 DNA binding site [nucleotide binding] 529120000081 catalytic site [active] 529120000082 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 529120000083 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 529120000084 conserved cys residue [active] 529120000085 Cation transport protein; Region: TrkH; cl17365 529120000086 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 529120000087 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 529120000088 TrkA-N domain; Region: TrkA_N; pfam02254 529120000089 TrkA-C domain; Region: TrkA_C; pfam02080 529120000090 TrkA-N domain; Region: TrkA_N; pfam02254 529120000091 TrkA-C domain; Region: TrkA_C; pfam02080 529120000092 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 529120000093 16S rRNA methyltransferase B; Provisional; Region: PRK10901 529120000094 putative RNA binding site [nucleotide binding]; other site 529120000095 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 529120000096 S-adenosylmethionine binding site [chemical binding]; other site 529120000097 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 529120000098 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 529120000099 putative active site [active] 529120000100 substrate binding site [chemical binding]; other site 529120000101 putative cosubstrate binding site; other site 529120000102 catalytic site [active] 529120000103 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 529120000104 substrate binding site [chemical binding]; other site 529120000105 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 529120000106 active site 529120000107 catalytic residues [active] 529120000108 metal binding site [ion binding]; metal-binding site 529120000109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 529120000110 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 529120000111 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 529120000112 DNA protecting protein DprA; Region: dprA; TIGR00732 529120000113 Protein of unknown function (DUF494); Region: DUF494; cl01103 529120000114 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 529120000115 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 529120000116 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 529120000117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 529120000118 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 529120000119 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 529120000120 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 529120000121 OmpW family; Region: OmpW; cl17427 529120000122 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 529120000123 apolar tunnel; other site 529120000124 heme binding site [chemical binding]; other site 529120000125 dimerization interface [polypeptide binding]; other site 529120000126 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 529120000127 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 529120000128 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 529120000129 shikimate binding site; other site 529120000130 NAD(P) binding site [chemical binding]; other site 529120000131 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 529120000132 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 529120000133 trimer interface [polypeptide binding]; other site 529120000134 putative metal binding site [ion binding]; other site 529120000135 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 529120000136 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 529120000137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120000138 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 529120000139 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 529120000140 putative active site [active] 529120000141 putative PHP Thumb interface [polypeptide binding]; other site 529120000142 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 529120000143 generic binding surface II; other site 529120000144 generic binding surface I; other site 529120000145 DNA Polymerase Y-family; Region: PolY_like; cd03468 529120000146 active site 529120000147 DNA binding site [nucleotide binding] 529120000148 Uncharacterized conserved protein [Function unknown]; Region: COG4544 529120000149 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 529120000150 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 529120000151 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120000152 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 529120000153 PA/protease or protease-like domain interface [polypeptide binding]; other site 529120000154 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 529120000155 Peptidase family M28; Region: Peptidase_M28; pfam04389 529120000156 metal binding site [ion binding]; metal-binding site 529120000157 division inhibitor protein; Provisional; Region: slmA; PRK09480 529120000158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120000159 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 529120000160 Flavoprotein; Region: Flavoprotein; pfam02441 529120000161 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 529120000162 hypothetical protein; Reviewed; Region: PRK00024 529120000163 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 529120000164 MPN+ (JAMM) motif; other site 529120000165 Zinc-binding site [ion binding]; other site 529120000166 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 529120000167 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 529120000168 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 529120000169 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 529120000170 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 529120000171 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 529120000172 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 529120000173 DNA binding site [nucleotide binding] 529120000174 catalytic residue [active] 529120000175 H2TH interface [polypeptide binding]; other site 529120000176 putative catalytic residues [active] 529120000177 turnover-facilitating residue; other site 529120000178 intercalation triad [nucleotide binding]; other site 529120000179 8OG recognition residue [nucleotide binding]; other site 529120000180 putative reading head residues; other site 529120000181 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 529120000182 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 529120000183 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 529120000184 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 529120000185 active site 529120000186 (T/H)XGH motif; other site 529120000187 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 529120000188 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 529120000189 active site 529120000190 ATP binding site [chemical binding]; other site 529120000191 serine/threonine protein kinase; Provisional; Region: PRK14879 529120000192 PBP superfamily domain; Region: PBP_like_2; cl17296 529120000193 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000195 metal binding site [ion binding]; metal-binding site 529120000196 active site 529120000197 I-site; other site 529120000198 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 529120000199 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 529120000200 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 529120000201 substrate-cofactor binding pocket; other site 529120000202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120000203 catalytic residue [active] 529120000204 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 529120000205 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 529120000206 NAD(P) binding site [chemical binding]; other site 529120000207 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 529120000208 active site residue [active] 529120000209 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 529120000210 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 529120000211 Rhomboid family; Region: Rhomboid; pfam01694 529120000212 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 529120000213 Chorismate lyase; Region: Chor_lyase; cl01230 529120000214 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 529120000215 UbiA prenyltransferase family; Region: UbiA; pfam01040 529120000216 Membrane fusogenic activity; Region: BMFP; pfam04380 529120000217 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 529120000218 Part of AAA domain; Region: AAA_19; pfam13245 529120000219 Family description; Region: UvrD_C_2; pfam13538 529120000220 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 529120000221 GAF domain; Region: GAF_2; pfam13185 529120000222 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120000223 GAF domain; Region: GAF; pfam01590 529120000224 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000225 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000226 metal binding site [ion binding]; metal-binding site 529120000227 active site 529120000228 I-site; other site 529120000229 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 529120000230 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 529120000231 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 529120000232 BCCT family transporter; Region: BCCT; pfam02028 529120000233 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 529120000234 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 529120000235 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 529120000236 potential frameshift: common BLAST hit: gi|237809775|ref|YP_002894215.1| type 12 methyltransferase 529120000237 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 529120000238 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 529120000239 N-terminal plug; other site 529120000240 ligand-binding site [chemical binding]; other site 529120000241 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 529120000242 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120000243 active site 529120000244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120000245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120000246 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 529120000247 substrate binding pocket [chemical binding]; other site 529120000248 dimerization interface [polypeptide binding]; other site 529120000249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 529120000250 YcjX-like family, DUF463; Region: DUF463; cl01193 529120000251 hypothetical protein; Provisional; Region: PRK05415 529120000252 Domain of unknown function (DUF697); Region: DUF697; pfam05128 529120000253 Uncharacterized conserved protein [Function unknown]; Region: COG2966 529120000254 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 529120000255 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 529120000256 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 529120000257 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 529120000258 FeS/SAM binding site; other site 529120000259 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 529120000260 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 529120000261 ThiS interaction site; other site 529120000262 putative active site [active] 529120000263 tetramer interface [polypeptide binding]; other site 529120000264 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 529120000265 thiS-thiF/thiG interaction site; other site 529120000266 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 529120000267 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 529120000268 ATP binding site [chemical binding]; other site 529120000269 substrate interface [chemical binding]; other site 529120000270 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 529120000271 substrate binding site [chemical binding]; other site 529120000272 ATP binding site [chemical binding]; other site 529120000273 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 529120000274 thiamine phosphate binding site [chemical binding]; other site 529120000275 active site 529120000276 pyrophosphate binding site [ion binding]; other site 529120000277 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 529120000278 ThiC-associated domain; Region: ThiC-associated; pfam13667 529120000279 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 529120000280 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 529120000281 HemY protein N-terminus; Region: HemY_N; pfam07219 529120000282 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 529120000283 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 529120000284 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 529120000285 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 529120000286 active site 529120000287 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 529120000288 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 529120000289 domain interfaces; other site 529120000290 active site 529120000291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000293 metal binding site [ion binding]; metal-binding site 529120000294 active site 529120000295 I-site; other site 529120000296 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 529120000297 putative hydrolase; Provisional; Region: PRK11460 529120000298 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 529120000299 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 529120000300 catalytic site [active] 529120000301 G-X2-G-X-G-K; other site 529120000302 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 529120000303 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 529120000304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120000305 Zn2+ binding site [ion binding]; other site 529120000306 Mg2+ binding site [ion binding]; other site 529120000307 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 529120000308 synthetase active site [active] 529120000309 NTP binding site [chemical binding]; other site 529120000310 metal binding site [ion binding]; metal-binding site 529120000311 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 529120000312 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 529120000313 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 529120000314 homotrimer interaction site [polypeptide binding]; other site 529120000315 putative active site [active] 529120000316 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 529120000317 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 529120000318 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 529120000319 potential frameshift: common BLAST hit: gi|332139566|ref|YP_004425304.1| ATP-dependent DNA helicase RecG 529120000320 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 529120000321 S-adenosylmethionine binding site [chemical binding]; other site 529120000322 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 529120000323 catalytic triad [active] 529120000324 dimer interface [polypeptide binding]; other site 529120000325 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 529120000326 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 529120000327 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 529120000328 dimer interface [polypeptide binding]; other site 529120000329 conserved gate region; other site 529120000330 putative PBP binding loops; other site 529120000331 ABC-ATPase subunit interface; other site 529120000332 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 529120000333 dimer interface [polypeptide binding]; other site 529120000334 conserved gate region; other site 529120000335 putative PBP binding loops; other site 529120000336 ABC-ATPase subunit interface; other site 529120000337 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 529120000338 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 529120000339 Walker A/P-loop; other site 529120000340 ATP binding site [chemical binding]; other site 529120000341 Q-loop/lid; other site 529120000342 ABC transporter signature motif; other site 529120000343 Walker B; other site 529120000344 D-loop; other site 529120000345 H-loop/switch region; other site 529120000346 Predicted flavoproteins [General function prediction only]; Region: COG2081 529120000347 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120000348 OmpW family; Region: OmpW; cl17427 529120000349 Sensors of blue-light using FAD; Region: BLUF; pfam04940 529120000350 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 529120000351 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120000352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000354 metal binding site [ion binding]; metal-binding site 529120000355 active site 529120000356 I-site; other site 529120000357 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 529120000358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120000359 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 529120000360 dimerization interface [polypeptide binding]; other site 529120000361 Lysine efflux permease [General function prediction only]; Region: COG1279 529120000362 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 529120000363 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 529120000364 DNA-J related protein; Region: DNAJ_related; pfam12339 529120000365 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 529120000366 HSP70 interaction site [polypeptide binding]; other site 529120000367 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 529120000368 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120000369 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120000370 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 529120000371 Protein export membrane protein; Region: SecD_SecF; cl14618 529120000372 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 529120000373 Serine hydrolase; Region: Ser_hydrolase; cl17834 529120000374 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 529120000375 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 529120000376 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 529120000377 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120000378 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 529120000379 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 529120000380 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 529120000381 putative active site [active] 529120000382 Zn binding site [ion binding]; other site 529120000383 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 529120000384 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120000385 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000386 dimer interface [polypeptide binding]; other site 529120000387 putative CheW interface [polypeptide binding]; other site 529120000388 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120000389 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 529120000390 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 529120000391 dimerization interface [polypeptide binding]; other site 529120000392 active site 529120000393 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120000394 PAS domain S-box; Region: sensory_box; TIGR00229 529120000395 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 529120000396 putative active site [active] 529120000397 heme pocket [chemical binding]; other site 529120000398 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000400 metal binding site [ion binding]; metal-binding site 529120000401 active site 529120000402 I-site; other site 529120000403 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 529120000404 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120000405 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 529120000406 putative C-terminal domain interface [polypeptide binding]; other site 529120000407 putative GSH binding site (G-site) [chemical binding]; other site 529120000408 putative dimer interface [polypeptide binding]; other site 529120000409 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 529120000410 putative N-terminal domain interface [polypeptide binding]; other site 529120000411 putative dimer interface [polypeptide binding]; other site 529120000412 putative substrate binding pocket (H-site) [chemical binding]; other site 529120000413 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 529120000414 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 529120000415 ATP binding site [chemical binding]; other site 529120000416 putative Mg++ binding site [ion binding]; other site 529120000417 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 529120000418 nucleotide binding region [chemical binding]; other site 529120000419 ATP-binding site [chemical binding]; other site 529120000420 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 529120000421 HRDC domain; Region: HRDC; pfam00570 529120000422 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 529120000423 CoenzymeA binding site [chemical binding]; other site 529120000424 subunit interaction site [polypeptide binding]; other site 529120000425 PHB binding site; other site 529120000426 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 529120000427 MgtE intracellular N domain; Region: MgtE_N; pfam03448 529120000428 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 529120000429 Divalent cation transporter; Region: MgtE; pfam01769 529120000430 Predicted permeases [General function prediction only]; Region: RarD; COG2962 529120000431 potential frameshift: common BLAST hit: gi|332139605|ref|YP_004425343.1| response regulator/GGDEF domain-containing protein 529120000432 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 529120000433 Part of AAA domain; Region: AAA_19; pfam13245 529120000434 Family description; Region: UvrD_C_2; pfam13538 529120000435 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 529120000436 serine acetyltransferase; Provisional; Region: cysE; PRK11132 529120000437 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 529120000438 trimer interface [polypeptide binding]; other site 529120000439 active site 529120000440 substrate binding site [chemical binding]; other site 529120000441 CoA binding site [chemical binding]; other site 529120000442 MASE1; Region: MASE1; cl17823 529120000443 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000445 metal binding site [ion binding]; metal-binding site 529120000446 active site 529120000447 I-site; other site 529120000448 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 529120000449 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 529120000450 motif II; other site 529120000451 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 529120000452 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 529120000453 active site 529120000454 DNA binding site [nucleotide binding] 529120000455 Int/Topo IB signature motif; other site 529120000456 Protein of unknown function, DUF484; Region: DUF484; cl17449 529120000457 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 529120000458 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 529120000459 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 529120000460 diaminopimelate decarboxylase; Region: lysA; TIGR01048 529120000461 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 529120000462 active site 529120000463 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 529120000464 substrate binding site [chemical binding]; other site 529120000465 catalytic residues [active] 529120000466 dimer interface [polypeptide binding]; other site 529120000467 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 529120000468 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 529120000469 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 529120000470 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 529120000471 active site 529120000472 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 529120000473 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 529120000474 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 529120000475 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 529120000476 active site 529120000477 Zn binding site [ion binding]; other site 529120000478 aromatic acid decarboxylase; Validated; Region: PRK05920 529120000479 Flavoprotein; Region: Flavoprotein; pfam02441 529120000480 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 529120000481 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 529120000482 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120000483 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 529120000484 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 529120000485 AMP binding site [chemical binding]; other site 529120000486 metal binding site [ion binding]; metal-binding site 529120000487 active site 529120000488 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 529120000489 dimer interface [polypeptide binding]; other site 529120000490 substrate binding site [chemical binding]; other site 529120000491 metal binding sites [ion binding]; metal-binding site 529120000492 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 529120000493 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 529120000494 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 529120000495 inhibitor site; inhibition site 529120000496 active site 529120000497 dimer interface [polypeptide binding]; other site 529120000498 catalytic residue [active] 529120000499 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 529120000500 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 529120000501 active site 529120000502 MarR family; Region: MarR_2; cl17246 529120000503 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 529120000504 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 529120000505 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 529120000506 Active site serine [active] 529120000507 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 529120000508 nucleotide binding site [chemical binding]; other site 529120000509 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 529120000510 putative NEF/HSP70 interaction site [polypeptide binding]; other site 529120000511 nucleotide binding site [chemical binding]; other site 529120000512 SBD interface [polypeptide binding]; other site 529120000513 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 529120000514 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 529120000515 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 529120000516 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 529120000517 Major Facilitator Superfamily; Region: MFS_1; pfam07690 529120000518 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 529120000519 putative substrate translocation pore; other site 529120000520 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 529120000521 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 529120000522 active site 529120000523 motif I; other site 529120000524 motif II; other site 529120000525 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 529120000526 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 529120000527 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120000528 DNA binding site [nucleotide binding] 529120000529 domain linker motif; other site 529120000530 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 529120000531 dimerization interface (closed form) [polypeptide binding]; other site 529120000532 ligand binding site [chemical binding]; other site 529120000533 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 529120000534 active site 529120000535 catalytic residues [active] 529120000536 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 529120000537 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 529120000538 dimer interface [polypeptide binding]; other site 529120000539 active site 529120000540 galactokinase; Provisional; Region: PRK05101 529120000541 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 529120000542 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 529120000543 putative transporter; Provisional; Region: PRK10484 529120000544 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 529120000545 Na binding site [ion binding]; other site 529120000546 substrate binding site [chemical binding]; other site 529120000547 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 529120000548 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 529120000549 dimer interface [polypeptide binding]; other site 529120000550 ssDNA binding site [nucleotide binding]; other site 529120000551 tetramer (dimer of dimers) interface [polypeptide binding]; other site 529120000552 conserved hypothetical protein; Region: TIGR02285 529120000553 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 529120000554 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120000555 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 529120000556 Melibiase; Region: Melibiase; pfam02065 529120000557 putative transporter; Provisional; Region: PRK10484 529120000558 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 529120000559 Na binding site [ion binding]; other site 529120000560 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120000561 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 529120000562 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 529120000563 glycerol kinase; Provisional; Region: glpK; PRK00047 529120000564 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 529120000565 N- and C-terminal domain interface [polypeptide binding]; other site 529120000566 active site 529120000567 MgATP binding site [chemical binding]; other site 529120000568 catalytic site [active] 529120000569 metal binding site [ion binding]; metal-binding site 529120000570 glycerol binding site [chemical binding]; other site 529120000571 homotetramer interface [polypeptide binding]; other site 529120000572 homodimer interface [polypeptide binding]; other site 529120000573 FBP binding site [chemical binding]; other site 529120000574 protein IIAGlc interface [polypeptide binding]; other site 529120000575 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 529120000576 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 529120000577 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 529120000578 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 529120000579 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 529120000580 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 529120000581 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 529120000582 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 529120000583 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 529120000584 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 529120000585 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 529120000586 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 529120000587 Walker A motif; other site 529120000588 ATP binding site [chemical binding]; other site 529120000589 Walker B motif; other site 529120000590 arginine finger; other site 529120000591 TPR repeat; Region: TPR_11; pfam13414 529120000592 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 529120000593 binding surface 529120000594 TPR motif; other site 529120000595 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 529120000596 TPR motif; other site 529120000597 binding surface 529120000598 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 529120000599 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 529120000600 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 529120000601 Walker A motif; other site 529120000602 ATP binding site [chemical binding]; other site 529120000603 Walker B motif; other site 529120000604 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 529120000605 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120000606 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120000607 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 529120000608 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 529120000609 H-type lectin domain; Region: H_lectin; pfam09458 529120000610 rod shape-determining protein MreB; Provisional; Region: PRK13927 529120000611 MreB and similar proteins; Region: MreB_like; cd10225 529120000612 nucleotide binding site [chemical binding]; other site 529120000613 Mg binding site [ion binding]; other site 529120000614 putative protofilament interaction site [polypeptide binding]; other site 529120000615 RodZ interaction site [polypeptide binding]; other site 529120000616 rod shape-determining protein MreC; Provisional; Region: PRK13922 529120000617 rod shape-determining protein MreC; Region: MreC; pfam04085 529120000618 rod shape-determining protein MreD; Region: MreD; cl01087 529120000619 Maf-like protein; Region: Maf; pfam02545 529120000620 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 529120000621 active site 529120000622 dimer interface [polypeptide binding]; other site 529120000623 ribonuclease G; Provisional; Region: PRK11712 529120000624 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 529120000625 homodimer interface [polypeptide binding]; other site 529120000626 oligonucleotide binding site [chemical binding]; other site 529120000627 TIGR02099 family protein; Region: TIGR02099 529120000628 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 529120000629 nitrilase; Region: PLN02798 529120000630 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 529120000631 putative active site [active] 529120000632 catalytic triad [active] 529120000633 dimer interface [polypeptide binding]; other site 529120000634 protease TldD; Provisional; Region: tldD; PRK10735 529120000635 Protein of unknown function (DUF615); Region: DUF615; pfam04751 529120000636 peptidase PmbA; Provisional; Region: PRK11040 529120000637 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 529120000638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120000639 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 529120000640 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 529120000641 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 529120000642 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 529120000643 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 529120000644 two-component response regulator; Provisional; Region: PRK11173 529120000645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000646 active site 529120000647 phosphorylation site [posttranslational modification] 529120000648 intermolecular recognition site; other site 529120000649 dimerization interface [polypeptide binding]; other site 529120000650 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 529120000651 DNA binding site [nucleotide binding] 529120000652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120000653 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 529120000654 dimer interface [polypeptide binding]; other site 529120000655 phosphorylation site [posttranslational modification] 529120000656 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 529120000657 ATP binding site [chemical binding]; other site 529120000658 Mg2+ binding site [ion binding]; other site 529120000659 G-X-G motif; other site 529120000660 glycogen synthase; Provisional; Region: glgA; PRK00654 529120000661 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 529120000662 ADP-binding pocket [chemical binding]; other site 529120000663 homodimer interface [polypeptide binding]; other site 529120000664 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 529120000665 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 529120000666 Methyltransferase small domain; Region: MTS; pfam05175 529120000667 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 529120000668 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120000669 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 529120000670 adenine DNA glycosylase; Provisional; Region: PRK10880 529120000671 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 529120000672 minor groove reading motif; other site 529120000673 helix-hairpin-helix signature motif; other site 529120000674 substrate binding pocket [chemical binding]; other site 529120000675 active site 529120000676 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 529120000677 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 529120000678 DNA binding and oxoG recognition site [nucleotide binding] 529120000679 oxidative damage protection protein; Provisional; Region: PRK05408 529120000680 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 529120000681 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 529120000682 motif II; other site 529120000683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000684 dimer interface [polypeptide binding]; other site 529120000685 putative CheW interface [polypeptide binding]; other site 529120000686 Response regulator receiver domain; Region: Response_reg; pfam00072 529120000687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000688 active site 529120000689 phosphorylation site [posttranslational modification] 529120000690 intermolecular recognition site; other site 529120000691 dimerization interface [polypeptide binding]; other site 529120000692 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 529120000693 putative binding surface; other site 529120000694 active site 529120000695 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 529120000696 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 529120000697 ATP binding site [chemical binding]; other site 529120000698 Mg2+ binding site [ion binding]; other site 529120000699 G-X-G motif; other site 529120000700 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 529120000701 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 529120000702 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 529120000703 PAS domain; Region: PAS_9; pfam13426 529120000704 putative active site [active] 529120000705 heme pocket [chemical binding]; other site 529120000706 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000707 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 529120000708 putative active site [active] 529120000709 heme pocket [chemical binding]; other site 529120000710 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 529120000711 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000712 putative active site [active] 529120000713 heme pocket [chemical binding]; other site 529120000714 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 529120000715 putative active site [active] 529120000716 heme pocket [chemical binding]; other site 529120000717 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120000718 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000719 dimer interface [polypeptide binding]; other site 529120000720 putative CheW interface [polypeptide binding]; other site 529120000721 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 529120000722 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 529120000723 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 529120000724 CheD chemotactic sensory transduction; Region: CheD; cl00810 529120000725 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 529120000726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000727 active site 529120000728 phosphorylation site [posttranslational modification] 529120000729 intermolecular recognition site; other site 529120000730 dimerization interface [polypeptide binding]; other site 529120000731 CheB methylesterase; Region: CheB_methylest; pfam01339 529120000732 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 529120000733 Response regulator receiver domain; Region: Response_reg; pfam00072 529120000734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000735 active site 529120000736 phosphorylation site [posttranslational modification] 529120000737 intermolecular recognition site; other site 529120000738 dimerization interface [polypeptide binding]; other site 529120000739 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 529120000740 putative binding surface; other site 529120000741 active site 529120000742 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 529120000743 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 529120000744 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 529120000745 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 529120000746 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 529120000747 putative CheA interaction surface; other site 529120000748 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000749 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000750 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 529120000751 putative active site [active] 529120000752 heme pocket [chemical binding]; other site 529120000753 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 529120000754 putative active site [active] 529120000755 heme pocket [chemical binding]; other site 529120000756 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 529120000757 dimerization interface [polypeptide binding]; other site 529120000758 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 529120000759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000760 dimer interface [polypeptide binding]; other site 529120000761 putative CheW interface [polypeptide binding]; other site 529120000762 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 529120000763 PAS domain; Region: PAS_9; pfam13426 529120000764 putative active site [active] 529120000765 heme pocket [chemical binding]; other site 529120000766 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000767 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 529120000768 putative active site [active] 529120000769 heme pocket [chemical binding]; other site 529120000770 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 529120000771 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120000772 putative active site [active] 529120000773 heme pocket [chemical binding]; other site 529120000774 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 529120000775 putative active site [active] 529120000776 heme pocket [chemical binding]; other site 529120000777 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 529120000778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000779 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000780 dimer interface [polypeptide binding]; other site 529120000781 putative CheW interface [polypeptide binding]; other site 529120000782 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 529120000783 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 529120000784 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 529120000785 CheD chemotactic sensory transduction; Region: CheD; cl00810 529120000786 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 529120000787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000788 active site 529120000789 phosphorylation site [posttranslational modification] 529120000790 intermolecular recognition site; other site 529120000791 dimerization interface [polypeptide binding]; other site 529120000792 CheB methylesterase; Region: CheB_methylest; pfam01339 529120000793 Class I aldolases; Region: Aldolase_Class_I; cl17187 529120000794 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 529120000795 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 529120000796 motif II; other site 529120000797 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120000798 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 529120000799 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 529120000800 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120000801 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120000802 DNA binding site [nucleotide binding] 529120000803 domain linker motif; other site 529120000804 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 529120000805 putative dimerization interface [polypeptide binding]; other site 529120000806 putative ligand binding site [chemical binding]; other site 529120000807 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 529120000808 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 529120000809 putative substrate translocation pore; other site 529120000810 Trehalase; Region: Trehalase; cl17346 529120000811 Domain of unknown function (DUF371); Region: DUF371; cl00916 529120000812 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120000813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120000814 metal binding site [ion binding]; metal-binding site 529120000815 active site 529120000816 I-site; other site 529120000817 EamA-like transporter family; Region: EamA; cl17759 529120000818 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 529120000819 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 529120000820 active site 529120000821 motif I; other site 529120000822 motif II; other site 529120000823 potential frameshift: common BLAST hit: gi|332139823|ref|YP_004425561.1| putative two-component system sensor kinase/response regulator 529120000824 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 529120000825 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 529120000826 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120000827 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120000828 DNA binding site [nucleotide binding] 529120000829 domain linker motif; other site 529120000830 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 529120000831 dimerization interface [polypeptide binding]; other site 529120000832 ligand binding site [chemical binding]; other site 529120000833 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 529120000834 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 529120000835 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 529120000836 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 529120000837 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 529120000838 Metal-binding active site; metal-binding site 529120000839 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 529120000840 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 529120000841 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 529120000842 putative substrate translocation pore; other site 529120000843 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 529120000844 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 529120000845 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 529120000846 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 529120000847 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 529120000848 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 529120000849 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 529120000850 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 529120000851 active site 529120000852 NAD binding site [chemical binding]; other site 529120000853 metal binding site [ion binding]; metal-binding site 529120000854 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 529120000855 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 529120000856 homodimer interface [polypeptide binding]; other site 529120000857 substrate-cofactor binding pocket; other site 529120000858 catalytic residue [active] 529120000859 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 529120000860 catalytic core [active] 529120000861 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 529120000862 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 529120000863 aconitate hydratase; Validated; Region: PRK09277 529120000864 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 529120000865 substrate binding site [chemical binding]; other site 529120000866 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 529120000867 ligand binding site [chemical binding]; other site 529120000868 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 529120000869 substrate binding site [chemical binding]; other site 529120000870 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 529120000871 Sel1-like repeats; Region: SEL1; smart00671 529120000872 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 529120000873 GAF domain; Region: GAF_2; pfam13185 529120000874 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 529120000875 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 529120000876 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 529120000877 Walker A motif; other site 529120000878 ATP binding site [chemical binding]; other site 529120000879 Walker B motif; other site 529120000880 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 529120000881 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 529120000882 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 529120000883 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 529120000884 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 529120000885 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 529120000886 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 529120000887 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 529120000888 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 529120000889 putative translocon binding site; other site 529120000890 protein-rRNA interface [nucleotide binding]; other site 529120000891 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 529120000892 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 529120000893 G-X-X-G motif; other site 529120000894 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 529120000895 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 529120000896 23S rRNA interface [nucleotide binding]; other site 529120000897 5S rRNA interface [nucleotide binding]; other site 529120000898 putative antibiotic binding site [chemical binding]; other site 529120000899 L25 interface [polypeptide binding]; other site 529120000900 L27 interface [polypeptide binding]; other site 529120000901 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 529120000902 23S rRNA interface [nucleotide binding]; other site 529120000903 putative translocon interaction site; other site 529120000904 signal recognition particle (SRP54) interaction site; other site 529120000905 L23 interface [polypeptide binding]; other site 529120000906 trigger factor interaction site; other site 529120000907 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 529120000908 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120000909 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 529120000910 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 529120000911 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 529120000912 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 529120000913 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 529120000914 TrkA-N domain; Region: TrkA_N; pfam02254 529120000915 Cache domain; Region: Cache_1; pfam02743 529120000916 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 529120000917 dimerization interface [polypeptide binding]; other site 529120000918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120000919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120000920 dimer interface [polypeptide binding]; other site 529120000921 putative CheW interface [polypeptide binding]; other site 529120000922 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 529120000923 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 529120000924 active site 529120000925 Zn binding site [ion binding]; other site 529120000926 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 529120000927 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 529120000928 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 529120000929 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 529120000930 putative active site [active] 529120000931 putative substrate binding site [chemical binding]; other site 529120000932 putative cosubstrate binding site; other site 529120000933 catalytic site [active] 529120000934 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 529120000935 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 529120000936 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 529120000937 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 529120000938 ATP binding site [chemical binding]; other site 529120000939 putative Mg++ binding site [ion binding]; other site 529120000940 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 529120000941 nucleotide binding region [chemical binding]; other site 529120000942 ATP-binding site [chemical binding]; other site 529120000943 Helicase associated domain (HA2); Region: HA2; pfam04408 529120000944 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 529120000945 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 529120000946 Transglycosylase SLT domain; Region: SLT_2; pfam13406 529120000947 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 529120000948 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 529120000949 N-acetyl-D-glucosamine binding site [chemical binding]; other site 529120000950 catalytic residue [active] 529120000951 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 529120000952 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 529120000953 Transglycosylase; Region: Transgly; pfam00912 529120000954 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 529120000955 putative chaperone protein EcpD; Provisional; Region: PRK09926 529120000956 Protein of unknown function (DUF808); Region: DUF808; pfam05661 529120000957 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 529120000958 Endonuclease I; Region: Endonuclease_1; pfam04231 529120000959 Helix-turn-helix domain; Region: HTH_18; pfam12833 529120000960 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 529120000961 Nitrogen regulatory protein P-II; Region: P-II; smart00938 529120000962 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 529120000963 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 529120000964 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 529120000965 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 529120000966 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 529120000967 cyclase homology domain; Region: CHD; cd07302 529120000968 nucleotidyl binding site; other site 529120000969 metal binding site [ion binding]; metal-binding site 529120000970 dimer interface [polypeptide binding]; other site 529120000971 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 529120000972 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 529120000973 inhibitor-cofactor binding pocket; inhibition site 529120000974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120000975 catalytic residue [active] 529120000976 aspartate carbamoyltransferase; Provisional; Region: PRK08192 529120000977 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 529120000978 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 529120000979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120000980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120000981 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 529120000982 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120000983 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120000984 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120000985 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120000986 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 529120000987 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 529120000988 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120000989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120000990 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 529120000991 dimer interface [polypeptide binding]; other site 529120000992 phosphorylation site [posttranslational modification] 529120000993 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 529120000994 ATP binding site [chemical binding]; other site 529120000995 Mg2+ binding site [ion binding]; other site 529120000996 G-X-G motif; other site 529120000997 Response regulator receiver domain; Region: Response_reg; pfam00072 529120000998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120000999 active site 529120001000 phosphorylation site [posttranslational modification] 529120001001 intermolecular recognition site; other site 529120001002 dimerization interface [polypeptide binding]; other site 529120001003 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 529120001004 putative binding surface; other site 529120001005 active site 529120001006 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 529120001007 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 529120001008 CAP-like domain; other site 529120001009 active site 529120001010 primary dimer interface [polypeptide binding]; other site 529120001011 Heme NO binding; Region: HNOB; pfam07700 529120001012 PAS fold; Region: PAS_3; pfam08447 529120001013 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 529120001014 PAS domain; Region: PAS_9; pfam13426 529120001015 putative active site [active] 529120001016 heme pocket [chemical binding]; other site 529120001017 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120001018 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120001019 metal binding site [ion binding]; metal-binding site 529120001020 active site 529120001021 I-site; other site 529120001022 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 529120001023 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 529120001024 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 529120001025 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 529120001026 NAD(P) binding site [chemical binding]; other site 529120001027 catalytic residues [active] 529120001028 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 529120001029 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 529120001030 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 529120001031 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 529120001032 inhibitor-cofactor binding pocket; inhibition site 529120001033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120001034 catalytic residue [active] 529120001035 HDOD domain; Region: HDOD; pfam08668 529120001036 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 529120001037 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 529120001038 glutamine binding [chemical binding]; other site 529120001039 catalytic triad [active] 529120001040 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 529120001041 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 529120001042 active site 529120001043 HIGH motif; other site 529120001044 dimer interface [polypeptide binding]; other site 529120001045 KMSKS motif; other site 529120001046 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 529120001047 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 529120001048 substrate binding site [chemical binding]; other site 529120001049 hexamer interface [polypeptide binding]; other site 529120001050 metal binding site [ion binding]; metal-binding site 529120001051 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 529120001052 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 529120001053 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 529120001054 AAA domain; Region: AAA_22; pfam13401 529120001055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 529120001056 Sporulation related domain; Region: SPOR; cl10051 529120001057 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 529120001058 active site 529120001059 dimer interface [polypeptide binding]; other site 529120001060 metal binding site [ion binding]; metal-binding site 529120001061 shikimate kinase; Reviewed; Region: aroK; PRK00131 529120001062 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 529120001063 ADP binding site [chemical binding]; other site 529120001064 magnesium binding site [ion binding]; other site 529120001065 putative shikimate binding site; other site 529120001066 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 529120001067 Secretin and TonB N terminus short domain; Region: STN; smart00965 529120001068 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 529120001069 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 529120001070 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 529120001071 Pilus assembly protein, PilP; Region: PilP; pfam04351 529120001072 Pilus assembly protein, PilO; Region: PilO; pfam04350 529120001073 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 529120001074 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 529120001075 Competence protein A; Region: Competence_A; pfam11104 529120001076 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 529120001077 Transglycosylase; Region: Transgly; pfam00912 529120001078 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 529120001079 malate dehydrogenase; Provisional; Region: PRK13529 529120001080 Malic enzyme, N-terminal domain; Region: malic; pfam00390 529120001081 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 529120001082 NAD(P) binding site [chemical binding]; other site 529120001083 putative S-transferase; Provisional; Region: PRK11752 529120001084 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 529120001085 C-terminal domain interface [polypeptide binding]; other site 529120001086 GSH binding site (G-site) [chemical binding]; other site 529120001087 dimer interface [polypeptide binding]; other site 529120001088 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 529120001089 dimer interface [polypeptide binding]; other site 529120001090 N-terminal domain interface [polypeptide binding]; other site 529120001091 active site 529120001092 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 529120001093 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 529120001094 tetramer interface [polypeptide binding]; other site 529120001095 heme binding pocket [chemical binding]; other site 529120001096 NADPH binding site [chemical binding]; other site 529120001097 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120001098 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120001099 WHG domain; Region: WHG; pfam13305 529120001100 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 529120001101 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 529120001102 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 529120001103 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120001104 PAS domain; Region: PAS; smart00091 529120001105 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 529120001106 potential frameshift: common BLAST hit: gi|332139937|ref|YP_004425675.1| N-acetylglutamate synthase 529120001107 argininosuccinate lyase; Provisional; Region: PRK04833 529120001108 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 529120001109 active sites [active] 529120001110 tetramer interface [polypeptide binding]; other site 529120001111 argininosuccinate synthase; Provisional; Region: PRK13820 529120001112 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 529120001113 ANP binding site [chemical binding]; other site 529120001114 Substrate Binding Site II [chemical binding]; other site 529120001115 Substrate Binding Site I [chemical binding]; other site 529120001116 ornithine carbamoyltransferase; Provisional; Region: PRK14805 529120001117 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 529120001118 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 529120001119 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 529120001120 nucleotide binding site [chemical binding]; other site 529120001121 substrate binding site [chemical binding]; other site 529120001122 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 529120001123 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 529120001124 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 529120001125 active site 529120001126 dimer interfaces [polypeptide binding]; other site 529120001127 catalytic residues [active] 529120001128 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 529120001129 Flagellar L-ring protein; Region: FlgH; pfam02107 529120001130 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 529120001131 dimer interface [polypeptide binding]; other site 529120001132 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 529120001133 dimer interface [polypeptide binding]; other site 529120001134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120001135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001136 active site 529120001137 phosphorylation site [posttranslational modification] 529120001138 intermolecular recognition site; other site 529120001139 dimerization interface [polypeptide binding]; other site 529120001140 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 529120001141 DNA binding site [nucleotide binding] 529120001142 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 529120001143 dimerization interface [polypeptide binding]; other site 529120001144 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 529120001145 dimer interface [polypeptide binding]; other site 529120001146 phosphorylation site [posttranslational modification] 529120001147 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 529120001148 ATP binding site [chemical binding]; other site 529120001149 Mg2+ binding site [ion binding]; other site 529120001150 G-X-G motif; other site 529120001151 lysophospholipase L2; Provisional; Region: PRK10749 529120001152 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120001153 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 529120001154 macrolide transporter subunit MacA; Provisional; Region: PRK11578 529120001155 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120001156 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120001157 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 529120001158 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 529120001159 Walker A/P-loop; other site 529120001160 ATP binding site [chemical binding]; other site 529120001161 Q-loop/lid; other site 529120001162 ABC transporter signature motif; other site 529120001163 Walker B; other site 529120001164 D-loop; other site 529120001165 H-loop/switch region; other site 529120001166 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 529120001167 FtsX-like permease family; Region: FtsX; pfam02687 529120001168 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 529120001169 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 529120001170 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 529120001171 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 529120001172 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 529120001173 SecA binding site; other site 529120001174 Preprotein binding site; other site 529120001175 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 529120001176 GSH binding site [chemical binding]; other site 529120001177 catalytic residues [active] 529120001178 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 529120001179 active site residue [active] 529120001180 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 529120001181 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120001182 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 529120001183 NodB motif; other site 529120001184 putative active site [active] 529120001185 putative catalytic site [active] 529120001186 Zn binding site [ion binding]; other site 529120001187 MerC mercury resistance protein; Region: MerC; pfam03203 529120001188 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 529120001189 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 529120001190 active site 529120001191 catalytic site [active] 529120001192 metal binding site [ion binding]; metal-binding site 529120001193 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 529120001194 EamA-like transporter family; Region: EamA; pfam00892 529120001195 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 529120001196 GTPase RsgA; Reviewed; Region: PRK12288 529120001197 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 529120001198 RNA binding site [nucleotide binding]; other site 529120001199 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 529120001200 GTPase/Zn-binding domain interface [polypeptide binding]; other site 529120001201 GTP/Mg2+ binding site [chemical binding]; other site 529120001202 G4 box; other site 529120001203 G5 box; other site 529120001204 G1 box; other site 529120001205 Switch I region; other site 529120001206 G2 box; other site 529120001207 G3 box; other site 529120001208 Switch II region; other site 529120001209 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 529120001210 catalytic site [active] 529120001211 putative active site [active] 529120001212 putative substrate binding site [chemical binding]; other site 529120001213 dimer interface [polypeptide binding]; other site 529120001214 potential protein location (hypothetical protein MASE_01950 [Alteromonas macleodii ATCC 27126]) that overlaps RNA (tRNA-G) 529120001215 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120001216 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 529120001217 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120001218 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 529120001219 CoenzymeA binding site [chemical binding]; other site 529120001220 subunit interaction site [polypeptide binding]; other site 529120001221 PHB binding site; other site 529120001222 hypothetical protein; Provisional; Region: PRK11027 529120001223 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 529120001224 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 529120001225 PYR/PP interface [polypeptide binding]; other site 529120001226 dimer interface [polypeptide binding]; other site 529120001227 TPP binding site [chemical binding]; other site 529120001228 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 529120001229 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 529120001230 TPP-binding site [chemical binding]; other site 529120001231 dimer interface [polypeptide binding]; other site 529120001232 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 529120001233 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 529120001234 putative valine binding site [chemical binding]; other site 529120001235 dimer interface [polypeptide binding]; other site 529120001236 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 529120001237 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 529120001238 sec-independent translocase; Provisional; Region: PRK01770 529120001239 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 529120001240 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 529120001241 active site 529120001242 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 529120001243 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120001244 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120001245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120001246 metal binding site [ion binding]; metal-binding site 529120001247 active site 529120001248 I-site; other site 529120001249 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 529120001250 dimer interface [polypeptide binding]; other site 529120001251 allosteric magnesium binding site [ion binding]; other site 529120001252 active site 529120001253 aspartate-rich active site metal binding site; other site 529120001254 Schiff base residues; other site 529120001255 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 529120001256 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 529120001257 potential frameshift: common BLAST hit: gi|332139978|ref|YP_004425716.1| ATP-dependent RNA helicase RhlB 529120001258 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 529120001259 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 529120001260 catalytic residues [active] 529120001261 transcription termination factor Rho; Provisional; Region: rho; PRK09376 529120001262 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 529120001263 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 529120001264 RNA binding site [nucleotide binding]; other site 529120001265 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 529120001266 multimer interface [polypeptide binding]; other site 529120001267 Walker A motif; other site 529120001268 ATP binding site [chemical binding]; other site 529120001269 Walker B motif; other site 529120001270 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 529120001271 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 529120001272 metal binding site [ion binding]; metal-binding site 529120001273 putative dimer interface [polypeptide binding]; other site 529120001274 Cache domain; Region: Cache_1; pfam02743 529120001275 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 529120001276 dimer interface [polypeptide binding]; other site 529120001277 phosphorylation site [posttranslational modification] 529120001278 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 529120001279 ATP binding site [chemical binding]; other site 529120001280 Mg2+ binding site [ion binding]; other site 529120001281 G-X-G motif; other site 529120001282 Response regulator receiver domain; Region: Response_reg; pfam00072 529120001283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001284 active site 529120001285 phosphorylation site [posttranslational modification] 529120001286 intermolecular recognition site; other site 529120001287 dimerization interface [polypeptide binding]; other site 529120001288 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 529120001289 AIR carboxylase; Region: AIRC; pfam00731 529120001290 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 529120001291 ATP-grasp domain; Region: ATP-grasp; pfam02222 529120001292 Protein of unknown function (DUF461); Region: DUF461; pfam04314 529120001293 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 529120001294 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 529120001295 dimerization interface [polypeptide binding]; other site 529120001296 DPS ferroxidase diiron center [ion binding]; other site 529120001297 ion pore; other site 529120001298 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 529120001299 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 529120001300 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 529120001301 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120001302 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120001303 Protein of unknown function (DUF962); Region: DUF962; pfam06127 529120001304 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 529120001305 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 529120001306 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 529120001307 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 529120001308 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 529120001309 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 529120001310 GDP-binding site [chemical binding]; other site 529120001311 ACT binding site; other site 529120001312 IMP binding site; other site 529120001313 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 529120001314 NAD(P) binding site [chemical binding]; other site 529120001315 catalytic residues [active] 529120001316 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 529120001317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120001318 putative metal binding site [ion binding]; other site 529120001319 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 529120001320 LabA_like proteins; Region: LabA; cd10911 529120001321 Uncharacterized conserved protein [Function unknown]; Region: COG1432 529120001322 putative metal binding site [ion binding]; other site 529120001323 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 529120001324 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 529120001325 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 529120001326 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 529120001327 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 529120001328 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120001329 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120001330 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 529120001331 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 529120001332 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 529120001333 putative active site [active] 529120001334 alanine racemase; Reviewed; Region: alr; PRK00053 529120001335 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 529120001336 active site 529120001337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 529120001338 substrate binding site [chemical binding]; other site 529120001339 catalytic residues [active] 529120001340 dimer interface [polypeptide binding]; other site 529120001341 Uncharacterized conserved protein [Function unknown]; Region: COG1284 529120001342 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 529120001343 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 529120001344 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 529120001345 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120001346 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 529120001347 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 529120001348 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 529120001349 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120001350 substrate binding pocket [chemical binding]; other site 529120001351 membrane-bound complex binding site; other site 529120001352 hinge residues; other site 529120001353 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 529120001354 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 529120001355 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 529120001356 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 529120001357 dimer interface [polypeptide binding]; other site 529120001358 active site 529120001359 glycine-pyridoxal phosphate binding site [chemical binding]; other site 529120001360 folate binding site [chemical binding]; other site 529120001361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120001362 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 529120001363 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 529120001364 dimerization interface [polypeptide binding]; other site 529120001365 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 529120001366 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 529120001367 PhnA protein; Region: PhnA; pfam03831 529120001368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120001369 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120001370 Coenzyme A binding pocket [chemical binding]; other site 529120001371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120001372 Coenzyme A binding pocket [chemical binding]; other site 529120001373 hypothetical protein; Provisional; Region: PRK02237 529120001374 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 529120001375 potential frameshift: common BLAST hit: gi|333894552|ref|YP_004468427.1| integrase 529120001376 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 529120001377 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 529120001378 dimer interface [polypeptide binding]; other site 529120001379 active site 529120001380 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 529120001381 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 529120001382 substrate binding site [chemical binding]; other site 529120001383 oxyanion hole (OAH) forming residues; other site 529120001384 trimer interface [polypeptide binding]; other site 529120001385 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 529120001386 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 529120001387 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 529120001388 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 529120001389 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 529120001390 N-acetyl-D-glucosamine binding site [chemical binding]; other site 529120001391 catalytic residue [active] 529120001392 proline dipeptidase; Provisional; Region: PRK13607 529120001393 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 529120001394 active site 529120001395 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 529120001396 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 529120001397 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 529120001398 substrate binding pocket [chemical binding]; other site 529120001399 chain length determination region; other site 529120001400 substrate-Mg2+ binding site; other site 529120001401 catalytic residues [active] 529120001402 aspartate-rich region 1; other site 529120001403 active site lid residues [active] 529120001404 aspartate-rich region 2; other site 529120001405 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 529120001406 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 529120001407 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 529120001408 GTPase CgtA; Reviewed; Region: obgE; PRK12298 529120001409 GTP1/OBG; Region: GTP1_OBG; pfam01018 529120001410 Obg GTPase; Region: Obg; cd01898 529120001411 G1 box; other site 529120001412 GTP/Mg2+ binding site [chemical binding]; other site 529120001413 Switch I region; other site 529120001414 G2 box; other site 529120001415 G3 box; other site 529120001416 Switch II region; other site 529120001417 G4 box; other site 529120001418 G5 box; other site 529120001419 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 529120001420 Catalytic site [active] 529120001421 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 529120001422 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 529120001423 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 529120001424 NADP+ binding site [chemical binding]; other site 529120001425 folate binding site [chemical binding]; other site 529120001426 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 529120001427 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 529120001428 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120001429 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 529120001430 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 529120001431 DNA binding residues [nucleotide binding] 529120001432 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 529120001433 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 529120001434 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120001435 Predicted membrane protein [Function unknown]; Region: COG1238 529120001436 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 529120001437 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 529120001438 S-adenosylmethionine binding site [chemical binding]; other site 529120001439 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 529120001440 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 529120001441 Permutation of conserved domain; other site 529120001442 active site 529120001443 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 529120001444 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 529120001445 homotrimer interaction site [polypeptide binding]; other site 529120001446 zinc binding site [ion binding]; other site 529120001447 CDP-binding sites; other site 529120001448 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 529120001449 substrate binding site; other site 529120001450 dimer interface; other site 529120001451 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 529120001452 Septum formation initiator; Region: DivIC; cl17659 529120001453 TIGR03545 family protein; Region: TIGR03545 529120001454 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 529120001455 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 529120001456 dimerization interface [polypeptide binding]; other site 529120001457 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120001458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120001459 dimer interface [polypeptide binding]; other site 529120001460 putative CheW interface [polypeptide binding]; other site 529120001461 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 529120001462 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 529120001463 putative DNA binding site [nucleotide binding]; other site 529120001464 putative Zn2+ binding site [ion binding]; other site 529120001465 AsnC family; Region: AsnC_trans_reg; pfam01037 529120001466 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 529120001467 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 529120001468 putative NAD(P) binding site [chemical binding]; other site 529120001469 catalytic Zn binding site [ion binding]; other site 529120001470 structural Zn binding site [ion binding]; other site 529120001471 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 529120001472 Proline dehydrogenase; Region: Pro_dh; pfam01619 529120001473 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 529120001474 Glutamate binding site [chemical binding]; other site 529120001475 NAD binding site [chemical binding]; other site 529120001476 catalytic residues [active] 529120001477 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 529120001478 Outer membrane efflux protein; Region: OEP; pfam02321 529120001479 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120001480 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120001481 potential frameshift: common BLAST hit: gi|333894526|ref|YP_004468401.1| acriflavin resistance protein 529120001482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120001483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001484 active site 529120001485 phosphorylation site [posttranslational modification] 529120001486 intermolecular recognition site; other site 529120001487 dimerization interface [polypeptide binding]; other site 529120001488 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 529120001489 DNA binding site [nucleotide binding] 529120001490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120001491 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 529120001492 dimer interface [polypeptide binding]; other site 529120001493 phosphorylation site [posttranslational modification] 529120001494 VirK protein; Region: VirK; pfam06903 529120001495 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 529120001496 Bacterial SH3 domain homologues; Region: SH3b; smart00287 529120001497 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 529120001498 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 529120001499 putative active site [active] 529120001500 putative metal binding residues [ion binding]; other site 529120001501 signature motif; other site 529120001502 putative triphosphate binding site [ion binding]; other site 529120001503 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 529120001504 putative DNA-binding cleft [nucleotide binding]; other site 529120001505 putative DNA clevage site; other site 529120001506 molecular lever; other site 529120001507 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 529120001508 putative active site [active] 529120001509 Ap4A binding site [chemical binding]; other site 529120001510 nudix motif; other site 529120001511 putative metal binding site [ion binding]; other site 529120001512 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 529120001513 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 529120001514 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 529120001515 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 529120001516 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 529120001517 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 529120001518 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 529120001519 thymidylate synthase; Reviewed; Region: thyA; PRK01827 529120001520 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 529120001521 dimerization interface [polypeptide binding]; other site 529120001522 active site 529120001523 Response regulator receiver domain; Region: Response_reg; pfam00072 529120001524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001525 active site 529120001526 phosphorylation site [posttranslational modification] 529120001527 intermolecular recognition site; other site 529120001528 dimerization interface [polypeptide binding]; other site 529120001529 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 529120001530 PAS domain; Region: PAS_9; pfam13426 529120001531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120001532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120001533 metal binding site [ion binding]; metal-binding site 529120001534 active site 529120001535 I-site; other site 529120001536 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120001537 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 529120001538 dimer interface [polypeptide binding]; other site 529120001539 phosphorylation site [posttranslational modification] 529120001540 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 529120001541 ATP binding site [chemical binding]; other site 529120001542 Mg2+ binding site [ion binding]; other site 529120001543 G-X-G motif; other site 529120001544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001545 Response regulator receiver domain; Region: Response_reg; pfam00072 529120001546 active site 529120001547 phosphorylation site [posttranslational modification] 529120001548 intermolecular recognition site; other site 529120001549 dimerization interface [polypeptide binding]; other site 529120001550 Response regulator receiver domain; Region: Response_reg; pfam00072 529120001551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001552 active site 529120001553 phosphorylation site [posttranslational modification] 529120001554 intermolecular recognition site; other site 529120001555 dimerization interface [polypeptide binding]; other site 529120001556 muropeptide transporter; Validated; Region: ampG; cl17669 529120001557 muropeptide transporter; Reviewed; Region: ampG; PRK11902 529120001558 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 529120001559 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 529120001560 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 529120001561 active site 529120001562 ATP-dependent helicase HepA; Validated; Region: PRK04914 529120001563 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 529120001564 ATP binding site [chemical binding]; other site 529120001565 putative Mg++ binding site [ion binding]; other site 529120001566 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 529120001567 nucleotide binding region [chemical binding]; other site 529120001568 ATP-binding site [chemical binding]; other site 529120001569 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 529120001570 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 529120001571 non-specific DNA binding site [nucleotide binding]; other site 529120001572 salt bridge; other site 529120001573 sequence-specific DNA binding site [nucleotide binding]; other site 529120001574 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 529120001575 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 529120001576 Zn binding site [ion binding]; other site 529120001577 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 529120001578 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 529120001579 putative active site [active] 529120001580 PhoH-like protein; Region: PhoH; pfam02562 529120001581 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 529120001582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120001583 DNA-binding site [nucleotide binding]; DNA binding site 529120001584 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 529120001585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120001586 homodimer interface [polypeptide binding]; other site 529120001587 catalytic residue [active] 529120001588 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 529120001589 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 529120001590 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 529120001591 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120001592 siroheme synthase; Provisional; Region: cysG; PRK10637 529120001593 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 529120001594 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 529120001595 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 529120001596 active site 529120001597 SAM binding site [chemical binding]; other site 529120001598 homodimer interface [polypeptide binding]; other site 529120001599 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 529120001600 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 529120001601 ATP binding site [chemical binding]; other site 529120001602 Mg++ binding site [ion binding]; other site 529120001603 motif III; other site 529120001604 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 529120001605 nucleotide binding region [chemical binding]; other site 529120001606 ATP-binding site [chemical binding]; other site 529120001607 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 529120001608 putative RNA binding site [nucleotide binding]; other site 529120001609 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 529120001610 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 529120001611 TPR motif; other site 529120001612 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 529120001613 binding surface 529120001614 TPR motif; other site 529120001615 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 529120001616 TPR motif; other site 529120001617 binding surface 529120001618 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 529120001619 binding surface 529120001620 TPR motif; other site 529120001621 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 529120001622 binding surface 529120001623 TPR motif; other site 529120001624 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 529120001625 TPR motif; other site 529120001626 binding surface 529120001627 Ion transport protein; Region: Ion_trans; pfam00520 529120001628 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 529120001629 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 529120001630 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 529120001631 dimer interface [polypeptide binding]; other site 529120001632 ADP-ribose binding site [chemical binding]; other site 529120001633 active site 529120001634 nudix motif; other site 529120001635 metal binding site [ion binding]; metal-binding site 529120001636 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 529120001637 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 529120001638 active site 529120001639 metal binding site [ion binding]; metal-binding site 529120001640 hexamer interface [polypeptide binding]; other site 529120001641 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 529120001642 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 529120001643 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120001644 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 529120001645 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 529120001646 ATP binding site [chemical binding]; other site 529120001647 Mg2+ binding site [ion binding]; other site 529120001648 G-X-G motif; other site 529120001649 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 529120001650 anchoring element; other site 529120001651 dimer interface [polypeptide binding]; other site 529120001652 ATP binding site [chemical binding]; other site 529120001653 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 529120001654 active site 529120001655 metal binding site [ion binding]; metal-binding site 529120001656 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 529120001657 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 529120001658 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 529120001659 motif II; other site 529120001660 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 529120001661 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 529120001662 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 529120001663 FeS/SAM binding site; other site 529120001664 elongation factor P; Validated; Region: PRK00529 529120001665 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 529120001666 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 529120001667 RNA binding site [nucleotide binding]; other site 529120001668 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 529120001669 RNA binding site [nucleotide binding]; other site 529120001670 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 529120001671 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 529120001672 motif 1; other site 529120001673 dimer interface [polypeptide binding]; other site 529120001674 active site 529120001675 motif 2; other site 529120001676 motif 3; other site 529120001677 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 529120001678 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120001679 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120001680 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 529120001681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120001682 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 529120001683 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 529120001684 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 529120001685 active site 529120001686 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 529120001687 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 529120001688 S-adenosylmethionine binding site [chemical binding]; other site 529120001689 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 529120001690 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 529120001691 BolA-like protein; Region: BolA; cl00386 529120001692 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 529120001693 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 529120001694 active site 529120001695 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 529120001696 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 529120001697 non-specific DNA binding site [nucleotide binding]; other site 529120001698 salt bridge; other site 529120001699 sequence-specific DNA binding site [nucleotide binding]; other site 529120001700 Nitrate and nitrite sensing; Region: NIT; pfam08376 529120001701 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 529120001702 ANTAR domain; Region: ANTAR; pfam03861 529120001703 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 529120001704 Sulfate transporter family; Region: Sulfate_transp; pfam00916 529120001705 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 529120001706 nitrite reductase subunit NirD; Provisional; Region: PRK14989 529120001707 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120001708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120001709 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 529120001710 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 529120001711 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 529120001712 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 529120001713 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 529120001714 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 529120001715 [4Fe-4S] binding site [ion binding]; other site 529120001716 molybdopterin cofactor binding site; other site 529120001717 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 529120001718 molybdopterin cofactor binding site; other site 529120001719 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 529120001720 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 529120001721 active site 529120001722 SAM binding site [chemical binding]; other site 529120001723 homodimer interface [polypeptide binding]; other site 529120001724 hypothetical protein; Validated; Region: PRK09071 529120001725 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 529120001726 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 529120001727 active site 529120001728 metal binding site [ion binding]; metal-binding site 529120001729 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 529120001730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120001731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120001732 metal binding site [ion binding]; metal-binding site 529120001733 active site 529120001734 I-site; other site 529120001735 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 529120001736 PAS domain; Region: PAS_9; pfam13426 529120001737 putative active site [active] 529120001738 heme pocket [chemical binding]; other site 529120001739 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 529120001740 PAS domain; Region: PAS_9; pfam13426 529120001741 putative active site [active] 529120001742 heme pocket [chemical binding]; other site 529120001743 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120001744 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120001745 dimer interface [polypeptide binding]; other site 529120001746 putative CheW interface [polypeptide binding]; other site 529120001747 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 529120001748 NMT1-like family; Region: NMT1_2; pfam13379 529120001749 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 529120001750 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 529120001751 dimer interface [polypeptide binding]; other site 529120001752 conserved gate region; other site 529120001753 putative PBP binding loops; other site 529120001754 ABC-ATPase subunit interface; other site 529120001755 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 529120001756 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 529120001757 Walker A/P-loop; other site 529120001758 ATP binding site [chemical binding]; other site 529120001759 Q-loop/lid; other site 529120001760 ABC transporter signature motif; other site 529120001761 Walker B; other site 529120001762 D-loop; other site 529120001763 H-loop/switch region; other site 529120001764 HD domain; Region: HD_3; pfam13023 529120001765 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 529120001766 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 529120001767 catalytic residues [active] 529120001768 hinge region; other site 529120001769 alpha helical domain; other site 529120001770 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 529120001771 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 529120001772 N-terminal plug; other site 529120001773 ligand-binding site [chemical binding]; other site 529120001774 potential frameshift: common BLAST hit: gi|348030243|ref|YP_004872929.1| serine/threonine protein kinase 529120001775 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 529120001776 4Fe-4S binding domain; Region: Fer4_5; pfam12801 529120001777 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 529120001778 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 529120001779 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 529120001780 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 529120001781 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 529120001782 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120001783 active site 529120001784 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 529120001785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 529120001786 classical (c) SDRs; Region: SDR_c; cd05233 529120001787 NAD(P) binding site [chemical binding]; other site 529120001788 active site 529120001789 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 529120001790 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 529120001791 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 529120001792 active site pocket [active] 529120001793 aldolase II superfamily protein; Provisional; Region: PRK07044 529120001794 active site 529120001795 intersubunit interface [polypeptide binding]; other site 529120001796 Zn2+ binding site [ion binding]; other site 529120001797 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 529120001798 nudix motif; other site 529120001799 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120001800 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120001801 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120001802 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120001803 Protein export membrane protein; Region: SecD_SecF; cl14618 529120001804 Protein export membrane protein; Region: SecD_SecF; cl14618 529120001805 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 529120001806 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 529120001807 dimerization interface [polypeptide binding]; other site 529120001808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120001809 dimer interface [polypeptide binding]; other site 529120001810 putative CheW interface [polypeptide binding]; other site 529120001811 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 529120001812 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 529120001813 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 529120001814 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 529120001815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120001816 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 529120001817 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 529120001818 DNA binding residues [nucleotide binding] 529120001819 DNA primase; Validated; Region: dnaG; PRK05667 529120001820 CHC2 zinc finger; Region: zf-CHC2; pfam01807 529120001821 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 529120001822 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 529120001823 active site 529120001824 metal binding site [ion binding]; metal-binding site 529120001825 interdomain interaction site; other site 529120001826 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 529120001827 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 529120001828 Yqey-like protein; Region: YqeY; pfam09424 529120001829 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 529120001830 UGMP family protein; Validated; Region: PRK09604 529120001831 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 529120001832 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 529120001833 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 529120001834 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 529120001835 Dihydroneopterin aldolase; Region: FolB; pfam02152 529120001836 active site 529120001837 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 529120001838 catalytic center binding site [active] 529120001839 ATP binding site [chemical binding]; other site 529120001840 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 529120001841 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 529120001842 nucleotide binding site/active site [active] 529120001843 HIT family signature motif; other site 529120001844 catalytic residue [active] 529120001845 Nudix hydrolase homolog; Region: PLN02791 529120001846 HDOD domain; Region: HDOD; pfam08668 529120001847 Benzoate membrane transport protein; Region: BenE; pfam03594 529120001848 benzoate transporter; Region: benE; TIGR00843 529120001849 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 529120001850 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 529120001851 non-specific DNA binding site [nucleotide binding]; other site 529120001852 salt bridge; other site 529120001853 sequence-specific DNA binding site [nucleotide binding]; other site 529120001854 recombination associated protein; Reviewed; Region: rdgC; PRK00321 529120001855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120001856 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 529120001857 ATP binding site [chemical binding]; other site 529120001858 Mg2+ binding site [ion binding]; other site 529120001859 G-X-G motif; other site 529120001860 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 529120001861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001862 active site 529120001863 phosphorylation site [posttranslational modification] 529120001864 intermolecular recognition site; other site 529120001865 dimerization interface [polypeptide binding]; other site 529120001866 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 529120001867 DNA binding site [nucleotide binding] 529120001868 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 529120001869 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 529120001870 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 529120001871 dimer interface [polypeptide binding]; other site 529120001872 phosphorylation site [posttranslational modification] 529120001873 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 529120001874 ATP binding site [chemical binding]; other site 529120001875 Mg2+ binding site [ion binding]; other site 529120001876 G-X-G motif; other site 529120001877 PBP superfamily domain; Region: PBP_like_2; cl17296 529120001878 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 529120001879 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 529120001880 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 529120001881 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 529120001882 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 529120001883 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 529120001884 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 529120001885 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 529120001886 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 529120001887 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120001888 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 529120001889 TPR motif; other site 529120001890 binding surface 529120001891 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 529120001892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001893 active site 529120001894 phosphorylation site [posttranslational modification] 529120001895 intermolecular recognition site; other site 529120001896 dimerization interface [polypeptide binding]; other site 529120001897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120001898 Zn2+ binding site [ion binding]; other site 529120001899 Mg2+ binding site [ion binding]; other site 529120001900 potential frameshift: common BLAST hit: gi|332140190|ref|YP_004425928.1| PAS signal transduction protein 529120001901 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 529120001902 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 529120001903 acyl-activating enzyme (AAE) consensus motif; other site 529120001904 putative AMP binding site [chemical binding]; other site 529120001905 putative active site [active] 529120001906 putative CoA binding site [chemical binding]; other site 529120001907 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 529120001908 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 529120001909 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 529120001910 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 529120001911 substrate binding site [chemical binding]; other site 529120001912 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 529120001913 substrate binding site [chemical binding]; other site 529120001914 ligand binding site [chemical binding]; other site 529120001915 Carbon starvation protein CstA; Region: CstA; pfam02554 529120001916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120001917 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 529120001918 dimer interface [polypeptide binding]; other site 529120001919 phosphorylation site [posttranslational modification] 529120001920 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 529120001921 ATP binding site [chemical binding]; other site 529120001922 Mg2+ binding site [ion binding]; other site 529120001923 G-X-G motif; other site 529120001924 Response regulator receiver domain; Region: Response_reg; pfam00072 529120001925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120001926 active site 529120001927 phosphorylation site [posttranslational modification] 529120001928 intermolecular recognition site; other site 529120001929 dimerization interface [polypeptide binding]; other site 529120001930 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 529120001931 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 529120001932 Tetratricopeptide repeat; Region: TPR_16; pfam13432 529120001933 binding surface 529120001934 TPR motif; other site 529120001935 DNA ligase; Provisional; Region: PRK09125 529120001936 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 529120001937 DNA binding site [nucleotide binding] 529120001938 active site 529120001939 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 529120001940 DNA binding site [nucleotide binding] 529120001941 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 529120001942 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 529120001943 substrate binding site [chemical binding]; other site 529120001944 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 529120001945 substrate binding site [chemical binding]; other site 529120001946 ligand binding site [chemical binding]; other site 529120001947 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 529120001948 aspartate kinase III; Validated; Region: PRK09084 529120001949 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 529120001950 nucleotide binding site [chemical binding]; other site 529120001951 substrate binding site [chemical binding]; other site 529120001952 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 529120001953 lysine allosteric regulatory site; other site 529120001954 dimer interface [polypeptide binding]; other site 529120001955 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 529120001956 dimer interface [polypeptide binding]; other site 529120001957 SOUL heme-binding protein; Region: SOUL; pfam04832 529120001958 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 529120001959 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 529120001960 dimerization interface [polypeptide binding]; other site 529120001961 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120001962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120001963 dimer interface [polypeptide binding]; other site 529120001964 putative CheW interface [polypeptide binding]; other site 529120001965 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 529120001966 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 529120001967 active site 529120001968 metal binding site [ion binding]; metal-binding site 529120001969 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 529120001970 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 529120001971 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 529120001972 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 529120001973 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 529120001974 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 529120001975 SurA N-terminal domain; Region: SurA_N; pfam09312 529120001976 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 529120001977 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 529120001978 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 529120001979 OstA-like protein; Region: OstA; cl00844 529120001980 Organic solvent tolerance protein; Region: OstA_C; pfam04453 529120001981 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 529120001982 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 529120001983 putative metal binding site [ion binding]; other site 529120001984 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 529120001985 HSP70 interaction site [polypeptide binding]; other site 529120001986 potential frameshift: common BLAST hit: gi|332140209|ref|YP_004425947.1| tyrosine recombinase 529120001987 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 529120001988 dimerization domain [polypeptide binding]; other site 529120001989 dimer interface [polypeptide binding]; other site 529120001990 catalytic residues [active] 529120001991 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 529120001992 DHH family; Region: DHH; pfam01368 529120001993 DHHA1 domain; Region: DHHA1; pfam02272 529120001994 Recombination protein O N terminal; Region: RecO_N; pfam11967 529120001995 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 529120001996 Recombination protein O C terminal; Region: RecO_C; pfam02565 529120001997 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 529120001998 active site 529120001999 hydrophilic channel; other site 529120002000 dimerization interface [polypeptide binding]; other site 529120002001 catalytic residues [active] 529120002002 active site lid [active] 529120002003 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 529120002004 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 529120002005 TRAM domain; Region: TRAM; cl01282 529120002006 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 529120002007 S-adenosylmethionine binding site [chemical binding]; other site 529120002008 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 529120002009 HD domain; Region: HD_4; pfam13328 529120002010 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 529120002011 synthetase active site [active] 529120002012 NTP binding site [chemical binding]; other site 529120002013 metal binding site [ion binding]; metal-binding site 529120002014 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 529120002015 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 529120002016 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 529120002017 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 529120002018 homodimer interface [polypeptide binding]; other site 529120002019 metal binding site [ion binding]; metal-binding site 529120002020 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 529120002021 homodimer interface [polypeptide binding]; other site 529120002022 active site 529120002023 putative chemical substrate binding site [chemical binding]; other site 529120002024 metal binding site [ion binding]; metal-binding site 529120002025 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120002026 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 529120002027 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120002028 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120002029 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 529120002030 N-terminal plug; other site 529120002031 ligand-binding site [chemical binding]; other site 529120002032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 529120002033 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 529120002034 tetramerization interface [polypeptide binding]; other site 529120002035 substrate binding pocket [chemical binding]; other site 529120002036 catalytic residues [active] 529120002037 inhibitor binding sites; inhibition site 529120002038 NADP(H) binding site [chemical binding]; other site 529120002039 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120002040 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 529120002041 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 529120002042 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 529120002043 23S rRNA interface [nucleotide binding]; other site 529120002044 L3 interface [polypeptide binding]; other site 529120002045 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 529120002046 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 529120002047 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 529120002048 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 529120002049 [2Fe-2S] cluster binding site [ion binding]; other site 529120002050 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 529120002051 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 529120002052 Qi binding site; other site 529120002053 intrachain domain interface; other site 529120002054 interchain domain interface [polypeptide binding]; other site 529120002055 heme bH binding site [chemical binding]; other site 529120002056 heme bL binding site [chemical binding]; other site 529120002057 Qo binding site; other site 529120002058 interchain domain interface [polypeptide binding]; other site 529120002059 intrachain domain interface; other site 529120002060 Qi binding site; other site 529120002061 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 529120002062 Qo binding site; other site 529120002063 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 529120002064 stringent starvation protein A; Provisional; Region: sspA; PRK09481 529120002065 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 529120002066 C-terminal domain interface [polypeptide binding]; other site 529120002067 putative GSH binding site (G-site) [chemical binding]; other site 529120002068 dimer interface [polypeptide binding]; other site 529120002069 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 529120002070 dimer interface [polypeptide binding]; other site 529120002071 N-terminal domain interface [polypeptide binding]; other site 529120002072 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 529120002073 Spondin_N; Region: Spond_N; pfam06468 529120002074 Spondin_N; Region: Spond_N; pfam06468 529120002075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 529120002076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120002077 active site 529120002078 phosphorylation site [posttranslational modification] 529120002079 intermolecular recognition site; other site 529120002080 dimerization interface [polypeptide binding]; other site 529120002081 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 529120002082 DNA binding site [nucleotide binding] 529120002083 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 529120002084 MgtE intracellular N domain; Region: MgtE_N; smart00924 529120002085 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 529120002086 Divalent cation transporter; Region: MgtE; pfam01769 529120002087 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 529120002088 dimerization domain swap beta strand [polypeptide binding]; other site 529120002089 regulatory protein interface [polypeptide binding]; other site 529120002090 active site 529120002091 regulatory phosphorylation site [posttranslational modification]; other site 529120002092 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 529120002093 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 529120002094 active site 529120002095 phosphorylation site [posttranslational modification] 529120002096 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 529120002097 30S subunit binding site; other site 529120002098 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 529120002099 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 529120002100 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 529120002101 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 529120002102 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 529120002103 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 529120002104 Walker A/P-loop; other site 529120002105 ATP binding site [chemical binding]; other site 529120002106 Q-loop/lid; other site 529120002107 ABC transporter signature motif; other site 529120002108 Walker B; other site 529120002109 D-loop; other site 529120002110 H-loop/switch region; other site 529120002111 OstA-like protein; Region: OstA; cl00844 529120002112 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 529120002113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 529120002114 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 529120002115 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 529120002116 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 529120002117 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 529120002118 putative active site [active] 529120002119 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 529120002120 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 529120002121 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 529120002122 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 529120002123 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 529120002124 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 529120002125 Walker A/P-loop; other site 529120002126 ATP binding site [chemical binding]; other site 529120002127 Q-loop/lid; other site 529120002128 ABC transporter signature motif; other site 529120002129 Walker B; other site 529120002130 D-loop; other site 529120002131 H-loop/switch region; other site 529120002132 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 529120002133 conserved hypothetical integral membrane protein; Region: TIGR00056 529120002134 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 529120002135 mce related protein; Region: MCE; pfam02470 529120002136 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 529120002137 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 529120002138 anti sigma factor interaction site; other site 529120002139 regulatory phosphorylation site [posttranslational modification]; other site 529120002140 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 529120002141 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 529120002142 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 529120002143 hinge; other site 529120002144 active site 529120002145 serine endoprotease; Provisional; Region: PRK10898 529120002146 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 529120002147 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 529120002148 protein binding site [polypeptide binding]; other site 529120002149 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 529120002150 Trypsin; Region: Trypsin; pfam00089 529120002151 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 529120002152 protein binding site [polypeptide binding]; other site 529120002153 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 529120002154 protein binding site [polypeptide binding]; other site 529120002155 Predicted ATPase [General function prediction only]; Region: COG1485 529120002156 hypothetical protein; Provisional; Region: PRK12378 529120002157 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 529120002158 heme-binding site [chemical binding]; other site 529120002159 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 529120002160 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 529120002161 dimer interface [polypeptide binding]; other site 529120002162 FMN binding site [chemical binding]; other site 529120002163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 529120002164 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 529120002165 Uncharacterized conserved protein [Function unknown]; Region: COG2308 529120002166 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 529120002167 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 529120002168 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 529120002169 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 529120002170 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 529120002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 529120002172 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 529120002173 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 529120002174 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 529120002175 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 529120002176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 529120002177 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 529120002178 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 529120002179 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 529120002180 Protein export membrane protein; Region: SecD_SecF; pfam02355 529120002181 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 529120002182 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 529120002183 TrkA-C domain; Region: TrkA_C; pfam02080 529120002184 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120002185 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 529120002186 EamA-like transporter family; Region: EamA; pfam00892 529120002187 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 529120002188 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 529120002189 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120002190 substrate binding pocket [chemical binding]; other site 529120002191 membrane-bound complex binding site; other site 529120002192 hinge residues; other site 529120002193 PAS fold; Region: PAS; pfam00989 529120002194 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 529120002195 putative active site [active] 529120002196 heme pocket [chemical binding]; other site 529120002197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120002198 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 529120002199 dimer interface [polypeptide binding]; other site 529120002200 phosphorylation site [posttranslational modification] 529120002201 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 529120002202 ATP binding site [chemical binding]; other site 529120002203 Mg2+ binding site [ion binding]; other site 529120002204 G-X-G motif; other site 529120002205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002206 Response regulator receiver domain; Region: Response_reg; pfam00072 529120002207 active site 529120002208 phosphorylation site [posttranslational modification] 529120002209 intermolecular recognition site; other site 529120002210 dimerization interface [polypeptide binding]; other site 529120002211 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 529120002212 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 529120002213 putative ligand binding site [chemical binding]; other site 529120002214 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 529120002215 active site 529120002216 catalytic site [active] 529120002217 substrate binding site [chemical binding]; other site 529120002218 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 529120002219 S-adenosylmethionine synthetase; Validated; Region: PRK05250 529120002220 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 529120002221 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 529120002222 transketolase; Reviewed; Region: PRK12753 529120002223 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 529120002224 TPP-binding site [chemical binding]; other site 529120002225 dimer interface [polypeptide binding]; other site 529120002226 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 529120002227 PYR/PP interface [polypeptide binding]; other site 529120002228 dimer interface [polypeptide binding]; other site 529120002229 TPP binding site [chemical binding]; other site 529120002230 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 529120002231 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 529120002232 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 529120002233 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 529120002234 Phosphoglycerate kinase; Region: PGK; pfam00162 529120002235 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 529120002236 substrate binding site [chemical binding]; other site 529120002237 hinge regions; other site 529120002238 ADP binding site [chemical binding]; other site 529120002239 catalytic site [active] 529120002240 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 529120002241 catalytic residue [active] 529120002242 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 529120002243 putative metal dependent hydrolase; Provisional; Region: PRK11598 529120002244 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 529120002245 Sulfatase; Region: Sulfatase; pfam00884 529120002246 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120002247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002248 active site 529120002249 phosphorylation site [posttranslational modification] 529120002250 intermolecular recognition site; other site 529120002251 dimerization interface [polypeptide binding]; other site 529120002252 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 529120002253 DNA binding site [nucleotide binding] 529120002254 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120002255 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 529120002256 dimer interface [polypeptide binding]; other site 529120002257 phosphorylation site [posttranslational modification] 529120002258 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 529120002259 ATP binding site [chemical binding]; other site 529120002260 Mg2+ binding site [ion binding]; other site 529120002261 G-X-G motif; other site 529120002262 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120002263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120002264 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120002265 potential frameshift: common BLAST hit: gi|253997659|ref|YP_003049723.1| hydrophobe/amphiphile efflux-1 (HAE1) family transporter 529120002266 potential frameshift: common BLAST hit: gi|253997659|ref|YP_003049723.1| hydrophobe/amphiphile efflux-1 (HAE1) family transporter 529120002267 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 529120002268 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 529120002269 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120002270 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120002271 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120002272 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 529120002273 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120002274 substrate binding pocket [chemical binding]; other site 529120002275 membrane-bound complex binding site; other site 529120002276 hinge residues; other site 529120002277 exopolyphosphatase; Provisional; Region: PRK10854 529120002278 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 529120002279 nucleotide binding site [chemical binding]; other site 529120002280 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 529120002281 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 529120002282 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 529120002283 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 529120002284 domain interface [polypeptide binding]; other site 529120002285 active site 529120002286 catalytic site [active] 529120002287 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 529120002288 domain interface [polypeptide binding]; other site 529120002289 active site 529120002290 catalytic site [active] 529120002291 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 529120002292 ACT domain; Region: ACT_6; pfam13740 529120002293 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 529120002294 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 529120002295 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 529120002296 dimer interface [polypeptide binding]; other site 529120002297 conserved gate region; other site 529120002298 putative PBP binding loops; other site 529120002299 ABC-ATPase subunit interface; other site 529120002300 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 529120002301 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 529120002302 dimer interface [polypeptide binding]; other site 529120002303 conserved gate region; other site 529120002304 putative PBP binding loops; other site 529120002305 ABC-ATPase subunit interface; other site 529120002306 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 529120002307 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 529120002308 Walker A/P-loop; other site 529120002309 ATP binding site [chemical binding]; other site 529120002310 Q-loop/lid; other site 529120002311 ABC transporter signature motif; other site 529120002312 Walker B; other site 529120002313 D-loop; other site 529120002314 H-loop/switch region; other site 529120002315 transcriptional regulator PhoU; Provisional; Region: PRK11115 529120002316 PhoU domain; Region: PhoU; pfam01895 529120002317 PhoU domain; Region: PhoU; pfam01895 529120002318 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 529120002319 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 529120002320 universal stress protein UspE; Provisional; Region: PRK11175 529120002321 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 529120002322 Ligand Binding Site [chemical binding]; other site 529120002323 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 529120002324 Ligand Binding Site [chemical binding]; other site 529120002325 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 529120002326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120002327 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 529120002328 dimerization interface [polypeptide binding]; other site 529120002329 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 529120002330 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120002331 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 529120002332 DNA binding residues [nucleotide binding] 529120002333 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 529120002334 Haemolysin-III related; Region: HlyIII; cl03831 529120002335 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 529120002336 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 529120002337 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 529120002338 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 529120002339 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 529120002340 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 529120002341 active site 529120002342 Zn binding site [ion binding]; other site 529120002343 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 529120002344 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 529120002345 putative catalytic residues [active] 529120002346 hypothetical protein; Provisional; Region: PRK11568 529120002347 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 529120002348 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 529120002349 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120002350 PAS domain; Region: PAS_9; pfam13426 529120002351 PAS domain; Region: PAS_9; pfam13426 529120002352 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 529120002353 putative active site [active] 529120002354 heme pocket [chemical binding]; other site 529120002355 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120002356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120002357 dimer interface [polypeptide binding]; other site 529120002358 putative CheW interface [polypeptide binding]; other site 529120002359 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 529120002360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120002361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120002362 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 529120002363 putative effector binding pocket; other site 529120002364 dimerization interface [polypeptide binding]; other site 529120002365 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 529120002366 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120002367 active site 529120002368 catalytic tetrad [active] 529120002369 exonuclease subunit SbcD; Provisional; Region: PRK10966 529120002370 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 529120002371 active site 529120002372 metal binding site [ion binding]; metal-binding site 529120002373 DNA binding site [nucleotide binding] 529120002374 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 529120002375 exonuclease subunit SbcC; Provisional; Region: PRK10246 529120002376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120002377 Walker A/P-loop; other site 529120002378 ATP binding site [chemical binding]; other site 529120002379 Q-loop/lid; other site 529120002380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120002381 ABC transporter signature motif; other site 529120002382 Walker B; other site 529120002383 D-loop; other site 529120002384 H-loop/switch region; other site 529120002385 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 529120002386 Active site serine [active] 529120002387 Predicted membrane protein [Function unknown]; Region: COG2246 529120002388 GtrA-like protein; Region: GtrA; pfam04138 529120002389 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 529120002390 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 529120002391 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 529120002392 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 529120002393 Ligand binding site; other site 529120002394 Putative Catalytic site; other site 529120002395 DXD motif; other site 529120002396 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120002397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002398 active site 529120002399 phosphorylation site [posttranslational modification] 529120002400 intermolecular recognition site; other site 529120002401 dimerization interface [polypeptide binding]; other site 529120002402 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 529120002403 DNA binding site [nucleotide binding] 529120002404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120002405 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 529120002406 dimer interface [polypeptide binding]; other site 529120002407 phosphorylation site [posttranslational modification] 529120002408 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 529120002409 ATP binding site [chemical binding]; other site 529120002410 Mg2+ binding site [ion binding]; other site 529120002411 G-X-G motif; other site 529120002412 serine/threonine transporter SstT; Provisional; Region: PRK13628 529120002413 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 529120002414 formimidoylglutamase; Provisional; Region: PRK13775 529120002415 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 529120002416 putative active site [active] 529120002417 putative metal binding site [ion binding]; other site 529120002418 imidazolonepropionase; Validated; Region: PRK09356 529120002419 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 529120002420 active site 529120002421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120002422 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 529120002423 DNA-binding site [nucleotide binding]; DNA binding site 529120002424 UTRA domain; Region: UTRA; pfam07702 529120002425 urocanate hydratase; Provisional; Region: PRK05414 529120002426 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 529120002427 active sites [active] 529120002428 tetramer interface [polypeptide binding]; other site 529120002429 CreA protein; Region: CreA; pfam05981 529120002430 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 529120002431 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 529120002432 Zn binding site [ion binding]; other site 529120002433 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120002434 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120002435 Amb_all domain; Region: Amb_all; smart00656 529120002436 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 529120002437 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 529120002438 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 529120002439 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 529120002440 active site 529120002441 Int/Topo IB signature motif; other site 529120002442 DNA binding site [nucleotide binding] 529120002443 LemA family; Region: LemA; cl00742 529120002444 AAA domain; Region: AAA_25; pfam13481 529120002445 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 529120002446 Walker A motif; other site 529120002447 ATP binding site [chemical binding]; other site 529120002448 Walker B motif; other site 529120002449 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 529120002450 PLD-like domain; Region: PLDc_2; pfam13091 529120002451 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 529120002452 HsdM N-terminal domain; Region: HsdM_N; pfam12161 529120002453 Methyltransferase domain; Region: Methyltransf_26; pfam13659 529120002454 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 529120002455 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 529120002456 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 529120002457 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 529120002458 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 529120002459 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 529120002460 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 529120002461 active site 529120002462 catalytic residues [active] 529120002463 DNA binding site [nucleotide binding] 529120002464 Int/Topo IB signature motif; other site 529120002465 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 529120002466 LVIVD repeat; Region: LVIVD; pfam08309 529120002467 Calx-beta domain; Region: Calx-beta; cl02522 529120002468 Domains in Na-Ca exchangers and integrin-beta4; Region: Calx_beta; smart00237 529120002469 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 529120002470 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 529120002471 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 529120002472 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 529120002473 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120002474 LytTr DNA-binding domain; Region: LytTR; smart00850 529120002475 LrgA family; Region: LrgA; cl00608 529120002476 LrgB-like family; Region: LrgB; pfam04172 529120002477 Response regulator receiver domain; Region: Response_reg; pfam00072 529120002478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002479 active site 529120002480 phosphorylation site [posttranslational modification] 529120002481 intermolecular recognition site; other site 529120002482 dimerization interface [polypeptide binding]; other site 529120002483 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 529120002484 PAS domain; Region: PAS; smart00091 529120002485 PAS fold; Region: PAS_4; pfam08448 529120002486 putative active site [active] 529120002487 heme pocket [chemical binding]; other site 529120002488 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 529120002489 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 529120002490 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 529120002491 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 529120002492 HemN family oxidoreductase; Provisional; Region: PRK05660 529120002493 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 529120002494 FeS/SAM binding site; other site 529120002495 HemN C-terminal domain; Region: HemN_C; pfam06969 529120002496 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 529120002497 active site 529120002498 dimerization interface [polypeptide binding]; other site 529120002499 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 529120002500 DEAD-like helicases superfamily; Region: DEXDc; smart00487 529120002501 ATP binding site [chemical binding]; other site 529120002502 Mg++ binding site [ion binding]; other site 529120002503 motif III; other site 529120002504 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 529120002505 nucleotide binding region [chemical binding]; other site 529120002506 ATP-binding site [chemical binding]; other site 529120002507 FOG: WD40 repeat [General function prediction only]; Region: COG2319 529120002508 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 529120002509 structural tetrad; other site 529120002510 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 529120002511 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 529120002512 active site 529120002513 NTP binding site [chemical binding]; other site 529120002514 metal binding triad [ion binding]; metal-binding site 529120002515 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 529120002516 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 529120002517 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 529120002518 Walker A motif; other site 529120002519 ATP binding site [chemical binding]; other site 529120002520 Walker B motif; other site 529120002521 arginine finger; other site 529120002522 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 529120002523 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 529120002524 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 529120002525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120002526 Zn2+ binding site [ion binding]; other site 529120002527 Mg2+ binding site [ion binding]; other site 529120002528 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 529120002529 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 529120002530 substrate binding site [chemical binding]; other site 529120002531 potential frameshift: common BLAST hit: gi|332140345|ref|YP_004426083.1| isopropylmalate isomerase large subunit 529120002532 tartrate dehydrogenase; Region: TTC; TIGR02089 529120002533 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 529120002534 2-isopropylmalate synthase; Validated; Region: PRK00915 529120002535 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 529120002536 active site 529120002537 catalytic residues [active] 529120002538 metal binding site [ion binding]; metal-binding site 529120002539 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 529120002540 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 529120002541 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 529120002542 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120002543 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 529120002544 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 529120002545 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 529120002546 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 529120002547 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 529120002548 Cupin domain; Region: Cupin_2; pfam07883 529120002549 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 529120002550 Major Facilitator Superfamily; Region: MFS_1; pfam07690 529120002551 putative substrate translocation pore; other site 529120002552 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 529120002553 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 529120002554 substrate binding site [chemical binding]; other site 529120002555 ATP binding site [chemical binding]; other site 529120002556 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 529120002557 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 529120002558 active site 529120002559 intersubunit interface [polypeptide binding]; other site 529120002560 catalytic residue [active] 529120002561 Transcriptional regulators [Transcription]; Region: FadR; COG2186 529120002562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120002563 DNA-binding site [nucleotide binding]; DNA binding site 529120002564 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 529120002565 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 529120002566 sugar binding site [chemical binding]; other site 529120002567 Alginate lyase; Region: Alginate_lyase2; pfam08787 529120002568 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120002569 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 529120002570 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 529120002571 Alginate lyase; Region: Alginate_lyase2; pfam08787 529120002572 enolase; Provisional; Region: eno; PRK00077 529120002573 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 529120002574 dimer interface [polypeptide binding]; other site 529120002575 metal binding site [ion binding]; metal-binding site 529120002576 substrate binding pocket [chemical binding]; other site 529120002577 CTP synthetase; Validated; Region: pyrG; PRK05380 529120002578 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 529120002579 Catalytic site [active] 529120002580 active site 529120002581 UTP binding site [chemical binding]; other site 529120002582 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 529120002583 active site 529120002584 putative oxyanion hole; other site 529120002585 catalytic triad [active] 529120002586 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 529120002587 MutS domain I; Region: MutS_I; pfam01624 529120002588 MutS domain II; Region: MutS_II; pfam05188 529120002589 MutS domain III; Region: MutS_III; pfam05192 529120002590 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 529120002591 Walker A/P-loop; other site 529120002592 ATP binding site [chemical binding]; other site 529120002593 Q-loop/lid; other site 529120002594 ABC transporter signature motif; other site 529120002595 Walker B; other site 529120002596 D-loop; other site 529120002597 H-loop/switch region; other site 529120002598 Competence-damaged protein; Region: CinA; pfam02464 529120002599 recombinase A; Provisional; Region: recA; PRK09354 529120002600 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 529120002601 hexamer interface [polypeptide binding]; other site 529120002602 Walker A motif; other site 529120002603 ATP binding site [chemical binding]; other site 529120002604 Walker B motif; other site 529120002605 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 529120002606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120002607 Walker A/P-loop; other site 529120002608 ATP binding site [chemical binding]; other site 529120002609 Q-loop/lid; other site 529120002610 ABC transporter signature motif; other site 529120002611 Walker B; other site 529120002612 D-loop; other site 529120002613 H-loop/switch region; other site 529120002614 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 529120002615 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 529120002616 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 529120002617 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 529120002618 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 529120002619 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 529120002620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120002621 Walker A/P-loop; other site 529120002622 ATP binding site [chemical binding]; other site 529120002623 Q-loop/lid; other site 529120002624 ABC transporter signature motif; other site 529120002625 Walker B; other site 529120002626 D-loop; other site 529120002627 H-loop/switch region; other site 529120002628 heme exporter protein CcmB; Region: ccmB; TIGR01190 529120002629 heme exporter protein CcmC; Region: ccmC; TIGR01191 529120002630 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 529120002631 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 529120002632 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 529120002633 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120002634 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 529120002635 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 529120002636 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 529120002637 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 529120002638 TPR motif; other site 529120002639 binding surface 529120002640 VacJ like lipoprotein; Region: VacJ; cl01073 529120002641 UDP-glucose 4-epimerase; Region: PLN02240 529120002642 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 529120002643 NAD binding site [chemical binding]; other site 529120002644 homodimer interface [polypeptide binding]; other site 529120002645 active site 529120002646 substrate binding site [chemical binding]; other site 529120002647 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 529120002648 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 529120002649 putative substrate translocation pore; other site 529120002650 POT family; Region: PTR2; cl17359 529120002651 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 529120002652 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 529120002653 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 529120002654 Walker A/P-loop; other site 529120002655 ATP binding site [chemical binding]; other site 529120002656 Q-loop/lid; other site 529120002657 ABC transporter signature motif; other site 529120002658 Walker B; other site 529120002659 D-loop; other site 529120002660 H-loop/switch region; other site 529120002661 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 529120002662 ABC-2 type transporter; Region: ABC2_membrane; cl17235 529120002663 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 529120002664 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 529120002665 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 529120002666 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 529120002667 Mg++ binding site [ion binding]; other site 529120002668 putative catalytic motif [active] 529120002669 substrate binding site [chemical binding]; other site 529120002670 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 529120002671 active site 529120002672 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120002673 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 529120002674 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 529120002675 Ligand binding site; other site 529120002676 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 529120002677 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 529120002678 active site 529120002679 tetramer interface; other site 529120002680 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 529120002681 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 529120002682 tartrate dehydrogenase; Region: TTC; TIGR02089 529120002683 isocitrate dehydrogenase; Provisional; Region: PRK08997 529120002684 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 529120002685 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 529120002686 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 529120002687 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120002688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120002689 metal binding site [ion binding]; metal-binding site 529120002690 active site 529120002691 I-site; other site 529120002692 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 529120002693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 529120002694 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 529120002695 SecY interacting protein Syd; Provisional; Region: PRK04968 529120002696 hypothetical protein; Provisional; Region: PRK11239 529120002697 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 529120002698 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 529120002699 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 529120002700 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 529120002701 tRNA pseudouridine synthase C; Region: DUF446; cl01187 529120002702 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 529120002703 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 529120002704 probable active site [active] 529120002705 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120002706 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 529120002707 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 529120002708 trimer interface [polypeptide binding]; other site 529120002709 active site 529120002710 substrate binding site [chemical binding]; other site 529120002711 CoA binding site [chemical binding]; other site 529120002712 PII uridylyl-transferase; Provisional; Region: PRK05007 529120002713 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 529120002714 metal binding triad; other site 529120002715 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 529120002716 HD domain; Region: HD; pfam01966 529120002717 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 529120002718 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 529120002719 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 529120002720 active site 529120002721 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 529120002722 rRNA interaction site [nucleotide binding]; other site 529120002723 S8 interaction site; other site 529120002724 putative laminin-1 binding site; other site 529120002725 elongation factor Ts; Provisional; Region: tsf; PRK09377 529120002726 UBA/TS-N domain; Region: UBA; pfam00627 529120002727 Elongation factor TS; Region: EF_TS; pfam00889 529120002728 Elongation factor TS; Region: EF_TS; pfam00889 529120002729 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 529120002730 putative nucleotide binding site [chemical binding]; other site 529120002731 uridine monophosphate binding site [chemical binding]; other site 529120002732 homohexameric interface [polypeptide binding]; other site 529120002733 ribosome recycling factor; Reviewed; Region: frr; PRK00083 529120002734 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 529120002735 hinge region; other site 529120002736 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 529120002737 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 529120002738 catalytic residue [active] 529120002739 putative FPP diphosphate binding site; other site 529120002740 putative FPP binding hydrophobic cleft; other site 529120002741 dimer interface [polypeptide binding]; other site 529120002742 putative IPP diphosphate binding site; other site 529120002743 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 529120002744 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 529120002745 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 529120002746 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 529120002747 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 529120002748 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 529120002749 zinc metallopeptidase RseP; Provisional; Region: PRK10779 529120002750 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 529120002751 active site 529120002752 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 529120002753 protein binding site [polypeptide binding]; other site 529120002754 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 529120002755 protein binding site [polypeptide binding]; other site 529120002756 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 529120002757 putative substrate binding region [chemical binding]; other site 529120002758 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 529120002759 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 529120002760 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 529120002761 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 529120002762 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 529120002763 Surface antigen; Region: Bac_surface_Ag; pfam01103 529120002764 periplasmic chaperone; Provisional; Region: PRK10780 529120002765 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 529120002766 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 529120002767 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 529120002768 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 529120002769 active site 529120002770 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 529120002771 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 529120002772 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 529120002773 RNA/DNA hybrid binding site [nucleotide binding]; other site 529120002774 active site 529120002775 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 529120002776 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 529120002777 putative active site [active] 529120002778 putative PHP Thumb interface [polypeptide binding]; other site 529120002779 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 529120002780 generic binding surface I; other site 529120002781 generic binding surface II; other site 529120002782 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 529120002783 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 529120002784 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 529120002785 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 529120002786 Ligand Binding Site [chemical binding]; other site 529120002787 TilS substrate binding domain; Region: TilS; pfam09179 529120002788 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 529120002789 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120002790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120002791 metal binding site [ion binding]; metal-binding site 529120002792 active site 529120002793 I-site; other site 529120002794 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 529120002795 putative cation:proton antiport protein; Provisional; Region: PRK10669 529120002796 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 529120002797 TrkA-N domain; Region: TrkA_N; pfam02254 529120002798 TrkA-C domain; Region: TrkA_C; pfam02080 529120002799 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 529120002800 nucleoside/Zn binding site; other site 529120002801 dimer interface [polypeptide binding]; other site 529120002802 catalytic motif [active] 529120002803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120002804 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 529120002805 substrate binding pocket [chemical binding]; other site 529120002806 membrane-bound complex binding site; other site 529120002807 hinge residues; other site 529120002808 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 529120002809 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 529120002810 N-acetyl-D-glucosamine binding site [chemical binding]; other site 529120002811 catalytic residue [active] 529120002812 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 529120002813 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 529120002814 dimerization interface [polypeptide binding]; other site 529120002815 ATP binding site [chemical binding]; other site 529120002816 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 529120002817 dimerization interface [polypeptide binding]; other site 529120002818 ATP binding site [chemical binding]; other site 529120002819 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 529120002820 putative active site [active] 529120002821 catalytic triad [active] 529120002822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 529120002823 Smr domain; Region: Smr; pfam01713 529120002824 ribonuclease PH; Reviewed; Region: rph; PRK00173 529120002825 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002826 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002827 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002828 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 529120002829 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002830 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002831 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002832 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 529120002833 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002834 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002835 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 529120002836 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002837 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002838 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002839 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002840 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 529120002841 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 529120002842 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 529120002843 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120002844 ligand binding site [chemical binding]; other site 529120002845 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 529120002846 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 529120002847 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120002848 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 529120002849 Walker A/P-loop; other site 529120002850 ATP binding site [chemical binding]; other site 529120002851 Q-loop/lid; other site 529120002852 ABC transporter signature motif; other site 529120002853 Walker B; other site 529120002854 D-loop; other site 529120002855 H-loop/switch region; other site 529120002856 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 529120002857 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120002858 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120002859 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120002860 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 529120002861 DNA binding residues [nucleotide binding] 529120002862 dimerization interface [polypeptide binding]; other site 529120002863 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 529120002864 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 529120002865 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 529120002866 LPP20 lipoprotein; Region: LPP20; pfam02169 529120002867 FlgN protein; Region: FlgN; pfam05130 529120002868 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 529120002869 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 529120002870 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 529120002871 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 529120002872 Response regulator receiver domain; Region: Response_reg; pfam00072 529120002873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002874 active site 529120002875 phosphorylation site [posttranslational modification] 529120002876 intermolecular recognition site; other site 529120002877 dimerization interface [polypeptide binding]; other site 529120002878 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 529120002879 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 529120002880 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 529120002881 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 529120002882 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 529120002883 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 529120002884 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 529120002885 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 529120002886 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 529120002887 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 529120002888 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 529120002889 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 529120002890 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 529120002891 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 529120002892 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 529120002893 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 529120002894 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 529120002895 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 529120002896 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 529120002897 Flagellar L-ring protein; Region: FlgH; pfam02107 529120002898 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 529120002899 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 529120002900 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 529120002901 Rod binding protein; Region: Rod-binding; cl01626 529120002902 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 529120002903 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 529120002904 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 529120002905 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 529120002906 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 529120002907 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 529120002908 flagellin; Provisional; Region: PRK12802 529120002909 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 529120002910 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 529120002911 flagellin; Provisional; Region: PRK12802 529120002912 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 529120002913 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 529120002914 FlaG protein; Region: FlaG; pfam03646 529120002915 flagellar capping protein; Reviewed; Region: fliD; PRK08032 529120002916 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 529120002917 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 529120002918 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 529120002919 flagellar protein FliS; Validated; Region: fliS; PRK05685 529120002920 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 529120002921 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120002922 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 529120002923 active site 529120002924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 529120002925 Methyltransferase domain; Region: Methyltransf_24; pfam13578 529120002926 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 529120002927 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120002928 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 529120002929 S-adenosylmethionine binding site [chemical binding]; other site 529120002930 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 529120002931 sulfotransferase; Region: PLN02164 529120002932 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 529120002933 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 529120002934 Ligand binding site; other site 529120002935 metal-binding site 529120002936 Methyltransferase domain; Region: Methyltransf_23; pfam13489 529120002937 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 529120002938 S-adenosylmethionine binding site [chemical binding]; other site 529120002939 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 529120002940 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 529120002941 inhibitor-cofactor binding pocket; inhibition site 529120002942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120002943 catalytic residue [active] 529120002944 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 529120002945 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 529120002946 NAD(P) binding site [chemical binding]; other site 529120002947 homodimer interface [polypeptide binding]; other site 529120002948 substrate binding site [chemical binding]; other site 529120002949 active site 529120002950 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 529120002951 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 529120002952 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 529120002953 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120002954 LicD family; Region: LicD; pfam04991 529120002955 pseudaminic acid synthase; Region: PseI; TIGR03586 529120002956 NeuB family; Region: NeuB; pfam03102 529120002957 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 529120002958 NeuB binding interface [polypeptide binding]; other site 529120002959 putative substrate binding site [chemical binding]; other site 529120002960 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 529120002961 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 529120002962 ligand binding site; other site 529120002963 tetramer interface; other site 529120002964 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 529120002965 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 529120002966 active site 529120002967 nucleotide binding site [chemical binding]; other site 529120002968 HIGH motif; other site 529120002969 KMSKS motif; other site 529120002970 flagellin; Provisional; Region: PRK12802 529120002971 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 529120002972 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 529120002973 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 529120002974 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 529120002975 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 529120002976 Walker A motif; other site 529120002977 ATP binding site [chemical binding]; other site 529120002978 Walker B motif; other site 529120002979 arginine finger; other site 529120002980 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 529120002981 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 529120002982 PAS domain; Region: PAS_8; pfam13188 529120002983 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 529120002984 dimer interface [polypeptide binding]; other site 529120002985 phosphorylation site [posttranslational modification] 529120002986 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 529120002987 ATP binding site [chemical binding]; other site 529120002988 Mg2+ binding site [ion binding]; other site 529120002989 G-X-G motif; other site 529120002990 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 529120002991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120002992 active site 529120002993 phosphorylation site [posttranslational modification] 529120002994 intermolecular recognition site; other site 529120002995 dimerization interface [polypeptide binding]; other site 529120002996 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 529120002997 Walker A motif; other site 529120002998 ATP binding site [chemical binding]; other site 529120002999 Walker B motif; other site 529120003000 arginine finger; other site 529120003001 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 529120003002 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 529120003003 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 529120003004 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 529120003005 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 529120003006 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 529120003007 MgtE intracellular N domain; Region: MgtE_N; smart00924 529120003008 FliG C-terminal domain; Region: FliG_C; pfam01706 529120003009 flagellar assembly protein H; Validated; Region: fliH; PRK05687 529120003010 Flagellar assembly protein FliH; Region: FliH; pfam02108 529120003011 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 529120003012 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 529120003013 Walker A motif/ATP binding site; other site 529120003014 Walker B motif; other site 529120003015 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 529120003016 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 529120003017 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 529120003018 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 529120003019 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 529120003020 flagellar motor switch protein; Validated; Region: fliN; PRK08983 529120003021 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 529120003022 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 529120003023 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 529120003024 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 529120003025 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 529120003026 Phosphate transporter family; Region: PHO4; cl00396 529120003027 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 529120003028 Peptidase M15; Region: Peptidase_M15_3; cl01194 529120003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 529120003030 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 529120003031 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 529120003032 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 529120003033 FHIPEP family; Region: FHIPEP; pfam00771 529120003034 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 529120003035 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 529120003036 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 529120003037 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 529120003038 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 529120003039 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 529120003040 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120003041 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 529120003042 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 529120003043 DNA binding residues [nucleotide binding] 529120003044 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 529120003045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003046 active site 529120003047 phosphorylation site [posttranslational modification] 529120003048 intermolecular recognition site; other site 529120003049 dimerization interface [polypeptide binding]; other site 529120003050 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 529120003051 potential frameshift: common BLAST hit: gi|332140602|ref|YP_004426340.1| chemotaxis protein cheA 529120003052 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 529120003053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003054 active site 529120003055 phosphorylation site [posttranslational modification] 529120003056 intermolecular recognition site; other site 529120003057 dimerization interface [polypeptide binding]; other site 529120003058 CheB methylesterase; Region: CheB_methylest; pfam01339 529120003059 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 529120003060 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 529120003061 Magnesium ion binding site [ion binding]; other site 529120003062 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 529120003063 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 529120003064 putative CheA interaction surface; other site 529120003065 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 529120003066 homoserine O-succinyltransferase; Provisional; Region: PRK05368 529120003067 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 529120003068 proposed active site lysine [active] 529120003069 conserved cys residue [active] 529120003070 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 529120003071 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 529120003072 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 529120003073 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 529120003074 substrate binding pocket [chemical binding]; other site 529120003075 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 529120003076 B12 binding site [chemical binding]; other site 529120003077 cobalt ligand [ion binding]; other site 529120003078 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 529120003079 Protein of unknown function (DUF938); Region: DUF938; pfam06080 529120003080 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 529120003081 Cache domain; Region: Cache_1; pfam02743 529120003082 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 529120003083 dimerization interface [polypeptide binding]; other site 529120003084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120003085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120003086 dimer interface [polypeptide binding]; other site 529120003087 putative CheW interface [polypeptide binding]; other site 529120003088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120003089 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 529120003090 putative dimerization interface [polypeptide binding]; other site 529120003091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120003092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120003093 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 529120003094 dimerization interface [polypeptide binding]; other site 529120003095 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 529120003096 active site clefts [active] 529120003097 zinc binding site [ion binding]; other site 529120003098 dimer interface [polypeptide binding]; other site 529120003099 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 529120003100 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 529120003101 Sulfate transporter family; Region: Sulfate_transp; pfam00916 529120003102 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 529120003103 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120003104 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 529120003105 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 529120003106 transcriptional regulator BetI; Validated; Region: PRK00767 529120003107 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120003108 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 529120003109 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 529120003110 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 529120003111 active site 529120003112 Zn binding site [ion binding]; other site 529120003113 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 529120003114 Protein of unknown function, DUF482; Region: DUF482; pfam04339 529120003115 recombination regulator RecX; Reviewed; Region: recX; PRK00117 529120003116 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 529120003117 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 529120003118 motif 1; other site 529120003119 active site 529120003120 motif 2; other site 529120003121 motif 3; other site 529120003122 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 529120003123 DHHA1 domain; Region: DHHA1; pfam02272 529120003124 carbon storage regulator; Provisional; Region: PRK01712 529120003125 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 529120003126 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 529120003127 oxaloacetate decarboxylase; Provisional; Region: PRK14040 529120003128 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 529120003129 active site 529120003130 catalytic residues [active] 529120003131 metal binding site [ion binding]; metal-binding site 529120003132 homodimer binding site [polypeptide binding]; other site 529120003133 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 529120003134 carboxyltransferase (CT) interaction site; other site 529120003135 biotinylation site [posttranslational modification]; other site 529120003136 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 529120003137 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 529120003138 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 529120003139 Walker A/P-loop; other site 529120003140 ATP binding site [chemical binding]; other site 529120003141 Q-loop/lid; other site 529120003142 ABC transporter signature motif; other site 529120003143 Walker B; other site 529120003144 D-loop; other site 529120003145 H-loop/switch region; other site 529120003146 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 529120003147 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 529120003148 Walker A/P-loop; other site 529120003149 ATP binding site [chemical binding]; other site 529120003150 Q-loop/lid; other site 529120003151 ABC transporter signature motif; other site 529120003152 Walker B; other site 529120003153 D-loop; other site 529120003154 H-loop/switch region; other site 529120003155 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 529120003156 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 529120003157 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 529120003158 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 529120003159 dimer interface [polypeptide binding]; other site 529120003160 conserved gate region; other site 529120003161 putative PBP binding loops; other site 529120003162 ABC-ATPase subunit interface; other site 529120003163 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 529120003164 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 529120003165 dimer interface [polypeptide binding]; other site 529120003166 conserved gate region; other site 529120003167 putative PBP binding loops; other site 529120003168 ABC-ATPase subunit interface; other site 529120003169 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 529120003170 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 529120003171 peptide binding site [polypeptide binding]; other site 529120003172 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 529120003173 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 529120003174 Walker A motif; other site 529120003175 ATP binding site [chemical binding]; other site 529120003176 Walker B motif; other site 529120003177 arginine finger; other site 529120003178 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 529120003179 phage shock protein A; Region: phageshock_pspA; TIGR02977 529120003180 phage shock protein B; Provisional; Region: pspB; PRK09458 529120003181 phage shock protein C; Region: phageshock_pspC; TIGR02978 529120003182 PspC domain; Region: PspC; pfam04024 529120003183 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 529120003184 cofactor binding site; other site 529120003185 metal binding site [ion binding]; metal-binding site 529120003186 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 529120003187 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 529120003188 putative aromatic amino acid binding site; other site 529120003189 PAS domain; Region: PAS; smart00091 529120003190 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 529120003191 Walker A motif; other site 529120003192 ATP binding site [chemical binding]; other site 529120003193 Walker B motif; other site 529120003194 arginine finger; other site 529120003195 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 529120003196 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 529120003197 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 529120003198 maleylacetoacetate isomerase; Region: maiA; TIGR01262 529120003199 C-terminal domain interface [polypeptide binding]; other site 529120003200 GSH binding site (G-site) [chemical binding]; other site 529120003201 putative dimer interface [polypeptide binding]; other site 529120003202 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 529120003203 dimer interface [polypeptide binding]; other site 529120003204 N-terminal domain interface [polypeptide binding]; other site 529120003205 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 529120003206 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 529120003207 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 529120003208 putative DNA binding site [nucleotide binding]; other site 529120003209 putative Zn2+ binding site [ion binding]; other site 529120003210 AsnC family; Region: AsnC_trans_reg; pfam01037 529120003211 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 529120003212 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 529120003213 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 529120003214 NAD binding site [chemical binding]; other site 529120003215 Phe binding site; other site 529120003216 Late competence development protein ComFB; Region: ComFB; pfam10719 529120003217 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 529120003218 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 529120003219 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120003220 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 529120003221 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 529120003222 binding surface 529120003223 TPR motif; other site 529120003224 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 529120003225 binding surface 529120003226 TPR motif; other site 529120003227 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 529120003228 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 529120003229 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 529120003230 N-terminal plug; other site 529120003231 ligand-binding site [chemical binding]; other site 529120003232 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120003233 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 529120003234 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 529120003235 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 529120003236 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 529120003237 binding surface 529120003238 TPR motif; other site 529120003239 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 529120003240 TPR motif; other site 529120003241 binding surface 529120003242 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 529120003243 binding surface 529120003244 TPR motif; other site 529120003245 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 529120003246 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 529120003247 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 529120003248 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 529120003249 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 529120003250 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 529120003251 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 529120003252 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120003253 TPR repeat; Region: TPR_11; pfam13414 529120003254 TPR repeat; Region: TPR_11; pfam13414 529120003255 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 529120003256 binding surface 529120003257 TPR motif; other site 529120003258 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 529120003259 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 529120003260 Helicase; Region: Helicase_RecD; pfam05127 529120003261 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 529120003262 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 529120003263 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120003264 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 529120003265 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 529120003266 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 529120003267 active site 529120003268 ATP binding site [chemical binding]; other site 529120003269 substrate binding site [chemical binding]; other site 529120003270 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 529120003271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120003272 Coenzyme A binding pocket [chemical binding]; other site 529120003273 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 529120003274 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 529120003275 EamA-like transporter family; Region: EamA; pfam00892 529120003276 EamA-like transporter family; Region: EamA; pfam00892 529120003277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120003278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120003279 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 529120003280 dimerization interface [polypeptide binding]; other site 529120003281 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 529120003282 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 529120003283 putative substrate translocation pore; other site 529120003284 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 529120003285 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 529120003286 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 529120003287 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120003288 active site 529120003289 catalytic tetrad [active] 529120003290 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 529120003291 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 529120003292 NAD(P) binding site [chemical binding]; other site 529120003293 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 529120003294 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 529120003295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120003296 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120003297 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 529120003298 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 529120003299 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 529120003300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003301 active site 529120003302 phosphorylation site [posttranslational modification] 529120003303 intermolecular recognition site; other site 529120003304 dimerization interface [polypeptide binding]; other site 529120003305 LytTr DNA-binding domain; Region: LytTR; pfam04397 529120003306 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 529120003307 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 529120003308 GAF domain; Region: GAF; pfam01590 529120003309 Histidine kinase; Region: His_kinase; pfam06580 529120003310 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 529120003311 ATP binding site [chemical binding]; other site 529120003312 Mg2+ binding site [ion binding]; other site 529120003313 G-X-G motif; other site 529120003314 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 529120003315 Carbon starvation protein CstA; Region: CstA; pfam02554 529120003316 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 529120003317 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 529120003318 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 529120003319 G1 box; other site 529120003320 putative GEF interaction site [polypeptide binding]; other site 529120003321 GTP/Mg2+ binding site [chemical binding]; other site 529120003322 Switch I region; other site 529120003323 G2 box; other site 529120003324 G3 box; other site 529120003325 Switch II region; other site 529120003326 G4 box; other site 529120003327 G5 box; other site 529120003328 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 529120003329 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 529120003330 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 529120003331 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 529120003332 active site 529120003333 HIGH motif; other site 529120003334 KMSK motif region; other site 529120003335 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 529120003336 tRNA binding surface [nucleotide binding]; other site 529120003337 anticodon binding site; other site 529120003338 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 529120003339 Predicted flavoprotein [General function prediction only]; Region: COG0431 529120003340 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 529120003341 TPR motif; other site 529120003342 TPR repeat; Region: TPR_11; pfam13414 529120003343 binding surface 529120003344 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 529120003345 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 529120003346 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 529120003347 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 529120003348 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 529120003349 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 529120003350 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 529120003351 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 529120003352 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 529120003353 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 529120003354 dimer interface [polypeptide binding]; other site 529120003355 Trp docking motif [polypeptide binding]; other site 529120003356 active site 529120003357 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120003358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003359 active site 529120003360 phosphorylation site [posttranslational modification] 529120003361 intermolecular recognition site; other site 529120003362 dimerization interface [polypeptide binding]; other site 529120003363 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 529120003364 DNA binding residues [nucleotide binding] 529120003365 dimerization interface [polypeptide binding]; other site 529120003366 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 529120003367 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 529120003368 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 529120003369 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120003370 catalytic residue [active] 529120003371 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 529120003372 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 529120003373 Two component regulator propeller; Region: Reg_prop; pfam07494 529120003374 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 529120003375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003377 metal binding site [ion binding]; metal-binding site 529120003378 active site 529120003379 I-site; other site 529120003380 Protein of unknown function, DUF417; Region: DUF417; cl01162 529120003381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120003382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120003383 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 529120003384 putative effector binding pocket; other site 529120003385 dimerization interface [polypeptide binding]; other site 529120003386 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 529120003387 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 529120003388 NADP binding site [chemical binding]; other site 529120003389 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 529120003390 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 529120003391 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 529120003392 putative di-iron ligands [ion binding]; other site 529120003393 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 529120003394 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 529120003395 FAD binding pocket [chemical binding]; other site 529120003396 conserved FAD binding motif [chemical binding]; other site 529120003397 phosphate binding motif [ion binding]; other site 529120003398 beta-alpha-beta structure motif; other site 529120003399 NAD binding pocket [chemical binding]; other site 529120003400 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 529120003401 catalytic loop [active] 529120003402 iron binding site [ion binding]; other site 529120003403 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120003404 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 529120003405 FMN binding site [chemical binding]; other site 529120003406 active site 529120003407 substrate binding site [chemical binding]; other site 529120003408 catalytic residue [active] 529120003409 This domain is found in peptide chain release factors; Region: PCRF; smart00937 529120003410 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 529120003411 RF-1 domain; Region: RF-1; pfam00472 529120003412 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 529120003413 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 529120003414 dimer interface [polypeptide binding]; other site 529120003415 putative anticodon binding site; other site 529120003416 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 529120003417 motif 1; other site 529120003418 active site 529120003419 motif 2; other site 529120003420 motif 3; other site 529120003421 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 529120003422 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 529120003423 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 529120003424 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 529120003425 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 529120003426 active site 529120003427 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 529120003428 putative binding surface; other site 529120003429 active site 529120003430 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120003431 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120003432 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120003433 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120003434 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120003435 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120003436 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 529120003437 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 529120003438 N-acetyl-D-glucosamine binding site [chemical binding]; other site 529120003439 catalytic residue [active] 529120003440 hypothetical protein; Provisional; Region: PRK04946 529120003441 Smr domain; Region: Smr; pfam01713 529120003442 HemK family putative methylases; Region: hemK_fam; TIGR00536 529120003443 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 529120003444 S-adenosylmethionine binding site [chemical binding]; other site 529120003445 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 529120003446 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 529120003447 Tetramer interface [polypeptide binding]; other site 529120003448 active site 529120003449 FMN-binding site [chemical binding]; other site 529120003450 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 529120003451 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 529120003452 putative substrate translocation pore; other site 529120003453 SpoVR family protein; Provisional; Region: PRK11767 529120003454 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 529120003455 hypothetical protein; Provisional; Region: PRK05325 529120003456 PrkA family serine protein kinase; Provisional; Region: PRK15455 529120003457 AAA ATPase domain; Region: AAA_16; pfam13191 529120003458 Walker A motif; other site 529120003459 ATP binding site [chemical binding]; other site 529120003460 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 529120003461 superoxide dismutase; Provisional; Region: PRK10543 529120003462 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 529120003463 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 529120003464 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 529120003465 putative GSH binding site [chemical binding]; other site 529120003466 catalytic residues [active] 529120003467 potential frameshift: common BLAST hit: gi|332140715|ref|YP_004426453.1| putative TonB-dependent outer membrane receptor 529120003468 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 529120003469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120003470 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 529120003471 DNA binding residues [nucleotide binding] 529120003472 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 529120003473 FecR protein; Region: FecR; pfam04773 529120003474 Secretin and TonB N terminus short domain; Region: STN; smart00965 529120003475 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120003476 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 529120003477 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 529120003478 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 529120003479 peroxidase; Provisional; Region: PRK15000 529120003480 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 529120003481 dimer interface [polypeptide binding]; other site 529120003482 decamer (pentamer of dimers) interface [polypeptide binding]; other site 529120003483 catalytic triad [active] 529120003484 peroxidatic and resolving cysteines [active] 529120003485 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 529120003486 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 529120003487 dimer interface [polypeptide binding]; other site 529120003488 catalytic site [active] 529120003489 putative active site [active] 529120003490 putative substrate binding site [chemical binding]; other site 529120003491 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 529120003492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120003493 ligand binding site [chemical binding]; other site 529120003494 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 529120003495 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 529120003496 active site 529120003497 catalytic site [active] 529120003498 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120003499 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 529120003500 dimer interface [polypeptide binding]; other site 529120003501 active site 529120003502 metal binding site [ion binding]; metal-binding site 529120003503 glutathione binding site [chemical binding]; other site 529120003504 short chain dehydrogenase; Provisional; Region: PRK07326 529120003505 classical (c) SDRs; Region: SDR_c; cd05233 529120003506 NAD(P) binding site [chemical binding]; other site 529120003507 active site 529120003508 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 529120003509 DNA-binding site [nucleotide binding]; DNA binding site 529120003510 RNA-binding motif; other site 529120003511 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120003512 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 529120003513 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 529120003514 PA/protease or protease-like domain interface [polypeptide binding]; other site 529120003515 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 529120003516 Peptidase family M28; Region: Peptidase_M28; pfam04389 529120003517 metal binding site [ion binding]; metal-binding site 529120003518 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 529120003519 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 529120003520 minor groove reading motif; other site 529120003521 helix-hairpin-helix signature motif; other site 529120003522 substrate binding pocket [chemical binding]; other site 529120003523 active site 529120003524 electron transport complex RsxE subunit; Provisional; Region: PRK12405 529120003525 FMN-binding domain; Region: FMN_bind; cl01081 529120003526 FMN-binding domain; Region: FMN_bind; cl01081 529120003527 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 529120003528 SLBB domain; Region: SLBB; pfam10531 529120003529 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 529120003530 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 529120003531 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 529120003532 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 529120003533 excinuclease ABC subunit B; Provisional; Region: PRK05298 529120003534 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 529120003535 ATP binding site [chemical binding]; other site 529120003536 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 529120003537 nucleotide binding region [chemical binding]; other site 529120003538 ATP-binding site [chemical binding]; other site 529120003539 Ultra-violet resistance protein B; Region: UvrB; pfam12344 529120003540 UvrB/uvrC motif; Region: UVR; pfam02151 529120003541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120003542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120003543 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 529120003544 dimerization interface [polypeptide binding]; other site 529120003545 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 529120003546 Ligand Binding Site [chemical binding]; other site 529120003547 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 529120003548 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 529120003549 asparagine synthetase B; Provisional; Region: asnB; PRK09431 529120003550 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 529120003551 active site 529120003552 dimer interface [polypeptide binding]; other site 529120003553 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 529120003554 Ligand Binding Site [chemical binding]; other site 529120003555 Molecular Tunnel; other site 529120003556 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120003557 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 529120003558 PA/protease or protease-like domain interface [polypeptide binding]; other site 529120003559 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 529120003560 Peptidase family M28; Region: Peptidase_M28; pfam04389 529120003561 metal binding site [ion binding]; metal-binding site 529120003562 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 529120003563 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 529120003564 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 529120003565 TrkA-C domain; Region: TrkA_C; pfam02080 529120003566 TrkA-C domain; Region: TrkA_C; pfam02080 529120003567 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 529120003568 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 529120003569 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 529120003570 CysD dimerization site [polypeptide binding]; other site 529120003571 G1 box; other site 529120003572 putative GEF interaction site [polypeptide binding]; other site 529120003573 GTP/Mg2+ binding site [chemical binding]; other site 529120003574 Switch I region; other site 529120003575 G2 box; other site 529120003576 G3 box; other site 529120003577 Switch II region; other site 529120003578 G4 box; other site 529120003579 G5 box; other site 529120003580 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 529120003581 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 529120003582 potential frameshift: common BLAST hit: gi|332140748|ref|YP_004426486.1| putative PAP (3,5 adenosine diphosphate) 3 phosphatase 529120003583 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 529120003584 AAA domain; Region: AAA_18; pfam13238 529120003585 ligand-binding site [chemical binding]; other site 529120003586 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 529120003587 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 529120003588 Active Sites [active] 529120003589 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 529120003590 Na binding site [ion binding]; other site 529120003591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003593 metal binding site [ion binding]; metal-binding site 529120003594 active site 529120003595 I-site; other site 529120003596 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 529120003597 RNA polymerase sigma factor; Provisional; Region: PRK12517 529120003598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120003599 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 529120003600 DNA binding residues [nucleotide binding] 529120003601 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 529120003602 Oxygen tolerance; Region: BatD; pfam13584 529120003603 von Willebrand factor type A domain; Region: VWA_2; pfam13519 529120003604 metal ion-dependent adhesion site (MIDAS); other site 529120003605 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 529120003606 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 529120003607 TPR motif; other site 529120003608 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 529120003609 metal ion-dependent adhesion site (MIDAS); other site 529120003610 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 529120003611 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 529120003612 Protein of unknown function DUF58; Region: DUF58; pfam01882 529120003613 MoxR-like ATPases [General function prediction only]; Region: COG0714 529120003614 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 529120003615 Walker A motif; other site 529120003616 ATP binding site [chemical binding]; other site 529120003617 Walker B motif; other site 529120003618 arginine finger; other site 529120003619 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 529120003620 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 529120003621 dimer interface [polypeptide binding]; other site 529120003622 active site 529120003623 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 529120003624 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 529120003625 substrate binding site [chemical binding]; other site 529120003626 oxyanion hole (OAH) forming residues; other site 529120003627 trimer interface [polypeptide binding]; other site 529120003628 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 529120003629 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 529120003630 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 529120003631 PAS fold; Region: PAS_3; pfam08447 529120003632 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 529120003633 PAS domain; Region: PAS_9; pfam13426 529120003634 putative active site [active] 529120003635 heme pocket [chemical binding]; other site 529120003636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003638 metal binding site [ion binding]; metal-binding site 529120003639 active site 529120003640 I-site; other site 529120003641 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 529120003642 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 529120003643 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120003644 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120003645 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120003646 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 529120003647 catalytic core [active] 529120003648 Domain of unknown function DUF21; Region: DUF21; pfam01595 529120003649 hypothetical protein; Provisional; Region: PRK11573 529120003650 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 529120003651 Transporter associated domain; Region: CorC_HlyC; smart01091 529120003652 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 529120003653 signal recognition particle protein; Provisional; Region: PRK10867 529120003654 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 529120003655 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 529120003656 P loop; other site 529120003657 GTP binding site [chemical binding]; other site 529120003658 Signal peptide binding domain; Region: SRP_SPB; pfam02978 529120003659 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 529120003660 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 529120003661 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 529120003662 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120003663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120003664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120003665 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120003666 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 529120003667 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120003668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120003669 Walker A/P-loop; other site 529120003670 ATP binding site [chemical binding]; other site 529120003671 Q-loop/lid; other site 529120003672 ABC transporter signature motif; other site 529120003673 Walker B; other site 529120003674 D-loop; other site 529120003675 H-loop/switch region; other site 529120003676 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 529120003677 catalytic residues [active] 529120003678 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 529120003679 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 529120003680 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 529120003681 RimM N-terminal domain; Region: RimM; pfam01782 529120003682 PRC-barrel domain; Region: PRC; pfam05239 529120003683 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 529120003684 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 529120003685 Predicted membrane protein [Function unknown]; Region: COG2860 529120003686 UPF0126 domain; Region: UPF0126; pfam03458 529120003687 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 529120003688 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 529120003689 substrate binding site [chemical binding]; other site 529120003690 oxyanion hole (OAH) forming residues; other site 529120003691 trimer interface [polypeptide binding]; other site 529120003692 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 529120003693 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 529120003694 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 529120003695 Chorismate mutase type II; Region: CM_2; cl00693 529120003696 prephenate dehydrogenase; Validated; Region: PRK08507 529120003697 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 529120003698 Eukaryotic aspartyl protease; Region: Asp; pfam00026 529120003699 inhibitor binding site; inhibition site 529120003700 catalytic motif [active] 529120003701 catalytic residue [active] 529120003702 Active site flap [active] 529120003703 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 529120003704 active site 529120003705 SAM binding site [chemical binding]; other site 529120003706 homodimer interface [polypeptide binding]; other site 529120003707 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120003708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003710 metal binding site [ion binding]; metal-binding site 529120003711 active site 529120003712 I-site; other site 529120003713 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 529120003714 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 529120003715 Prephenate dehydratase; Region: PDT; pfam00800 529120003716 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 529120003717 putative L-Phe binding site [chemical binding]; other site 529120003718 Response regulator receiver domain; Region: Response_reg; pfam00072 529120003719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003720 active site 529120003721 phosphorylation site [posttranslational modification] 529120003722 intermolecular recognition site; other site 529120003723 dimerization interface [polypeptide binding]; other site 529120003724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003725 Response regulator receiver domain; Region: Response_reg; pfam00072 529120003726 active site 529120003727 phosphorylation site [posttranslational modification] 529120003728 intermolecular recognition site; other site 529120003729 dimerization interface [polypeptide binding]; other site 529120003730 translation initiation factor Sui1; Validated; Region: PRK06824 529120003731 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 529120003732 putative rRNA binding site [nucleotide binding]; other site 529120003733 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 529120003734 anti sigma factor interaction site; other site 529120003735 regulatory phosphorylation site [posttranslational modification]; other site 529120003736 Response regulator receiver domain; Region: Response_reg; pfam00072 529120003737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003738 active site 529120003739 phosphorylation site [posttranslational modification] 529120003740 intermolecular recognition site; other site 529120003741 dimerization interface [polypeptide binding]; other site 529120003742 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 529120003743 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 529120003744 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 529120003745 ATP binding site [chemical binding]; other site 529120003746 Mg2+ binding site [ion binding]; other site 529120003747 G-X-G motif; other site 529120003748 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 529120003749 putative metal binding site [ion binding]; other site 529120003750 HAMP domain; Region: HAMP; pfam00672 529120003751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003753 metal binding site [ion binding]; metal-binding site 529120003754 active site 529120003755 I-site; other site 529120003756 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 529120003757 EF-hand domain pair; Region: EF_hand_5; pfam13499 529120003758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120003759 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 529120003760 dimer interface [polypeptide binding]; other site 529120003761 phosphorylation site [posttranslational modification] 529120003762 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 529120003763 ATP binding site [chemical binding]; other site 529120003764 Mg2+ binding site [ion binding]; other site 529120003765 G-X-G motif; other site 529120003766 response regulator GlrR; Provisional; Region: PRK15115 529120003767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003768 active site 529120003769 phosphorylation site [posttranslational modification] 529120003770 intermolecular recognition site; other site 529120003771 dimerization interface [polypeptide binding]; other site 529120003772 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 529120003773 Walker A motif; other site 529120003774 ATP binding site [chemical binding]; other site 529120003775 Walker B motif; other site 529120003776 arginine finger; other site 529120003777 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 529120003778 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120003779 GAF domain; Region: GAF; pfam01590 529120003780 Protein of unknown function DUF72; Region: DUF72; cl00777 529120003781 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 529120003782 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 529120003783 dimer interface [polypeptide binding]; other site 529120003784 anticodon binding site; other site 529120003785 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 529120003786 homodimer interface [polypeptide binding]; other site 529120003787 motif 1; other site 529120003788 active site 529120003789 motif 2; other site 529120003790 GAD domain; Region: GAD; pfam02938 529120003791 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 529120003792 active site 529120003793 motif 3; other site 529120003794 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 529120003795 nudix motif; other site 529120003796 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 529120003797 active site 529120003798 putative DNA-binding cleft [nucleotide binding]; other site 529120003799 dimer interface [polypeptide binding]; other site 529120003800 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 529120003801 RuvA N terminal domain; Region: RuvA_N; pfam01330 529120003802 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 529120003803 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 529120003804 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 529120003805 Walker A motif; other site 529120003806 ATP binding site [chemical binding]; other site 529120003807 Walker B motif; other site 529120003808 arginine finger; other site 529120003809 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 529120003810 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 529120003811 active site 529120003812 TolQ protein; Region: tolQ; TIGR02796 529120003813 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 529120003814 TolR protein; Region: tolR; TIGR02801 529120003815 TolA C-terminal; Region: TolA; pfam06519 529120003816 TolA protein; Region: tolA_full; TIGR02794 529120003817 translocation protein TolB; Provisional; Region: tolB; PRK04792 529120003818 TolB amino-terminal domain; Region: TolB_N; pfam04052 529120003819 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120003820 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120003821 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120003822 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 529120003823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120003824 ligand binding site [chemical binding]; other site 529120003825 tol-pal system protein YbgF; Provisional; Region: PRK10803 529120003826 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 529120003827 binding surface 529120003828 TPR motif; other site 529120003829 quinolinate synthetase; Provisional; Region: PRK09375 529120003830 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 529120003831 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 529120003832 active site 529120003833 nucleophile elbow; other site 529120003834 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 529120003835 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 529120003836 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 529120003837 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 529120003838 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120003839 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 529120003840 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 529120003841 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 529120003842 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 529120003843 PAS domain S-box; Region: sensory_box; TIGR00229 529120003844 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003846 metal binding site [ion binding]; metal-binding site 529120003847 active site 529120003848 I-site; other site 529120003849 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 529120003850 FOG: CBS domain [General function prediction only]; Region: COG0517 529120003851 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 529120003852 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120003853 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120003854 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120003855 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120003856 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120003857 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 529120003858 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 529120003859 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 529120003860 N-terminal plug; other site 529120003861 ligand-binding site [chemical binding]; other site 529120003862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120003863 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120003864 Coenzyme A binding pocket [chemical binding]; other site 529120003865 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120003866 Protein of unknown function (DUF983); Region: DUF983; cl02211 529120003867 Protein export membrane protein; Region: SecD_SecF; cl14618 529120003868 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120003869 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120003870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120003871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120003872 metal binding site [ion binding]; metal-binding site 529120003873 active site 529120003874 I-site; other site 529120003875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 529120003876 Protein of unknown function (DUF330); Region: DUF330; pfam03886 529120003877 paraquat-inducible protein B; Provisional; Region: PRK10807 529120003878 mce related protein; Region: MCE; pfam02470 529120003879 mce related protein; Region: MCE; pfam02470 529120003880 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 529120003881 Paraquat-inducible protein A; Region: PqiA; pfam04403 529120003882 Paraquat-inducible protein A; Region: PqiA; pfam04403 529120003883 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 529120003884 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 529120003885 putative dimer interface [polypeptide binding]; other site 529120003886 putative anticodon binding site; other site 529120003887 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 529120003888 homodimer interface [polypeptide binding]; other site 529120003889 motif 1; other site 529120003890 motif 2; other site 529120003891 active site 529120003892 motif 3; other site 529120003893 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 529120003894 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 529120003895 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 529120003896 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 529120003897 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 529120003898 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120003899 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120003900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120003901 Coenzyme A binding pocket [chemical binding]; other site 529120003902 Peptidase_C39 like family; Region: DUF3335; pfam11814 529120003903 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 529120003904 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 529120003905 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 529120003906 inhibitor-cofactor binding pocket; inhibition site 529120003907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120003908 catalytic residue [active] 529120003909 biotin synthase; Provisional; Region: PRK15108 529120003910 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 529120003911 FeS/SAM binding site; other site 529120003912 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 529120003913 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 529120003914 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 529120003915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120003916 catalytic residue [active] 529120003917 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 529120003918 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 529120003919 S-adenosylmethionine binding site [chemical binding]; other site 529120003920 AAA domain; Region: AAA_26; pfam13500 529120003921 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 529120003922 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 529120003923 active site pocket [active] 529120003924 oxyanion hole [active] 529120003925 catalytic triad [active] 529120003926 active site nucleophile [active] 529120003927 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 529120003928 Low molecular weight phosphatase family; Region: LMWPc; cd00115 529120003929 active site 529120003930 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 529120003931 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 529120003932 ABC-ATPase subunit interface; other site 529120003933 dimer interface [polypeptide binding]; other site 529120003934 putative PBP binding regions; other site 529120003935 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 529120003936 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 529120003937 Walker A/P-loop; other site 529120003938 ATP binding site [chemical binding]; other site 529120003939 Q-loop/lid; other site 529120003940 ABC transporter signature motif; other site 529120003941 Walker B; other site 529120003942 D-loop; other site 529120003943 H-loop/switch region; other site 529120003944 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 529120003945 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 529120003946 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 529120003947 dimer interface [polypeptide binding]; other site 529120003948 phosphorylation site [posttranslational modification] 529120003949 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 529120003950 ATP binding site [chemical binding]; other site 529120003951 Mg2+ binding site [ion binding]; other site 529120003952 G-X-G motif; other site 529120003953 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120003954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003955 active site 529120003956 phosphorylation site [posttranslational modification] 529120003957 intermolecular recognition site; other site 529120003958 dimerization interface [polypeptide binding]; other site 529120003959 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 529120003960 DNA binding site [nucleotide binding] 529120003961 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 529120003962 TrkA-N domain; Region: TrkA_N; pfam02254 529120003963 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 529120003964 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 529120003965 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 529120003966 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120003967 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 529120003968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120003969 Walker A/P-loop; other site 529120003970 ATP binding site [chemical binding]; other site 529120003971 Q-loop/lid; other site 529120003972 ABC transporter signature motif; other site 529120003973 Walker B; other site 529120003974 D-loop; other site 529120003975 H-loop/switch region; other site 529120003976 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 529120003977 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 529120003978 FeS/SAM binding site; other site 529120003979 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 529120003980 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120003981 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 529120003982 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120003983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120003984 active site 529120003985 phosphorylation site [posttranslational modification] 529120003986 intermolecular recognition site; other site 529120003987 dimerization interface [polypeptide binding]; other site 529120003988 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 529120003989 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 529120003990 HIGH motif; other site 529120003991 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 529120003992 active site 529120003993 KMSKS motif; other site 529120003994 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 529120003995 putative active site [active] 529120003996 Zn binding site [ion binding]; other site 529120003997 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 529120003998 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 529120003999 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 529120004000 FMN binding site [chemical binding]; other site 529120004001 active site 529120004002 catalytic residues [active] 529120004003 substrate binding site [chemical binding]; other site 529120004004 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 529120004005 active site 529120004006 catalytic triad [active] 529120004007 oxyanion hole [active] 529120004008 switch loop; other site 529120004009 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 529120004010 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 529120004011 Walker A/P-loop; other site 529120004012 ATP binding site [chemical binding]; other site 529120004013 Q-loop/lid; other site 529120004014 ABC transporter signature motif; other site 529120004015 Walker B; other site 529120004016 D-loop; other site 529120004017 H-loop/switch region; other site 529120004018 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 529120004019 FtsX-like permease family; Region: FtsX; pfam02687 529120004020 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 529120004021 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 529120004022 putative NAD(P) binding site [chemical binding]; other site 529120004023 putative active site [active] 529120004024 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 529120004025 homooctamer interface [polypeptide binding]; other site 529120004026 active site 529120004027 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 529120004028 Domain of unknown function DUF20; Region: UPF0118; pfam01594 529120004029 sensor protein PhoQ; Provisional; Region: PRK10815 529120004030 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 529120004031 ATP binding site [chemical binding]; other site 529120004032 Mg2+ binding site [ion binding]; other site 529120004033 G-X-G motif; other site 529120004034 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120004035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004036 active site 529120004037 phosphorylation site [posttranslational modification] 529120004038 intermolecular recognition site; other site 529120004039 dimerization interface [polypeptide binding]; other site 529120004040 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 529120004041 DNA binding site [nucleotide binding] 529120004042 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 529120004043 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 529120004044 YciI-like protein; Reviewed; Region: PRK11370 529120004045 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 529120004046 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 529120004047 substrate binding site [chemical binding]; other site 529120004048 active site 529120004049 catalytic residues [active] 529120004050 heterodimer interface [polypeptide binding]; other site 529120004051 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 529120004052 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 529120004053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120004054 catalytic residue [active] 529120004055 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 529120004056 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 529120004057 active site 529120004058 ribulose/triose binding site [chemical binding]; other site 529120004059 phosphate binding site [ion binding]; other site 529120004060 substrate (anthranilate) binding pocket [chemical binding]; other site 529120004061 product (indole) binding pocket [chemical binding]; other site 529120004062 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 529120004063 active site 529120004064 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 529120004065 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 529120004066 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 529120004067 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 529120004068 Glutamine amidotransferase class-I; Region: GATase; pfam00117 529120004069 glutamine binding [chemical binding]; other site 529120004070 catalytic triad [active] 529120004071 anthranilate synthase component I; Provisional; Region: PRK13564 529120004072 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 529120004073 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 529120004074 potential frameshift: common BLAST hit: gi|332140783|ref|YP_004426521.1| PHP domain-containing protein 529120004075 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 529120004076 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 529120004077 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 529120004078 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 529120004079 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 529120004080 RNA binding surface [nucleotide binding]; other site 529120004081 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 529120004082 probable active site [active] 529120004083 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 529120004084 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120004085 active site 529120004086 catalytic tetrad [active] 529120004087 maltose O-acetyltransferase; Provisional; Region: PRK10092 529120004088 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 529120004089 active site 529120004090 substrate binding site [chemical binding]; other site 529120004091 trimer interface [polypeptide binding]; other site 529120004092 CoA binding site [chemical binding]; other site 529120004093 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120004094 Predicted membrane protein [Function unknown]; Region: COG2733 529120004095 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 529120004096 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 529120004097 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 529120004098 recombination and repair protein; Provisional; Region: PRK10869 529120004099 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 529120004100 Walker A/P-loop; other site 529120004101 ATP binding site [chemical binding]; other site 529120004102 Q-loop/lid; other site 529120004103 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 529120004104 ABC transporter signature motif; other site 529120004105 Walker B; other site 529120004106 D-loop; other site 529120004107 H-loop/switch region; other site 529120004108 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 529120004109 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 529120004110 dimerization interface [polypeptide binding]; other site 529120004111 DPS ferroxidase diiron center [ion binding]; other site 529120004112 ion pore; other site 529120004113 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 529120004114 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 529120004115 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 529120004116 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 529120004117 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 529120004118 putative active site [active] 529120004119 metal binding site [ion binding]; metal-binding site 529120004120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120004121 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 529120004122 NAD(P) binding site [chemical binding]; other site 529120004123 active site 529120004124 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 529120004125 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 529120004126 homoserine O-acetyltransferase; Provisional; Region: PRK06765 529120004127 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 529120004128 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 529120004129 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120004130 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 529120004131 N-terminal plug; other site 529120004132 ligand-binding site [chemical binding]; other site 529120004133 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120004134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004135 active site 529120004136 phosphorylation site [posttranslational modification] 529120004137 intermolecular recognition site; other site 529120004138 dimerization interface [polypeptide binding]; other site 529120004139 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 529120004140 DNA binding residues [nucleotide binding] 529120004141 dimerization interface [polypeptide binding]; other site 529120004142 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 529120004143 inhibitor binding site; inhibition site 529120004144 catalytic motif [active] 529120004145 Catalytic residue [active] 529120004146 Active site flap [active] 529120004147 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 529120004148 catalytic motif [active] 529120004149 Catalytic residue [active] 529120004150 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 529120004151 Na binding site [ion binding]; other site 529120004152 PAS fold; Region: PAS_7; pfam12860 529120004153 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 529120004154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120004155 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 529120004156 dimer interface [polypeptide binding]; other site 529120004157 phosphorylation site [posttranslational modification] 529120004158 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 529120004159 ATP binding site [chemical binding]; other site 529120004160 Mg2+ binding site [ion binding]; other site 529120004161 G-X-G motif; other site 529120004162 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120004163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 529120004164 active site 529120004165 phosphorylation site [posttranslational modification] 529120004166 intermolecular recognition site; other site 529120004167 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 529120004168 GrpE; Region: GrpE; pfam01025 529120004169 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 529120004170 dimer interface [polypeptide binding]; other site 529120004171 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 529120004172 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 529120004173 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 529120004174 nucleotide binding site [chemical binding]; other site 529120004175 chaperone protein DnaJ; Provisional; Region: PRK10767 529120004176 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 529120004177 HSP70 interaction site [polypeptide binding]; other site 529120004178 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 529120004179 substrate binding site [polypeptide binding]; other site 529120004180 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 529120004181 Zn binding sites [ion binding]; other site 529120004182 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 529120004183 dimer interface [polypeptide binding]; other site 529120004184 Cytochrome C' Region: Cytochrom_C_2; pfam01322 529120004185 PAS domain; Region: PAS_9; pfam13426 529120004186 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 529120004187 putative active site [active] 529120004188 heme pocket [chemical binding]; other site 529120004189 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 529120004190 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 529120004191 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 529120004192 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 529120004193 acyl-activating enzyme (AAE) consensus motif; other site 529120004194 putative AMP binding site [chemical binding]; other site 529120004195 putative active site [active] 529120004196 putative CoA binding site [chemical binding]; other site 529120004197 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 529120004198 dihydrodipicolinate reductase; Provisional; Region: PRK00048 529120004199 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 529120004200 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 529120004201 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 529120004202 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 529120004203 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 529120004204 catalytic site [active] 529120004205 subunit interface [polypeptide binding]; other site 529120004206 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 529120004207 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 529120004208 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 529120004209 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 529120004210 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 529120004211 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120004212 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 529120004213 IMP binding site; other site 529120004214 dimer interface [polypeptide binding]; other site 529120004215 interdomain contacts; other site 529120004216 partial ornithine binding site; other site 529120004217 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 529120004218 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 529120004219 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 529120004220 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120004221 dimer interface [polypeptide binding]; other site 529120004222 putative CheW interface [polypeptide binding]; other site 529120004223 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 529120004224 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 529120004225 dimer interface [polypeptide binding]; other site 529120004226 ADP-ribose binding site [chemical binding]; other site 529120004227 active site 529120004228 nudix motif; other site 529120004229 metal binding site [ion binding]; metal-binding site 529120004230 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 529120004231 potential frameshift: common BLAST hit: gi|332140825|ref|YP_004426563.1| small heat shock protein 529120004232 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 529120004233 propionate/acetate kinase; Provisional; Region: PRK12379 529120004234 phosphate acetyltransferase; Reviewed; Region: PRK05632 529120004235 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 529120004236 DRTGG domain; Region: DRTGG; pfam07085 529120004237 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 529120004238 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 529120004239 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 529120004240 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 529120004241 active site 529120004242 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 529120004243 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 529120004244 putative active site [active] 529120004245 catalytic triad [active] 529120004246 putative dimer interface [polypeptide binding]; other site 529120004247 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 529120004248 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 529120004249 Transporter associated domain; Region: CorC_HlyC; smart01091 529120004250 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 529120004251 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 529120004252 PhoH-like protein; Region: PhoH; pfam02562 529120004253 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 529120004254 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 529120004255 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 529120004256 FeS/SAM binding site; other site 529120004257 TRAM domain; Region: TRAM; pfam01938 529120004258 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 529120004259 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 529120004260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120004261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120004262 Uncharacterized conserved protein [Function unknown]; Region: COG2128 529120004263 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120004264 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 529120004265 N-terminal plug; other site 529120004266 ligand-binding site [chemical binding]; other site 529120004267 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 529120004268 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 529120004269 Transcriptional activator [Transcription]; Region: ChrR; COG3806 529120004270 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 529120004271 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 529120004272 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 529120004273 amino acid carrier protein; Region: agcS; TIGR00835 529120004274 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 529120004275 active site 529120004276 GTP-binding protein YchF; Reviewed; Region: PRK09601 529120004277 YchF GTPase; Region: YchF; cd01900 529120004278 G1 box; other site 529120004279 GTP/Mg2+ binding site [chemical binding]; other site 529120004280 Switch I region; other site 529120004281 G2 box; other site 529120004282 Switch II region; other site 529120004283 G3 box; other site 529120004284 G4 box; other site 529120004285 G5 box; other site 529120004286 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 529120004287 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 529120004288 putative active site [active] 529120004289 catalytic residue [active] 529120004290 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 529120004291 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 529120004292 5S rRNA interface [nucleotide binding]; other site 529120004293 CTC domain interface [polypeptide binding]; other site 529120004294 L16 interface [polypeptide binding]; other site 529120004295 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 529120004296 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 529120004297 putative NAD(P) binding site [chemical binding]; other site 529120004298 putative substrate binding site [chemical binding]; other site 529120004299 catalytic Zn binding site [ion binding]; other site 529120004300 structural Zn binding site [ion binding]; other site 529120004301 dimer interface [polypeptide binding]; other site 529120004302 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 529120004303 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 529120004304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120004305 active site 529120004306 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 529120004307 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 529120004308 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 529120004309 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 529120004310 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 529120004311 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 529120004312 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 529120004313 tRNA; other site 529120004314 putative tRNA binding site [nucleotide binding]; other site 529120004315 putative NADP binding site [chemical binding]; other site 529120004316 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 529120004317 peptide chain release factor 1; Validated; Region: prfA; PRK00591 529120004318 This domain is found in peptide chain release factors; Region: PCRF; smart00937 529120004319 RF-1 domain; Region: RF-1; pfam00472 529120004320 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 529120004321 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 529120004322 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120004323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004324 active site 529120004325 phosphorylation site [posttranslational modification] 529120004326 intermolecular recognition site; other site 529120004327 dimerization interface [polypeptide binding]; other site 529120004328 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 529120004329 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120004330 Zn2+ binding site [ion binding]; other site 529120004331 Mg2+ binding site [ion binding]; other site 529120004332 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 529120004333 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 529120004334 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 529120004335 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 529120004336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120004337 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 529120004338 dimerization interface [polypeptide binding]; other site 529120004339 substrate binding pocket [chemical binding]; other site 529120004340 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 529120004341 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 529120004342 Protein of unknown function (DUF423); Region: DUF423; pfam04241 529120004343 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 529120004344 FtsJ-like methyltransferase; Region: FtsJ; cl17430 529120004345 elongation factor G; Reviewed; Region: PRK00007 529120004346 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 529120004347 G1 box; other site 529120004348 putative GEF interaction site [polypeptide binding]; other site 529120004349 GTP/Mg2+ binding site [chemical binding]; other site 529120004350 Switch I region; other site 529120004351 G2 box; other site 529120004352 G3 box; other site 529120004353 Switch II region; other site 529120004354 G4 box; other site 529120004355 G5 box; other site 529120004356 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 529120004357 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 529120004358 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 529120004359 cyanate hydratase; Validated; Region: PRK02866 529120004360 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 529120004361 oligomer interface [polypeptide binding]; other site 529120004362 active site 529120004363 potential frameshift: common BLAST hit: gi|332140943|ref|YP_004426681.1| Serine/threonine protein kinase 529120004364 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 529120004365 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 529120004366 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 529120004367 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 529120004368 Protein of unknown function DUF58; Region: DUF58; pfam01882 529120004369 MoxR-like ATPases [General function prediction only]; Region: COG0714 529120004370 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 529120004371 Walker A motif; other site 529120004372 ATP binding site [chemical binding]; other site 529120004373 Walker B motif; other site 529120004374 arginine finger; other site 529120004375 SeqA protein; Region: SeqA; cl11470 529120004376 SeqA protein; Region: SeqA; cl11470 529120004377 phosphoglucomutase; Validated; Region: PRK07564 529120004378 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 529120004379 active site 529120004380 substrate binding site [chemical binding]; other site 529120004381 metal binding site [ion binding]; metal-binding site 529120004382 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 529120004383 homodimer interface [polypeptide binding]; other site 529120004384 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 529120004385 active site pocket [active] 529120004386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004387 metal binding site [ion binding]; metal-binding site 529120004388 active site 529120004389 I-site; other site 529120004390 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 529120004391 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 529120004392 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 529120004393 putative active site [active] 529120004394 Zn binding site [ion binding]; other site 529120004395 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 529120004396 nucleotide binding site/active site [active] 529120004397 HIT family signature motif; other site 529120004398 catalytic residue [active] 529120004399 hypothetical protein; Provisional; Region: PRK02877 529120004400 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 529120004401 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 529120004402 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 529120004403 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 529120004404 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 529120004405 metal binding site [ion binding]; metal-binding site 529120004406 dimer interface [polypeptide binding]; other site 529120004407 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 529120004408 ArsC family; Region: ArsC; pfam03960 529120004409 putative catalytic residues [active] 529120004410 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 529120004411 HPr interaction site; other site 529120004412 glycerol kinase (GK) interaction site [polypeptide binding]; other site 529120004413 active site 529120004414 phosphorylation site [posttranslational modification] 529120004415 Uncharacterized conserved protein [Function unknown]; Region: COG3603 529120004416 Family description; Region: ACT_7; pfam13840 529120004417 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 529120004418 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120004419 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 529120004420 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 529120004421 dimer interface [polypeptide binding]; other site 529120004422 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 529120004423 active site 529120004424 Fe binding site [ion binding]; other site 529120004425 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 529120004426 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 529120004427 MarR family; Region: MarR_2; pfam12802 529120004428 PAS domain; Region: PAS_9; pfam13426 529120004429 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 529120004430 putative active site [active] 529120004431 heme pocket [chemical binding]; other site 529120004432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004434 metal binding site [ion binding]; metal-binding site 529120004435 active site 529120004436 I-site; other site 529120004437 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 529120004438 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004440 metal binding site [ion binding]; metal-binding site 529120004441 active site 529120004442 I-site; other site 529120004443 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 529120004444 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 529120004445 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 529120004446 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120004447 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120004448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120004449 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120004450 potential frameshift: common BLAST hit: gi|332140975|ref|YP_004426713.1| glutathione-regulated potassium-efflux system protein KefC 529120004451 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120004452 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 529120004453 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120004454 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 529120004455 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 529120004456 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120004457 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120004458 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 529120004459 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 529120004460 catalytic loop [active] 529120004461 iron binding site [ion binding]; other site 529120004462 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 529120004463 Predicted transcriptional regulators [Transcription]; Region: COG1733 529120004464 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 529120004465 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 529120004466 PAS domain S-box; Region: sensory_box; TIGR00229 529120004467 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 529120004468 putative active site [active] 529120004469 heme pocket [chemical binding]; other site 529120004470 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 529120004471 PAS fold; Region: PAS_3; pfam08447 529120004472 putative active site [active] 529120004473 heme pocket [chemical binding]; other site 529120004474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004476 metal binding site [ion binding]; metal-binding site 529120004477 active site 529120004478 I-site; other site 529120004479 Protein of unknown function (DUF989); Region: DUF989; pfam06181 529120004480 Predicted membrane protein [Function unknown]; Region: COG3748 529120004481 Cytochrome c; Region: Cytochrom_C; pfam00034 529120004482 guanine deaminase; Provisional; Region: PRK09228 529120004483 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 529120004484 active site 529120004485 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 529120004486 active site 529120004487 homotetramer interface [polypeptide binding]; other site 529120004488 putative OHCU decarboxylase; Provisional; Region: PRK13798 529120004489 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 529120004490 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 529120004491 XdhC Rossmann domain; Region: XdhC_C; pfam13478 529120004492 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 529120004493 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 529120004494 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120004495 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 529120004496 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 529120004497 catalytic loop [active] 529120004498 iron binding site [ion binding]; other site 529120004499 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 529120004500 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 529120004501 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 529120004502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120004503 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 529120004504 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 529120004505 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 529120004506 active site 529120004507 catalytic site [active] 529120004508 tetramer interface [polypeptide binding]; other site 529120004509 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 529120004510 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 529120004511 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 529120004512 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 529120004513 active site 529120004514 purine riboside binding site [chemical binding]; other site 529120004515 Hpt domain; Region: Hpt; pfam01627 529120004516 putative binding surface; other site 529120004517 active site 529120004518 response regulator PleD; Reviewed; Region: pleD; PRK09581 529120004519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004520 active site 529120004521 phosphorylation site [posttranslational modification] 529120004522 intermolecular recognition site; other site 529120004523 dimerization interface [polypeptide binding]; other site 529120004524 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 529120004525 putative active site [active] 529120004526 heme pocket [chemical binding]; other site 529120004527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004528 metal binding site [ion binding]; metal-binding site 529120004529 active site 529120004530 I-site; other site 529120004531 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 529120004532 Response regulator receiver domain; Region: Response_reg; pfam00072 529120004533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004534 active site 529120004535 phosphorylation site [posttranslational modification] 529120004536 intermolecular recognition site; other site 529120004537 dimerization interface [polypeptide binding]; other site 529120004538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004540 metal binding site [ion binding]; metal-binding site 529120004541 active site 529120004542 I-site; other site 529120004543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120004544 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 529120004545 dimer interface [polypeptide binding]; other site 529120004546 phosphorylation site [posttranslational modification] 529120004547 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 529120004548 ATP binding site [chemical binding]; other site 529120004549 Mg2+ binding site [ion binding]; other site 529120004550 G-X-G motif; other site 529120004551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004552 Response regulator receiver domain; Region: Response_reg; pfam00072 529120004553 active site 529120004554 phosphorylation site [posttranslational modification] 529120004555 intermolecular recognition site; other site 529120004556 dimerization interface [polypeptide binding]; other site 529120004557 Purine nucleoside permease (NUP); Region: NUP; pfam06516 529120004558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120004559 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 529120004560 xanthine permease; Region: pbuX; TIGR03173 529120004561 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 529120004562 active site 529120004563 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 529120004564 allantoate amidohydrolase; Reviewed; Region: PRK09290 529120004565 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 529120004566 active site 529120004567 metal binding site [ion binding]; metal-binding site 529120004568 dimer interface [polypeptide binding]; other site 529120004569 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 529120004570 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120004571 catalytic residue [active] 529120004572 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 529120004573 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 529120004574 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 529120004575 Amidase; Region: Amidase; cl11426 529120004576 indole-3-acetamide amidohydrolase; Region: PLN02722 529120004577 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 529120004578 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 529120004579 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 529120004580 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 529120004581 putative active site [active] 529120004582 potential frameshift: common BLAST hit: gi|332141011|ref|YP_004426749.1| Abortive infection protein 529120004583 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120004584 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120004585 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 529120004586 pteridine reductase; Provisional; Region: PRK09135 529120004587 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 529120004588 NADP binding site [chemical binding]; other site 529120004589 substrate binding pocket [chemical binding]; other site 529120004590 active site 529120004591 Phosphotransferase enzyme family; Region: APH; pfam01636 529120004592 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 529120004593 active site 529120004594 ATP binding site [chemical binding]; other site 529120004595 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 529120004596 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 529120004597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 529120004598 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 529120004599 active site 529120004600 dimer interface [polypeptide binding]; other site 529120004601 motif 1; other site 529120004602 motif 2; other site 529120004603 motif 3; other site 529120004604 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 529120004605 anticodon binding site; other site 529120004606 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 529120004607 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 529120004608 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 529120004609 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 529120004610 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 529120004611 23S rRNA binding site [nucleotide binding]; other site 529120004612 L21 binding site [polypeptide binding]; other site 529120004613 L13 binding site [polypeptide binding]; other site 529120004614 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 529120004615 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 529120004616 Substrate binding site; other site 529120004617 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 529120004618 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 529120004619 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 529120004620 Bacterial sugar transferase; Region: Bac_transf; pfam02397 529120004621 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 529120004622 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 529120004623 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 529120004624 SLBB domain; Region: SLBB; pfam10531 529120004625 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 529120004626 Chain length determinant protein; Region: Wzz; pfam02706 529120004627 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 529120004628 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 529120004629 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 529120004630 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 529120004631 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 529120004632 TPR motif; other site 529120004633 binding surface 529120004634 O-Antigen ligase; Region: Wzy_C; pfam04932 529120004635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004637 metal binding site [ion binding]; metal-binding site 529120004638 active site 529120004639 I-site; other site 529120004640 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 529120004641 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 529120004642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120004643 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 529120004644 putative ADP-binding pocket [chemical binding]; other site 529120004645 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120004646 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 529120004647 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 529120004648 Acyltransferase family; Region: Acyl_transf_3; pfam01757 529120004649 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 529120004650 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120004651 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 529120004652 active site 529120004653 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 529120004654 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 529120004655 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 529120004656 active site 529120004657 colanic acid exporter; Provisional; Region: PRK10459 529120004658 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 529120004659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 529120004660 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 529120004661 Right handed beta helix region; Region: Beta_helix; pfam13229 529120004662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120004663 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 529120004664 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120004665 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 529120004666 active site 529120004667 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 529120004668 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 529120004669 trimer interface [polypeptide binding]; other site 529120004670 active site 529120004671 substrate binding site [chemical binding]; other site 529120004672 CoA binding site [chemical binding]; other site 529120004673 Acyltransferase family; Region: Acyl_transf_3; pfam01757 529120004674 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 529120004675 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 529120004676 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 529120004677 dimer interface [polypeptide binding]; other site 529120004678 motif 1; other site 529120004679 active site 529120004680 motif 2; other site 529120004681 motif 3; other site 529120004682 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 529120004683 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 529120004684 putative tRNA-binding site [nucleotide binding]; other site 529120004685 B3/4 domain; Region: B3_4; pfam03483 529120004686 tRNA synthetase B5 domain; Region: B5; smart00874 529120004687 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 529120004688 dimer interface [polypeptide binding]; other site 529120004689 motif 1; other site 529120004690 motif 3; other site 529120004691 motif 2; other site 529120004692 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 529120004693 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 529120004694 IHF dimer interface [polypeptide binding]; other site 529120004695 IHF - DNA interface [nucleotide binding]; other site 529120004696 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 529120004697 putative deacylase active site [active] 529120004698 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 529120004699 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 529120004700 active site 529120004701 beta-hexosaminidase; Provisional; Region: PRK05337 529120004702 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 529120004703 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 529120004704 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 529120004705 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 529120004706 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 529120004707 transcription-repair coupling factor; Provisional; Region: PRK10689 529120004708 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 529120004709 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 529120004710 ATP binding site [chemical binding]; other site 529120004711 putative Mg++ binding site [ion binding]; other site 529120004712 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 529120004713 nucleotide binding region [chemical binding]; other site 529120004714 ATP-binding site [chemical binding]; other site 529120004715 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 529120004716 PilZ domain; Region: PilZ; pfam07238 529120004717 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 529120004718 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 529120004719 FtsX-like permease family; Region: FtsX; pfam02687 529120004720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120004721 active site 529120004722 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 529120004723 dimer interface [polypeptide binding]; other site 529120004724 phosphorylation site [posttranslational modification] 529120004725 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 529120004726 ATP binding site [chemical binding]; other site 529120004727 Mg2+ binding site [ion binding]; other site 529120004728 G-X-G motif; other site 529120004729 FIST N domain; Region: FIST; pfam08495 529120004730 FIST C domain; Region: FIST_C; pfam10442 529120004731 Predicted membrane protein [Function unknown]; Region: COG3235 529120004732 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 529120004733 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 529120004734 putative catalytic site [active] 529120004735 putative phosphate binding site [ion binding]; other site 529120004736 active site 529120004737 metal binding site A [ion binding]; metal-binding site 529120004738 DNA binding site [nucleotide binding] 529120004739 putative AP binding site [nucleotide binding]; other site 529120004740 putative metal binding site B [ion binding]; other site 529120004741 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 529120004742 Fe-S metabolism associated domain; Region: SufE; cl00951 529120004743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120004744 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 529120004745 HDOD domain; Region: HDOD; pfam08668 529120004746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 529120004747 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 529120004748 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 529120004749 active site 529120004750 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 529120004751 active site 2 [active] 529120004752 active site 1 [active] 529120004753 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 529120004754 D-galactonate transporter; Region: 2A0114; TIGR00893 529120004755 putative substrate translocation pore; other site 529120004756 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 529120004757 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 529120004758 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 529120004759 ligand binding site; other site 529120004760 oligomer interface; other site 529120004761 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 529120004762 dimer interface [polypeptide binding]; other site 529120004763 N-terminal domain interface [polypeptide binding]; other site 529120004764 sulfate 1 binding site; other site 529120004765 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 529120004766 putative hydrophobic ligand binding site [chemical binding]; other site 529120004767 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 529120004768 putative substrate translocation pore; other site 529120004769 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 529120004770 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 529120004771 active site 529120004772 catalytic residues [active] 529120004773 metal binding site [ion binding]; metal-binding site 529120004774 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 529120004775 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 529120004776 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120004777 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 529120004778 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 529120004779 carboxyltransferase (CT) interaction site; other site 529120004780 biotinylation site [posttranslational modification]; other site 529120004781 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 529120004782 enoyl-CoA hydratase; Provisional; Region: PRK05995 529120004783 substrate binding site [chemical binding]; other site 529120004784 oxyanion hole (OAH) forming residues; other site 529120004785 trimer interface [polypeptide binding]; other site 529120004786 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 529120004787 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 529120004788 isovaleryl-CoA dehydrogenase; Region: PLN02519 529120004789 substrate binding site [chemical binding]; other site 529120004790 FAD binding site [chemical binding]; other site 529120004791 catalytic base [active] 529120004792 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 529120004793 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 529120004794 DNA binding residues [nucleotide binding] 529120004795 putative dimer interface [polypeptide binding]; other site 529120004796 putative acyltransferase; Provisional; Region: PRK05790 529120004797 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 529120004798 dimer interface [polypeptide binding]; other site 529120004799 active site 529120004800 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120004801 kynureninase; Region: kynureninase; TIGR01814 529120004802 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 529120004803 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120004804 catalytic residue [active] 529120004805 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120004806 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 529120004807 substrate binding pocket [chemical binding]; other site 529120004808 membrane-bound complex binding site; other site 529120004809 hinge residues; other site 529120004810 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004812 metal binding site [ion binding]; metal-binding site 529120004813 active site 529120004814 I-site; other site 529120004815 Protein of unknown function (DUF342); Region: DUF342; pfam03961 529120004816 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 529120004817 exonuclease I; Provisional; Region: sbcB; PRK11779 529120004818 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 529120004819 active site 529120004820 catalytic site [active] 529120004821 substrate binding site [chemical binding]; other site 529120004822 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 529120004823 PAS domain; Region: PAS_9; pfam13426 529120004824 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 529120004825 phosphorylation site [posttranslational modification] 529120004826 dimer interface [polypeptide binding]; other site 529120004827 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 529120004828 ATP binding site [chemical binding]; other site 529120004829 Mg2+ binding site [ion binding]; other site 529120004830 G-X-G motif; other site 529120004831 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120004832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004833 active site 529120004834 phosphorylation site [posttranslational modification] 529120004835 intermolecular recognition site; other site 529120004836 dimerization interface [polypeptide binding]; other site 529120004837 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 529120004838 catalytic nucleophile [active] 529120004839 FOG: CBS domain [General function prediction only]; Region: COG0517 529120004840 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 529120004841 Phytase; Region: Phytase; cl17685 529120004842 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 529120004843 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120004844 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 529120004845 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 529120004846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120004847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120004848 metal binding site [ion binding]; metal-binding site 529120004849 active site 529120004850 I-site; other site 529120004851 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 529120004852 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 529120004853 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 529120004854 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 529120004855 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 529120004856 ATP binding site [chemical binding]; other site 529120004857 putative Mg++ binding site [ion binding]; other site 529120004858 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 529120004859 nucleotide binding region [chemical binding]; other site 529120004860 ATP-binding site [chemical binding]; other site 529120004861 Helicase associated domain (HA2); Region: HA2; pfam04408 529120004862 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 529120004863 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 529120004864 PilZ domain; Region: PilZ; pfam07238 529120004865 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 529120004866 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 529120004867 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 529120004868 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 529120004869 putative RNA binding site [nucleotide binding]; other site 529120004870 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 529120004871 S-adenosylmethionine binding site [chemical binding]; other site 529120004872 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 529120004873 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 529120004874 NAD(P) binding site [chemical binding]; other site 529120004875 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 529120004876 RNA/DNA hybrid binding site [nucleotide binding]; other site 529120004877 active site 529120004878 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 529120004879 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 529120004880 active site 529120004881 catalytic site [active] 529120004882 substrate binding site [chemical binding]; other site 529120004883 TIGR03503 family protein; Region: TIGR03503 529120004884 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 529120004885 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 529120004886 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 529120004887 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 529120004888 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 529120004889 Walker A/P-loop; other site 529120004890 ATP binding site [chemical binding]; other site 529120004891 Q-loop/lid; other site 529120004892 ABC transporter signature motif; other site 529120004893 Walker B; other site 529120004894 D-loop; other site 529120004895 H-loop/switch region; other site 529120004896 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 529120004897 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 529120004898 FtsX-like permease family; Region: FtsX; pfam02687 529120004899 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 529120004900 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 529120004901 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 529120004902 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 529120004903 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 529120004904 succinylarginine dihydrolase; Provisional; Region: PRK13281 529120004905 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 529120004906 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 529120004907 active site 529120004908 interdomain interaction site; other site 529120004909 putative metal-binding site [ion binding]; other site 529120004910 nucleotide binding site [chemical binding]; other site 529120004911 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 529120004912 domain I; other site 529120004913 DNA binding groove [nucleotide binding] 529120004914 phosphate binding site [ion binding]; other site 529120004915 domain II; other site 529120004916 domain III; other site 529120004917 nucleotide binding site [chemical binding]; other site 529120004918 catalytic site [active] 529120004919 domain IV; other site 529120004920 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 529120004921 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 529120004922 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 529120004923 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 529120004924 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 529120004925 Leishmanolysin; Region: Peptidase_M8; pfam01457 529120004926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120004927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120004928 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 529120004929 dimerization interface [polypeptide binding]; other site 529120004930 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 529120004931 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 529120004932 GTP binding site; other site 529120004933 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 529120004934 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 529120004935 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 529120004936 putative molybdopterin cofactor binding site [chemical binding]; other site 529120004937 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 529120004938 putative molybdopterin cofactor binding site; other site 529120004939 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 529120004940 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 529120004941 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120004942 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120004943 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 529120004944 putative N-terminal domain interface [polypeptide binding]; other site 529120004945 putative dimer interface [polypeptide binding]; other site 529120004946 putative substrate binding pocket (H-site) [chemical binding]; other site 529120004947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 529120004948 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120004949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120004950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120004951 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 529120004952 dimerization interface [polypeptide binding]; other site 529120004953 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120004954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120004955 Coenzyme A binding pocket [chemical binding]; other site 529120004956 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 529120004957 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 529120004958 motif II; other site 529120004959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120004960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120004961 active site 529120004962 phosphorylation site [posttranslational modification] 529120004963 intermolecular recognition site; other site 529120004964 dimerization interface [polypeptide binding]; other site 529120004965 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 529120004966 DNA binding site [nucleotide binding] 529120004967 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120004968 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 529120004969 dimerization interface [polypeptide binding]; other site 529120004970 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 529120004971 dimer interface [polypeptide binding]; other site 529120004972 phosphorylation site [posttranslational modification] 529120004973 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 529120004974 ATP binding site [chemical binding]; other site 529120004975 Mg2+ binding site [ion binding]; other site 529120004976 G-X-G motif; other site 529120004977 Ecdysteroid kinase; Region: EcKinase; cl17738 529120004978 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 529120004979 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 529120004980 homodimer interface [polypeptide binding]; other site 529120004981 oligonucleotide binding site [chemical binding]; other site 529120004982 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 529120004983 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 529120004984 RNA binding surface [nucleotide binding]; other site 529120004985 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 529120004986 active site 529120004987 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 529120004988 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 529120004989 motif II; other site 529120004990 Maf-like protein; Region: Maf; pfam02545 529120004991 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 529120004992 active site 529120004993 dimer interface [polypeptide binding]; other site 529120004994 hypothetical protein; Provisional; Region: PRK11193 529120004995 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 529120004996 putative phosphate acyltransferase; Provisional; Region: PRK05331 529120004997 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 529120004998 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 529120004999 dimer interface [polypeptide binding]; other site 529120005000 active site 529120005001 CoA binding pocket [chemical binding]; other site 529120005002 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 529120005003 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 529120005004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 529120005005 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 529120005006 NAD(P) binding site [chemical binding]; other site 529120005007 homotetramer interface [polypeptide binding]; other site 529120005008 homodimer interface [polypeptide binding]; other site 529120005009 active site 529120005010 acyl carrier protein; Provisional; Region: acpP; PRK00982 529120005011 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 529120005012 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 529120005013 dimer interface [polypeptide binding]; other site 529120005014 active site 529120005015 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 529120005016 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 529120005017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120005018 catalytic residue [active] 529120005019 YceG-like family; Region: YceG; pfam02618 529120005020 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 529120005021 dimerization interface [polypeptide binding]; other site 529120005022 thymidylate kinase; Validated; Region: tmk; PRK00698 529120005023 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 529120005024 TMP-binding site; other site 529120005025 ATP-binding site [chemical binding]; other site 529120005026 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 529120005027 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 529120005028 Walker A motif; other site 529120005029 ATP binding site [chemical binding]; other site 529120005030 Walker B motif; other site 529120005031 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 529120005032 arginine finger; other site 529120005033 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 529120005034 active site 529120005035 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 529120005036 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 529120005037 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 529120005038 NADH(P)-binding; Region: NAD_binding_10; pfam13460 529120005039 NAD(P) binding site [chemical binding]; other site 529120005040 putative active site [active] 529120005041 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 529120005042 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 529120005043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120005044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120005045 metal binding site [ion binding]; metal-binding site 529120005046 active site 529120005047 I-site; other site 529120005048 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 529120005049 active site 529120005050 Zn binding site [ion binding]; other site 529120005051 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 529120005052 putative active site pocket [active] 529120005053 dimerization interface [polypeptide binding]; other site 529120005054 putative catalytic residue [active] 529120005055 Tic20-like protein; Region: Tic20; pfam09685 529120005056 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 529120005057 classical (c) SDRs; Region: SDR_c; cd05233 529120005058 NAD(P) binding site [chemical binding]; other site 529120005059 active site 529120005060 haloalkane dehalogenase; Provisional; Region: PRK00870 529120005061 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120005062 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 529120005063 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 529120005064 substrate binding site [chemical binding]; other site 529120005065 oxyanion hole (OAH) forming residues; other site 529120005066 trimer interface [polypeptide binding]; other site 529120005067 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 529120005068 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 529120005069 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 529120005070 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 529120005071 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 529120005072 dimer interface [polypeptide binding]; other site 529120005073 active site 529120005074 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 529120005075 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 529120005076 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120005077 active site 529120005078 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 529120005079 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 529120005080 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120005081 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120005082 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 529120005083 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 529120005084 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 529120005085 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 529120005086 motif II; other site 529120005087 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 529120005088 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 529120005089 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 529120005090 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 529120005091 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120005092 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 529120005093 metal binding site 2 [ion binding]; metal-binding site 529120005094 putative DNA binding helix; other site 529120005095 metal binding site 1 [ion binding]; metal-binding site 529120005096 dimer interface [polypeptide binding]; other site 529120005097 structural Zn2+ binding site [ion binding]; other site 529120005098 dihydroorotase; Validated; Region: pyrC; PRK09357 529120005099 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 529120005100 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 529120005101 active site 529120005102 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 529120005103 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 529120005104 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 529120005105 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 529120005106 FAD binding domain; Region: FAD_binding_4; pfam01565 529120005107 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 529120005108 Predicted acyl esterases [General function prediction only]; Region: COG2936 529120005109 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120005110 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 529120005111 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 529120005112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120005113 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 529120005114 substrate binding pocket [chemical binding]; other site 529120005115 dimerization interface [polypeptide binding]; other site 529120005116 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 529120005117 active site 2 [active] 529120005118 active site 1 [active] 529120005119 Entericidin EcnA/B family; Region: Entericidin; cl02322 529120005120 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120005121 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120005122 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120005123 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 529120005124 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 529120005125 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 529120005126 aromatic arch; other site 529120005127 DCoH dimer interaction site [polypeptide binding]; other site 529120005128 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 529120005129 DCoH tetramer interaction site [polypeptide binding]; other site 529120005130 substrate binding site [chemical binding]; other site 529120005131 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 529120005132 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 529120005133 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 529120005134 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 529120005135 PAS domain S-box; Region: sensory_box; TIGR00229 529120005136 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 529120005137 putative active site [active] 529120005138 heme pocket [chemical binding]; other site 529120005139 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 529120005140 PAS fold; Region: PAS_3; pfam08447 529120005141 putative active site [active] 529120005142 heme pocket [chemical binding]; other site 529120005143 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 529120005144 dimer interface [polypeptide binding]; other site 529120005145 phosphorylation site [posttranslational modification] 529120005146 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 529120005147 ATP binding site [chemical binding]; other site 529120005148 Mg2+ binding site [ion binding]; other site 529120005149 G-X-G motif; other site 529120005150 Response regulator receiver domain; Region: Response_reg; pfam00072 529120005151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120005152 active site 529120005153 phosphorylation site [posttranslational modification] 529120005154 intermolecular recognition site; other site 529120005155 dimerization interface [polypeptide binding]; other site 529120005156 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 529120005157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120005158 active site 529120005159 phosphorylation site [posttranslational modification] 529120005160 intermolecular recognition site; other site 529120005161 dimerization interface [polypeptide binding]; other site 529120005162 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120005163 Zn2+ binding site [ion binding]; other site 529120005164 Mg2+ binding site [ion binding]; other site 529120005165 ribosome maturation protein RimP; Reviewed; Region: PRK00092 529120005166 Sm and related proteins; Region: Sm_like; cl00259 529120005167 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 529120005168 putative oligomer interface [polypeptide binding]; other site 529120005169 putative RNA binding site [nucleotide binding]; other site 529120005170 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 529120005171 NusA N-terminal domain; Region: NusA_N; pfam08529 529120005172 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 529120005173 RNA binding site [nucleotide binding]; other site 529120005174 homodimer interface [polypeptide binding]; other site 529120005175 NusA-like KH domain; Region: KH_5; pfam13184 529120005176 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 529120005177 G-X-X-G motif; other site 529120005178 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 529120005179 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 529120005180 translation initiation factor IF-2; Region: IF-2; TIGR00487 529120005181 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 529120005182 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 529120005183 G1 box; other site 529120005184 putative GEF interaction site [polypeptide binding]; other site 529120005185 GTP/Mg2+ binding site [chemical binding]; other site 529120005186 Switch I region; other site 529120005187 G2 box; other site 529120005188 G3 box; other site 529120005189 Switch II region; other site 529120005190 G4 box; other site 529120005191 G5 box; other site 529120005192 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 529120005193 Translation-initiation factor 2; Region: IF-2; pfam11987 529120005194 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 529120005195 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 529120005196 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 529120005197 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 529120005198 RNA binding site [nucleotide binding]; other site 529120005199 active site 529120005200 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 529120005201 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 529120005202 16S/18S rRNA binding site [nucleotide binding]; other site 529120005203 S13e-L30e interaction site [polypeptide binding]; other site 529120005204 25S rRNA binding site [nucleotide binding]; other site 529120005205 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 529120005206 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 529120005207 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 529120005208 PAS domain; Region: PAS; smart00091 529120005209 PAS domain; Region: PAS_9; pfam13426 529120005210 putative active site [active] 529120005211 heme pocket [chemical binding]; other site 529120005212 PAS fold; Region: PAS_4; pfam08448 529120005213 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 529120005214 putative active site [active] 529120005215 heme pocket [chemical binding]; other site 529120005216 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120005217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120005218 metal binding site [ion binding]; metal-binding site 529120005219 active site 529120005220 I-site; other site 529120005221 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 529120005222 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 529120005223 RNA binding surface [nucleotide binding]; other site 529120005224 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 529120005225 probable active site [active] 529120005226 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 529120005227 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 529120005228 Predicted amidohydrolase [General function prediction only]; Region: COG0388 529120005229 putative active site [active] 529120005230 catalytic triad [active] 529120005231 putative dimer interface [polypeptide binding]; other site 529120005232 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 529120005233 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 529120005234 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120005235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120005236 active site 529120005237 phosphorylation site [posttranslational modification] 529120005238 intermolecular recognition site; other site 529120005239 dimerization interface [polypeptide binding]; other site 529120005240 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 529120005241 binding surface 529120005242 TPR motif; other site 529120005243 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 529120005244 generic binding surface I; other site 529120005245 generic binding surface II; other site 529120005246 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 529120005247 putative catalytic site [active] 529120005248 putative metal binding site [ion binding]; other site 529120005249 putative phosphate binding site [ion binding]; other site 529120005250 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 529120005251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 529120005252 peroxiredoxin; Region: AhpC; TIGR03137 529120005253 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 529120005254 dimer interface [polypeptide binding]; other site 529120005255 decamer (pentamer of dimers) interface [polypeptide binding]; other site 529120005256 catalytic triad [active] 529120005257 peroxidatic and resolving cysteines [active] 529120005258 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 529120005259 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 529120005260 catalytic residue [active] 529120005261 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 529120005262 catalytic residues [active] 529120005263 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120005264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120005265 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 529120005266 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 529120005267 N-terminal plug; other site 529120005268 ligand-binding site [chemical binding]; other site 529120005269 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120005270 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120005271 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 529120005272 diiron binding motif [ion binding]; other site 529120005273 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 529120005274 Strictosidine synthase; Region: Str_synth; pfam03088 529120005275 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 529120005276 Active site serine [active] 529120005277 hypothetical protein; Provisional; Region: PRK01254 529120005278 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 529120005279 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 529120005280 EVE domain; Region: EVE; cl00728 529120005281 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120005282 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 529120005283 Uncharacterized conserved protein [Function unknown]; Region: COG0398 529120005284 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 529120005285 mercuric reductase; Validated; Region: PRK06370 529120005286 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120005287 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 529120005288 Protein of unknown function, DUF547; Region: DUF547; pfam04784 529120005289 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 529120005290 hypothetical protein; Provisional; Region: PRK11622 529120005291 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 529120005292 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 529120005293 dimer interface [polypeptide binding]; other site 529120005294 conserved gate region; other site 529120005295 putative PBP binding loops; other site 529120005296 ABC-ATPase subunit interface; other site 529120005297 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 529120005298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120005299 Walker A/P-loop; other site 529120005300 ATP binding site [chemical binding]; other site 529120005301 Q-loop/lid; other site 529120005302 ABC transporter signature motif; other site 529120005303 Walker B; other site 529120005304 D-loop; other site 529120005305 H-loop/switch region; other site 529120005306 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 529120005307 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 529120005308 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 529120005309 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 529120005310 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 529120005311 active site 529120005312 substrate binding site [chemical binding]; other site 529120005313 Mg2+ binding site [ion binding]; other site 529120005314 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 529120005315 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 529120005316 putative NAD(P) binding site [chemical binding]; other site 529120005317 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 529120005318 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 529120005319 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 529120005320 SnoaL-like domain; Region: SnoaL_4; pfam13577 529120005321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120005322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120005323 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 529120005324 dimerization interface [polypeptide binding]; other site 529120005325 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 529120005326 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 529120005327 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120005328 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 529120005329 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 529120005330 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 529120005331 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 529120005332 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 529120005333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120005334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120005335 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 529120005336 putative effector binding pocket; other site 529120005337 dimerization interface [polypeptide binding]; other site 529120005338 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120005339 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 529120005340 N-terminal plug; other site 529120005341 ligand-binding site [chemical binding]; other site 529120005342 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 529120005343 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 529120005344 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 529120005345 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 529120005346 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 529120005347 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 529120005348 Walker A/P-loop; other site 529120005349 ATP binding site [chemical binding]; other site 529120005350 Q-loop/lid; other site 529120005351 ABC transporter signature motif; other site 529120005352 Walker B; other site 529120005353 D-loop; other site 529120005354 H-loop/switch region; other site 529120005355 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 529120005356 putative active site [active] 529120005357 putative NTP binding site [chemical binding]; other site 529120005358 putative nucleic acid binding site [nucleotide binding]; other site 529120005359 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120005360 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 529120005361 putative active site [active] 529120005362 putative FMN binding site [chemical binding]; other site 529120005363 putative substrate binding site [chemical binding]; other site 529120005364 putative catalytic residue [active] 529120005365 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 529120005366 SmpB-tmRNA interface; other site 529120005367 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 529120005368 putative coenzyme Q binding site [chemical binding]; other site 529120005369 hypothetical protein; Validated; Region: PRK01777 529120005370 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 529120005371 MarR family; Region: MarR; pfam01047 529120005372 BCCT family transporter; Region: BCCT; cl00569 529120005373 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120005374 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120005375 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 529120005376 TPR repeat; Region: TPR_11; pfam13414 529120005377 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 529120005378 binding surface 529120005379 TPR motif; other site 529120005380 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 529120005381 TPR motif; other site 529120005382 Tetratricopeptide repeat; Region: TPR_16; pfam13432 529120005383 binding surface 529120005384 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 529120005385 binding surface 529120005386 TPR motif; other site 529120005387 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 529120005388 binding surface 529120005389 TPR motif; other site 529120005390 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 529120005391 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 529120005392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 529120005393 PEP synthetase regulatory protein; Provisional; Region: PRK05339 529120005394 phosphoenolpyruvate synthase; Validated; Region: PRK06464 529120005395 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 529120005396 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 529120005397 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 529120005398 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 529120005399 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 529120005400 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120005401 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120005402 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 529120005403 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 529120005404 catalytic loop [active] 529120005405 iron binding site [ion binding]; other site 529120005406 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 529120005407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 529120005408 Uncharacterized conserved protein [Function unknown]; Region: COG2850 529120005409 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 529120005410 cyclase homology domain; Region: CHD; cd07302 529120005411 nucleotidyl binding site; other site 529120005412 metal binding site [ion binding]; metal-binding site 529120005413 dimer interface [polypeptide binding]; other site 529120005414 adenylosuccinate lyase; Provisional; Region: PRK09285 529120005415 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 529120005416 tetramer interface [polypeptide binding]; other site 529120005417 active site 529120005418 putative lysogenization regulator; Reviewed; Region: PRK00218 529120005419 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 529120005420 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 529120005421 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 529120005422 pseudouridine synthase; Region: TIGR00093 529120005423 probable active site [active] 529120005424 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 529120005425 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 529120005426 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 529120005427 DNA-binding site [nucleotide binding]; DNA binding site 529120005428 RNA-binding motif; other site 529120005429 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 529120005430 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 529120005431 Clp amino terminal domain; Region: Clp_N; pfam02861 529120005432 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 529120005433 Walker A motif; other site 529120005434 ATP binding site [chemical binding]; other site 529120005435 Walker B motif; other site 529120005436 arginine finger; other site 529120005437 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 529120005438 Walker A motif; other site 529120005439 ATP binding site [chemical binding]; other site 529120005440 Walker B motif; other site 529120005441 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 529120005442 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 529120005443 rRNA binding site [nucleotide binding]; other site 529120005444 predicted 30S ribosome binding site; other site 529120005445 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 529120005446 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 529120005447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120005448 Coenzyme A binding pocket [chemical binding]; other site 529120005449 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 529120005450 thioredoxin reductase; Provisional; Region: PRK10262 529120005451 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120005452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120005453 Protein of unknown function, DUF412; Region: DUF412; pfam04217 529120005454 SprT homologues; Region: SprT; cl01182 529120005455 protease 4; Provisional; Region: PRK10949 529120005456 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 529120005457 tandem repeat interface [polypeptide binding]; other site 529120005458 oligomer interface [polypeptide binding]; other site 529120005459 active site residues [active] 529120005460 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 529120005461 tandem repeat interface [polypeptide binding]; other site 529120005462 oligomer interface [polypeptide binding]; other site 529120005463 active site residues [active] 529120005464 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 529120005465 putative FMN binding site [chemical binding]; other site 529120005466 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 529120005467 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 529120005468 active site 529120005469 homodimer interface [polypeptide binding]; other site 529120005470 lipoyl synthase; Provisional; Region: PRK05481 529120005471 lipoate-protein ligase B; Provisional; Region: PRK14342 529120005472 hypothetical protein; Provisional; Region: PRK04998 529120005473 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 529120005474 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 529120005475 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 529120005476 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 529120005477 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 529120005478 Sporulation related domain; Region: SPOR; pfam05036 529120005479 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 529120005480 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 529120005481 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 529120005482 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 529120005483 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 529120005484 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 529120005485 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 529120005486 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 529120005487 active site 529120005488 (T/H)XGH motif; other site 529120005489 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 529120005490 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 529120005491 Lipopolysaccharide-assembly; Region: LptE; cl01125 529120005492 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 529120005493 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 529120005494 HIGH motif; other site 529120005495 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 529120005496 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 529120005497 active site 529120005498 KMSKS motif; other site 529120005499 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 529120005500 tRNA binding surface [nucleotide binding]; other site 529120005501 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 529120005502 AAA domain; Region: AAA_32; pfam13654 529120005503 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 529120005504 RDD family; Region: RDD; pfam06271 529120005505 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 529120005506 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 529120005507 NAD binding site [chemical binding]; other site 529120005508 homodimer interface [polypeptide binding]; other site 529120005509 homotetramer interface [polypeptide binding]; other site 529120005510 active site 529120005511 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 529120005512 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 529120005513 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 529120005514 S-adenosylmethionine binding site [chemical binding]; other site 529120005515 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 529120005516 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 529120005517 Walker A motif; other site 529120005518 ATP binding site [chemical binding]; other site 529120005519 Walker B motif; other site 529120005520 arginine finger; other site 529120005521 Peptidase family M41; Region: Peptidase_M41; pfam01434 529120005522 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 529120005523 dihydropteroate synthase; Region: DHPS; TIGR01496 529120005524 substrate binding pocket [chemical binding]; other site 529120005525 dimer interface [polypeptide binding]; other site 529120005526 inhibitor binding site; inhibition site 529120005527 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 529120005528 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 529120005529 active site 529120005530 substrate binding site [chemical binding]; other site 529120005531 metal binding site [ion binding]; metal-binding site 529120005532 triosephosphate isomerase; Provisional; Region: PRK14567 529120005533 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 529120005534 substrate binding site [chemical binding]; other site 529120005535 dimer interface [polypeptide binding]; other site 529120005536 catalytic triad [active] 529120005537 Preprotein translocase SecG subunit; Region: SecG; pfam03840 529120005538 HAMP domain; Region: HAMP; pfam00672 529120005539 dimerization interface [polypeptide binding]; other site 529120005540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120005541 active site 529120005542 I-site; other site 529120005543 metal binding site [ion binding]; metal-binding site 529120005544 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 529120005545 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 529120005546 Hemerythrin-like domain; Region: Hr-like; cd12108 529120005547 Fe binding site [ion binding]; other site 529120005548 glutamate dehydrogenase; Provisional; Region: PRK09414 529120005549 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 529120005550 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 529120005551 NAD(P) binding pocket [chemical binding]; other site 529120005552 hypothetical protein; Provisional; Region: PRK12361 529120005553 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 529120005554 active site 529120005555 catalytic residues [active] 529120005556 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 529120005557 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 529120005558 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 529120005559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120005560 NAD(P) binding site [chemical binding]; other site 529120005561 active site 529120005562 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 529120005563 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 529120005564 active site 529120005565 motif I; other site 529120005566 motif II; other site 529120005567 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 529120005568 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 529120005569 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 529120005570 active site 529120005571 DNA binding site [nucleotide binding] 529120005572 Int/Topo IB signature motif; other site 529120005573 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 529120005574 Na binding site [ion binding]; other site 529120005575 gamma-glutamyl kinase; Provisional; Region: PRK13402 529120005576 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 529120005577 nucleotide binding site [chemical binding]; other site 529120005578 homotetrameric interface [polypeptide binding]; other site 529120005579 putative phosphate binding site [ion binding]; other site 529120005580 putative allosteric binding site; other site 529120005581 PUA domain; Region: PUA; cl00607 529120005582 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 529120005583 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 529120005584 putative catalytic cysteine [active] 529120005585 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120005586 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120005587 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 529120005588 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 529120005589 active site 529120005590 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 529120005591 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 529120005592 RNase E interface [polypeptide binding]; other site 529120005593 trimer interface [polypeptide binding]; other site 529120005594 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 529120005595 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 529120005596 RNase E interface [polypeptide binding]; other site 529120005597 trimer interface [polypeptide binding]; other site 529120005598 active site 529120005599 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 529120005600 putative nucleic acid binding region [nucleotide binding]; other site 529120005601 G-X-X-G motif; other site 529120005602 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 529120005603 RNA binding site [nucleotide binding]; other site 529120005604 domain interface; other site 529120005605 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 529120005606 RES domain; Region: RES; pfam08808 529120005607 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 529120005608 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 529120005609 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 529120005610 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 529120005611 Amidohydrolase; Region: Amidohydro_4; pfam13147 529120005612 active site 529120005613 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 529120005614 active site 529120005615 substrate binding sites [chemical binding]; other site 529120005616 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 529120005617 AAA domain; Region: AAA_17; pfam13207 529120005618 AAA domain; Region: AAA_18; pfam13238 529120005619 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120005620 Beta-lactamase; Region: Beta-lactamase; pfam00144 529120005621 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 529120005622 MAPEG family; Region: MAPEG; cl09190 529120005623 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 529120005624 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 529120005625 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 529120005626 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 529120005627 active site 529120005628 Zn binding site [ion binding]; other site 529120005629 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 529120005630 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120005631 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 529120005632 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120005633 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 529120005634 DNA binding residues [nucleotide binding] 529120005635 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 529120005636 active site 529120005637 catalytic motif [active] 529120005638 Zn binding site [ion binding]; other site 529120005639 lipoprotein NlpI; Provisional; Region: PRK11189 529120005640 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 529120005641 binding surface 529120005642 TPR motif; other site 529120005643 putative sulfate transport protein CysZ; Validated; Region: PRK04949 529120005644 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 529120005645 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 529120005646 Walker A/P-loop; other site 529120005647 ATP binding site [chemical binding]; other site 529120005648 Q-loop/lid; other site 529120005649 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 529120005650 ABC transporter signature motif; other site 529120005651 Walker B; other site 529120005652 D-loop; other site 529120005653 H-loop/switch region; other site 529120005654 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 529120005655 FtsZ protein binding site [polypeptide binding]; other site 529120005656 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 529120005657 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 529120005658 nucleotide binding pocket [chemical binding]; other site 529120005659 K-X-D-G motif; other site 529120005660 catalytic site [active] 529120005661 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 529120005662 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 529120005663 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 529120005664 Dimer interface [polypeptide binding]; other site 529120005665 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 529120005666 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 529120005667 Competence protein; Region: Competence; pfam03772 529120005668 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 529120005669 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 529120005670 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120005671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120005672 Walker A/P-loop; other site 529120005673 ATP binding site [chemical binding]; other site 529120005674 Q-loop/lid; other site 529120005675 ABC transporter signature motif; other site 529120005676 Walker B; other site 529120005677 D-loop; other site 529120005678 H-loop/switch region; other site 529120005679 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 529120005680 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 529120005681 Uncharacterized conserved protein [Function unknown]; Region: COG2835 529120005682 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 529120005683 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 529120005684 Ligand binding site; other site 529120005685 oligomer interface; other site 529120005686 C factor cell-cell signaling protein; Provisional; Region: PRK09009 529120005687 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 529120005688 NADP binding site [chemical binding]; other site 529120005689 homodimer interface [polypeptide binding]; other site 529120005690 active site 529120005691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120005692 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 529120005693 substrate binding pocket [chemical binding]; other site 529120005694 membrane-bound complex binding site; other site 529120005695 hinge residues; other site 529120005696 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 529120005697 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 529120005698 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 529120005699 FeS/SAM binding site; other site 529120005700 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 529120005701 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 529120005702 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 529120005703 putative ATP binding site [chemical binding]; other site 529120005704 putative substrate interface [chemical binding]; other site 529120005705 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 529120005706 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 529120005707 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 529120005708 putative dimer interface [polypeptide binding]; other site 529120005709 N-terminal domain interface [polypeptide binding]; other site 529120005710 putative substrate binding pocket (H-site) [chemical binding]; other site 529120005711 Pirin-related protein [General function prediction only]; Region: COG1741 529120005712 Pirin; Region: Pirin; pfam02678 529120005713 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 529120005714 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 529120005715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 529120005716 phosphomannomutase CpsG; Provisional; Region: PRK15414 529120005717 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 529120005718 active site 529120005719 substrate binding site [chemical binding]; other site 529120005720 metal binding site [ion binding]; metal-binding site 529120005721 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 529120005722 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 529120005723 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 529120005724 dimer interface [polypeptide binding]; other site 529120005725 active site 529120005726 citrylCoA binding site [chemical binding]; other site 529120005727 NADH binding [chemical binding]; other site 529120005728 cationic pore residues; other site 529120005729 oxalacetate/citrate binding site [chemical binding]; other site 529120005730 coenzyme A binding site [chemical binding]; other site 529120005731 catalytic triad [active] 529120005732 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 529120005733 Iron-sulfur protein interface; other site 529120005734 proximal quinone binding site [chemical binding]; other site 529120005735 SdhD (CybS) interface [polypeptide binding]; other site 529120005736 proximal heme binding site [chemical binding]; other site 529120005737 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 529120005738 SdhC subunit interface [polypeptide binding]; other site 529120005739 proximal heme binding site [chemical binding]; other site 529120005740 cardiolipin binding site; other site 529120005741 Iron-sulfur protein interface; other site 529120005742 proximal quinone binding site [chemical binding]; other site 529120005743 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 529120005744 L-aspartate oxidase; Provisional; Region: PRK06175 529120005745 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 529120005746 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 529120005747 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 529120005748 catalytic loop [active] 529120005749 iron binding site [ion binding]; other site 529120005750 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 529120005751 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 529120005752 TPP-binding site [chemical binding]; other site 529120005753 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 529120005754 dimer interface [polypeptide binding]; other site 529120005755 PYR/PP interface [polypeptide binding]; other site 529120005756 TPP binding site [chemical binding]; other site 529120005757 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 529120005758 E3 interaction surface; other site 529120005759 lipoyl attachment site [posttranslational modification]; other site 529120005760 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 529120005761 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 529120005762 E3 interaction surface; other site 529120005763 lipoyl attachment site [posttranslational modification]; other site 529120005764 e3 binding domain; Region: E3_binding; pfam02817 529120005765 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 529120005766 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 529120005767 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 529120005768 CoA-ligase; Region: Ligase_CoA; pfam00549 529120005769 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 529120005770 CoA binding domain; Region: CoA_binding; pfam02629 529120005771 CoA-ligase; Region: Ligase_CoA; pfam00549 529120005772 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120005773 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 529120005774 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 529120005775 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120005776 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120005777 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 529120005778 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 529120005779 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 529120005780 carbohydrate binding site [chemical binding]; other site 529120005781 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 529120005782 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 529120005783 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 529120005784 Ca binding site [ion binding]; other site 529120005785 active site 529120005786 catalytic site [active] 529120005787 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 529120005788 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 529120005789 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 529120005790 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 529120005791 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 529120005792 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 529120005793 active site 529120005794 nucleophile elbow; other site 529120005795 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 529120005796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 529120005797 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 529120005798 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 529120005799 active site 529120005800 catalytic site [active] 529120005801 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 529120005802 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 529120005803 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 529120005804 Ca binding site [ion binding]; other site 529120005805 active site 529120005806 homodimer interface [polypeptide binding]; other site 529120005807 catalytic site [active] 529120005808 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 529120005809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 529120005810 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 529120005811 putative substrate translocation pore; other site 529120005812 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 529120005813 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 529120005814 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 529120005815 active site 529120005816 catalytic site [active] 529120005817 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120005818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120005819 DNA binding site [nucleotide binding] 529120005820 domain linker motif; other site 529120005821 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 529120005822 putative dimerization interface [polypeptide binding]; other site 529120005823 putative ligand binding site [chemical binding]; other site 529120005824 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 529120005825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 529120005826 active site 529120005827 HIGH motif; other site 529120005828 nucleotide binding site [chemical binding]; other site 529120005829 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 529120005830 KMSKS motif; other site 529120005831 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 529120005832 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 529120005833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120005834 NAD(P) binding site [chemical binding]; other site 529120005835 active site 529120005836 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 529120005837 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 529120005838 Penicillin amidase; Region: Penicil_amidase; pfam01804 529120005839 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 529120005840 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 529120005841 active site 529120005842 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 529120005843 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 529120005844 putative inner membrane peptidase; Provisional; Region: PRK11778 529120005845 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 529120005846 tandem repeat interface [polypeptide binding]; other site 529120005847 oligomer interface [polypeptide binding]; other site 529120005848 active site residues [active] 529120005849 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120005850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120005851 Uncharacterized conserved protein [Function unknown]; Region: COG0327 529120005852 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 529120005853 Methyltransferase domain; Region: Methyltransf_31; pfam13847 529120005854 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 529120005855 S-adenosylmethionine binding site [chemical binding]; other site 529120005856 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 529120005857 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 529120005858 putative ligand binding site [chemical binding]; other site 529120005859 putative NAD binding site [chemical binding]; other site 529120005860 catalytic site [active] 529120005861 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 529120005862 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 529120005863 catalytic residues [active] 529120005864 dimer interface [polypeptide binding]; other site 529120005865 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 529120005866 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 529120005867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120005868 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120005869 active site 529120005870 phosphorylation site [posttranslational modification] 529120005871 intermolecular recognition site; other site 529120005872 dimerization interface [polypeptide binding]; other site 529120005873 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 529120005874 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 529120005875 substrate binding pocket [chemical binding]; other site 529120005876 FAD binding site [chemical binding]; other site 529120005877 catalytic base [active] 529120005878 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 529120005879 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 529120005880 substrate binding site [chemical binding]; other site 529120005881 oxyanion hole (OAH) forming residues; other site 529120005882 trimer interface [polypeptide binding]; other site 529120005883 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 529120005884 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 529120005885 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 529120005886 S-adenosylmethionine binding site [chemical binding]; other site 529120005887 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 529120005888 DEAD-like helicases superfamily; Region: DEXDc; smart00487 529120005889 ATP binding site [chemical binding]; other site 529120005890 Mg++ binding site [ion binding]; other site 529120005891 motif III; other site 529120005892 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 529120005893 nucleotide binding region [chemical binding]; other site 529120005894 ATP-binding site [chemical binding]; other site 529120005895 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120005896 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 529120005897 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 529120005898 heme binding site [chemical binding]; other site 529120005899 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 529120005900 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 529120005901 PAS domain S-box; Region: sensory_box; TIGR00229 529120005902 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 529120005903 putative active site [active] 529120005904 heme pocket [chemical binding]; other site 529120005905 PAS domain S-box; Region: sensory_box; TIGR00229 529120005906 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 529120005907 putative active site [active] 529120005908 heme pocket [chemical binding]; other site 529120005909 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 529120005910 PAS domain; Region: PAS_9; pfam13426 529120005911 putative active site [active] 529120005912 heme pocket [chemical binding]; other site 529120005913 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120005914 putative CheW interface [polypeptide binding]; other site 529120005915 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 529120005916 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 529120005917 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 529120005918 putative active site [active] 529120005919 putative active site [active] 529120005920 catalytic site [active] 529120005921 catalytic site [active] 529120005922 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 529120005923 putative active site [active] 529120005924 catalytic site [active] 529120005925 Uncharacterized conserved protein [Function unknown]; Region: COG0398 529120005926 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 529120005927 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 529120005928 putative catalytic site [active] 529120005929 putative metal binding site [ion binding]; other site 529120005930 putative phosphate binding site [ion binding]; other site 529120005931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120005932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120005933 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 529120005934 dimerization interface [polypeptide binding]; other site 529120005935 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120005936 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 529120005937 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 529120005938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 529120005939 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 529120005940 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 529120005941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120005942 homodimer interface [polypeptide binding]; other site 529120005943 catalytic residue [active] 529120005944 Response regulator receiver domain; Region: Response_reg; pfam00072 529120005945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120005946 active site 529120005947 phosphorylation site [posttranslational modification] 529120005948 intermolecular recognition site; other site 529120005949 dimerization interface [polypeptide binding]; other site 529120005950 CheC-like family; Region: CheC; pfam04509 529120005951 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 529120005952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120005953 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 529120005954 dimer interface [polypeptide binding]; other site 529120005955 phosphorylation site [posttranslational modification] 529120005956 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 529120005957 ATP binding site [chemical binding]; other site 529120005958 Mg2+ binding site [ion binding]; other site 529120005959 G-X-G motif; other site 529120005960 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 529120005961 DNA polymerase II; Reviewed; Region: PRK05762 529120005962 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 529120005963 active site 529120005964 catalytic site [active] 529120005965 substrate binding site [chemical binding]; other site 529120005966 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 529120005967 active site 529120005968 metal-binding site 529120005969 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 529120005970 pseudo EF-hand loop; other site 529120005971 peptide binding pocket; other site 529120005972 Ca2+ binding site [ion binding]; other site 529120005973 AMP-binding domain protein; Validated; Region: PRK08315 529120005974 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 529120005975 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 529120005976 acyl-activating enzyme (AAE) consensus motif; other site 529120005977 acyl-activating enzyme (AAE) consensus motif; other site 529120005978 putative AMP binding site [chemical binding]; other site 529120005979 putative active site [active] 529120005980 putative CoA binding site [chemical binding]; other site 529120005981 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 529120005982 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 529120005983 Nucleoid-associated protein [General function prediction only]; Region: COG3081 529120005984 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 529120005985 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 529120005986 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 529120005987 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120005988 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 529120005989 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 529120005990 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 529120005991 protein binding site [polypeptide binding]; other site 529120005992 Flagellar protein YcgR; Region: YcgR_2; pfam12945 529120005993 PilZ domain; Region: PilZ; pfam07238 529120005994 Protein of unknown function (DUF962); Region: DUF962; cl01879 529120005995 Histidine kinase; Region: His_kinase; pfam06580 529120005996 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 529120005997 ATP binding site [chemical binding]; other site 529120005998 Mg2+ binding site [ion binding]; other site 529120005999 G-X-G motif; other site 529120006000 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 529120006001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006002 active site 529120006003 phosphorylation site [posttranslational modification] 529120006004 intermolecular recognition site; other site 529120006005 dimerization interface [polypeptide binding]; other site 529120006006 LytTr DNA-binding domain; Region: LytTR; smart00850 529120006007 6-phosphofructokinase; Provisional; Region: PRK03202 529120006008 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 529120006009 active site 529120006010 ADP/pyrophosphate binding site [chemical binding]; other site 529120006011 dimerization interface [polypeptide binding]; other site 529120006012 allosteric effector site; other site 529120006013 fructose-1,6-bisphosphate binding site; other site 529120006014 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120006015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006016 active site 529120006017 phosphorylation site [posttranslational modification] 529120006018 intermolecular recognition site; other site 529120006019 dimerization interface [polypeptide binding]; other site 529120006020 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 529120006021 binding surface 529120006022 TPR motif; other site 529120006023 TPR repeat; Region: TPR_11; pfam13414 529120006024 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 529120006025 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 529120006026 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 529120006027 active site residue [active] 529120006028 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 529120006029 EF-hand domain pair; Region: EF_hand_5; pfam13499 529120006030 Ca2+ binding site [ion binding]; other site 529120006031 Restriction endonuclease; Region: Mrr_cat; pfam04471 529120006032 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 529120006033 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 529120006034 ATP binding site [chemical binding]; other site 529120006035 putative Mg++ binding site [ion binding]; other site 529120006036 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 529120006037 nucleotide binding region [chemical binding]; other site 529120006038 ATP-binding site [chemical binding]; other site 529120006039 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 529120006040 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 529120006041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120006042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120006043 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 529120006044 putative dimerization interface [polypeptide binding]; other site 529120006045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120006046 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 529120006047 ATP binding site [chemical binding]; other site 529120006048 Mg2+ binding site [ion binding]; other site 529120006049 G-X-G motif; other site 529120006050 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 529120006051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120006052 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 529120006053 substrate binding site [chemical binding]; other site 529120006054 dimerization interface [polypeptide binding]; other site 529120006055 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 529120006056 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 529120006057 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 529120006058 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 529120006059 putative active site [active] 529120006060 putative CoA binding site [chemical binding]; other site 529120006061 nudix motif; other site 529120006062 metal binding site [ion binding]; metal-binding site 529120006063 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 529120006064 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 529120006065 chorismate binding enzyme; Region: Chorismate_bind; cl10555 529120006066 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 529120006067 Fumarase C-terminus; Region: Fumerase_C; pfam05683 529120006068 RmuC family; Region: RmuC; pfam02646 529120006069 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 529120006070 active site 529120006071 catalytic residues [active] 529120006072 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 529120006073 PA/protease or protease-like domain interface [polypeptide binding]; other site 529120006074 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 529120006075 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 529120006076 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 529120006077 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 529120006078 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 529120006079 tetramer interface [polypeptide binding]; other site 529120006080 TPP-binding site [chemical binding]; other site 529120006081 heterodimer interface [polypeptide binding]; other site 529120006082 phosphorylation loop region [posttranslational modification] 529120006083 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 529120006084 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 529120006085 alpha subunit interface [polypeptide binding]; other site 529120006086 TPP binding site [chemical binding]; other site 529120006087 heterodimer interface [polypeptide binding]; other site 529120006088 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 529120006089 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 529120006090 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 529120006091 E3 interaction surface; other site 529120006092 lipoyl attachment site [posttranslational modification]; other site 529120006093 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 529120006094 E3 interaction surface; other site 529120006095 lipoyl attachment site [posttranslational modification]; other site 529120006096 e3 binding domain; Region: E3_binding; pfam02817 529120006097 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 529120006098 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 529120006099 Catalytic domain of Protein Kinases; Region: PKc; cd00180 529120006100 active site 529120006101 ATP binding site [chemical binding]; other site 529120006102 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 529120006103 substrate binding site [chemical binding]; other site 529120006104 activation loop (A-loop); other site 529120006105 acyl-CoA thioesterase II; Provisional; Region: PRK10526 529120006106 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 529120006107 active site 529120006108 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 529120006109 catalytic triad [active] 529120006110 dimer interface [polypeptide binding]; other site 529120006111 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 529120006112 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 529120006113 trimer interface [polypeptide binding]; other site 529120006114 putative metal binding site [ion binding]; other site 529120006115 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 529120006116 homodimer interface [polypeptide binding]; other site 529120006117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006118 catalytic residue [active] 529120006119 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 529120006120 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 529120006121 ProP expression regulator; Provisional; Region: PRK04950 529120006122 ProQ/FINO family; Region: ProQ; pfam04352 529120006123 carboxy-terminal protease; Provisional; Region: PRK11186 529120006124 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 529120006125 protein binding site [polypeptide binding]; other site 529120006126 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 529120006127 Catalytic dyad [active] 529120006128 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 529120006129 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 529120006130 Na2 binding site [ion binding]; other site 529120006131 putative substrate binding site 1 [chemical binding]; other site 529120006132 Na binding site 1 [ion binding]; other site 529120006133 putative substrate binding site 2 [chemical binding]; other site 529120006134 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 529120006135 aminopeptidase N; Provisional; Region: pepN; PRK14015 529120006136 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 529120006137 Zn binding site [ion binding]; other site 529120006138 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 529120006139 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 529120006140 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 529120006141 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 529120006142 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 529120006143 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 529120006144 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 529120006145 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 529120006146 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 529120006147 quinone interaction residues [chemical binding]; other site 529120006148 active site 529120006149 catalytic residues [active] 529120006150 FMN binding site [chemical binding]; other site 529120006151 substrate binding site [chemical binding]; other site 529120006152 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 529120006153 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 529120006154 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 529120006155 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 529120006156 putative RNA binding site [nucleotide binding]; other site 529120006157 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; cl00234 529120006158 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 529120006159 S-adenosylmethionine binding site [chemical binding]; other site 529120006160 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 529120006161 ABC transporter ATPase component; Reviewed; Region: PRK11147 529120006162 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120006163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120006164 ABC transporter; Region: ABC_tran_2; pfam12848 529120006165 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120006166 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 529120006167 Ribosome modulation factor; Region: RMF; pfam04957 529120006168 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 529120006169 active site 1 [active] 529120006170 dimer interface [polypeptide binding]; other site 529120006171 active site 2 [active] 529120006172 DNA photolyase; Region: DNA_photolyase; pfam00875 529120006173 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 529120006174 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 529120006175 DNA photolyase; Region: DNA_photolyase; pfam00875 529120006176 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 529120006177 DNA photolyase; Region: DNA_photolyase; pfam00875 529120006178 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 529120006179 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 529120006180 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 529120006181 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 529120006182 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 529120006183 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 529120006184 IucA / IucC family; Region: IucA_IucC; pfam04183 529120006185 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 529120006186 IucA / IucC family; Region: IucA_IucC; pfam04183 529120006187 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 529120006188 acyl-CoA synthetase; Validated; Region: PRK08308 529120006189 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 529120006190 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 529120006191 acyl-activating enzyme (AAE) consensus motif; other site 529120006192 acyl-activating enzyme (AAE) consensus motif; other site 529120006193 AMP binding site [chemical binding]; other site 529120006194 active site 529120006195 CoA binding site [chemical binding]; other site 529120006196 acyl carrier protein; Provisional; Region: PRK07639 529120006197 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 529120006198 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120006199 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 529120006200 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120006201 Acyltransferase family; Region: Acyl_transf_3; pfam01757 529120006202 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 529120006203 HAMP domain; Region: HAMP; pfam00672 529120006204 dimerization interface [polypeptide binding]; other site 529120006205 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 529120006206 dimer interface [polypeptide binding]; other site 529120006207 phosphorylation site [posttranslational modification] 529120006208 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 529120006209 Mg2+ binding site [ion binding]; other site 529120006210 G-X-G motif; other site 529120006211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120006212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006213 active site 529120006214 phosphorylation site [posttranslational modification] 529120006215 intermolecular recognition site; other site 529120006216 dimerization interface [polypeptide binding]; other site 529120006217 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 529120006218 DNA binding site [nucleotide binding] 529120006219 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 529120006220 Predicted membrane protein [Function unknown]; Region: COG4325 529120006221 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 529120006222 active site 529120006223 DNA binding site [nucleotide binding] 529120006224 Int/Topo IB signature motif; other site 529120006225 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 529120006226 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 529120006227 Ligand Binding Site [chemical binding]; other site 529120006228 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 529120006229 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 529120006230 active site 529120006231 FMN binding site [chemical binding]; other site 529120006232 substrate binding site [chemical binding]; other site 529120006233 3Fe-4S cluster binding site [ion binding]; other site 529120006234 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 529120006235 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 529120006236 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 529120006237 TrkA-N domain; Region: TrkA_N; pfam02254 529120006238 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 529120006239 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 529120006240 heme binding site [chemical binding]; other site 529120006241 ferroxidase pore; other site 529120006242 ferroxidase diiron center [ion binding]; other site 529120006243 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 529120006244 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 529120006245 heme binding site [chemical binding]; other site 529120006246 ferroxidase pore; other site 529120006247 ferroxidase diiron center [ion binding]; other site 529120006248 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 529120006249 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 529120006250 Low-spin heme binding site [chemical binding]; other site 529120006251 Putative water exit pathway; other site 529120006252 Binuclear center (active site) [active] 529120006253 Putative proton exit pathway; other site 529120006254 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 529120006255 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 529120006256 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 529120006257 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 529120006258 Cytochrome c; Region: Cytochrom_C; pfam00034 529120006259 Cytochrome c; Region: Cytochrom_C; pfam00034 529120006260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 529120006261 FixH; Region: FixH; pfam05751 529120006262 potential frameshift: common BLAST hit: gi|332141487|ref|YP_004427225.1| copper-translocating P-type ATPase 529120006263 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 529120006264 Family description; Region: DsbD_2; pfam13386 529120006265 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 529120006266 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 529120006267 ligand binding site [chemical binding]; other site 529120006268 flexible hinge region; other site 529120006269 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 529120006270 putative switch regulator; other site 529120006271 non-specific DNA interactions [nucleotide binding]; other site 529120006272 DNA binding site [nucleotide binding] 529120006273 sequence specific DNA binding site [nucleotide binding]; other site 529120006274 putative cAMP binding site [chemical binding]; other site 529120006275 universal stress protein UspE; Provisional; Region: PRK11175 529120006276 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 529120006277 Ligand Binding Site [chemical binding]; other site 529120006278 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 529120006279 Ligand Binding Site [chemical binding]; other site 529120006280 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 529120006281 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 529120006282 Ligand Binding Site [chemical binding]; other site 529120006283 hypothetical protein; Provisional; Region: PRK10279 529120006284 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 529120006285 nucleophile elbow; other site 529120006286 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 529120006287 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 529120006288 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 529120006289 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 529120006290 LysE type translocator; Region: LysE; cl00565 529120006291 NAD-dependent deacetylase; Provisional; Region: PRK00481 529120006292 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 529120006293 NAD+ binding site [chemical binding]; other site 529120006294 substrate binding site [chemical binding]; other site 529120006295 Zn binding site [ion binding]; other site 529120006296 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 529120006297 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 529120006298 active site residue [active] 529120006299 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 529120006300 active site residue [active] 529120006301 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 529120006302 dimer interface [polypeptide binding]; other site 529120006303 catalytic triad [active] 529120006304 peroxidatic and resolving cysteines [active] 529120006305 Uncharacterized conserved protein [Function unknown]; Region: COG3148 529120006306 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 529120006307 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 529120006308 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 529120006309 active site 529120006310 catalytic site [active] 529120006311 putative DNA binding site [nucleotide binding]; other site 529120006312 GIY-YIG motif/motif A; other site 529120006313 metal binding site [ion binding]; metal-binding site 529120006314 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 529120006315 Helix-hairpin-helix motif; Region: HHH; pfam00633 529120006316 response regulator; Provisional; Region: PRK09483 529120006317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006318 active site 529120006319 phosphorylation site [posttranslational modification] 529120006320 intermolecular recognition site; other site 529120006321 dimerization interface [polypeptide binding]; other site 529120006322 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 529120006323 DNA binding residues [nucleotide binding] 529120006324 dimerization interface [polypeptide binding]; other site 529120006325 Pirin-related protein [General function prediction only]; Region: COG1741 529120006326 Pirin; Region: Pirin; pfam02678 529120006327 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 529120006328 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 529120006329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006330 homodimer interface [polypeptide binding]; other site 529120006331 catalytic residue [active] 529120006332 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 529120006333 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 529120006334 Methyltransferase domain; Region: Methyltransf_31; pfam13847 529120006335 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 529120006336 S-adenosylmethionine binding site [chemical binding]; other site 529120006337 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 529120006338 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 529120006339 putative active site [active] 529120006340 metal binding site [ion binding]; metal-binding site 529120006341 DoxX; Region: DoxX; pfam07681 529120006342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120006343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120006344 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 529120006345 putative effector binding pocket; other site 529120006346 dimerization interface [polypeptide binding]; other site 529120006347 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 529120006348 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 529120006349 YccA-like proteins; Region: YccA_like; cd10433 529120006350 DsrE/DsrF-like family; Region: DrsE; cl00672 529120006351 DsrE/DsrF-like family; Region: DrsE; cl00672 529120006352 DsrC like protein; Region: DsrC; pfam04358 529120006353 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 529120006354 Protein required for attachment to host cells; Region: Host_attach; pfam10116 529120006355 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 529120006356 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 529120006357 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120006358 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 529120006359 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 529120006360 seryl-tRNA synthetase; Provisional; Region: PRK05431 529120006361 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 529120006362 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 529120006363 dimer interface [polypeptide binding]; other site 529120006364 active site 529120006365 motif 1; other site 529120006366 motif 2; other site 529120006367 motif 3; other site 529120006368 CrcB-like protein; Region: CRCB; cl09114 529120006369 recombination factor protein RarA; Reviewed; Region: PRK13342 529120006370 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 529120006371 Walker A motif; other site 529120006372 ATP binding site [chemical binding]; other site 529120006373 Walker B motif; other site 529120006374 arginine finger; other site 529120006375 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 529120006376 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 529120006377 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 529120006378 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 529120006379 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 529120006380 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 529120006381 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 529120006382 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 529120006383 putative DNA binding site [nucleotide binding]; other site 529120006384 putative Zn2+ binding site [ion binding]; other site 529120006385 AsnC family; Region: AsnC_trans_reg; pfam01037 529120006386 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 529120006387 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 529120006388 hexamer interface [polypeptide binding]; other site 529120006389 ligand binding site [chemical binding]; other site 529120006390 putative active site [active] 529120006391 NAD(P) binding site [chemical binding]; other site 529120006392 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 529120006393 active site 529120006394 dimer interface [polypeptide binding]; other site 529120006395 tetratricopeptide repeat protein; Provisional; Region: PRK11788 529120006396 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 529120006397 binding surface 529120006398 TPR motif; other site 529120006399 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 529120006400 binding surface 529120006401 TPR motif; other site 529120006402 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 529120006403 PilZ domain; Region: PilZ; pfam07238 529120006404 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 529120006405 IHF dimer interface [polypeptide binding]; other site 529120006406 IHF - DNA interface [nucleotide binding]; other site 529120006407 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 529120006408 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 529120006409 RNA binding site [nucleotide binding]; other site 529120006410 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 529120006411 RNA binding site [nucleotide binding]; other site 529120006412 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 529120006413 RNA binding site [nucleotide binding]; other site 529120006414 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 529120006415 RNA binding site [nucleotide binding]; other site 529120006416 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 529120006417 RNA binding site [nucleotide binding]; other site 529120006418 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 529120006419 RNA binding site [nucleotide binding]; other site 529120006420 cytidylate kinase; Provisional; Region: cmk; PRK00023 529120006421 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 529120006422 CMP-binding site; other site 529120006423 The sites determining sugar specificity; other site 529120006424 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 529120006425 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 529120006426 hinge; other site 529120006427 active site 529120006428 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 529120006429 homodimer interface [polypeptide binding]; other site 529120006430 substrate-cofactor binding pocket; other site 529120006431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006432 catalytic residue [active] 529120006433 DNA gyrase subunit A; Validated; Region: PRK05560 529120006434 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 529120006435 CAP-like domain; other site 529120006436 active site 529120006437 primary dimer interface [polypeptide binding]; other site 529120006438 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006439 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006440 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006441 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006442 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 529120006444 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 529120006445 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 529120006446 S-adenosylmethionine binding site [chemical binding]; other site 529120006447 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 529120006448 ATP cone domain; Region: ATP-cone; pfam03477 529120006449 Class I ribonucleotide reductase; Region: RNR_I; cd01679 529120006450 active site 529120006451 dimer interface [polypeptide binding]; other site 529120006452 catalytic residues [active] 529120006453 effector binding site; other site 529120006454 R2 peptide binding site; other site 529120006455 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 529120006456 dimer interface [polypeptide binding]; other site 529120006457 putative radical transfer pathway; other site 529120006458 diiron center [ion binding]; other site 529120006459 tyrosyl radical; other site 529120006460 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 529120006461 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 529120006462 catalytic loop [active] 529120006463 iron binding site [ion binding]; other site 529120006464 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 529120006465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120006466 NAD(P) binding site [chemical binding]; other site 529120006467 active site 529120006468 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 529120006469 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120006470 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 529120006471 putative active site [active] 529120006472 putative FMN binding site [chemical binding]; other site 529120006473 putative substrate binding site [chemical binding]; other site 529120006474 putative catalytic residue [active] 529120006475 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120006476 GAF domain; Region: GAF; pfam01590 529120006477 GAF domain; Region: GAF_2; pfam13185 529120006478 GAF domain; Region: GAF; pfam01590 529120006479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120006480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120006481 metal binding site [ion binding]; metal-binding site 529120006482 active site 529120006483 I-site; other site 529120006484 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 529120006485 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 529120006486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120006487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120006488 metal binding site [ion binding]; metal-binding site 529120006489 active site 529120006490 I-site; other site 529120006491 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 529120006492 EamA-like transporter family; Region: EamA; pfam00892 529120006493 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 529120006494 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 529120006495 ATP binding site [chemical binding]; other site 529120006496 active site 529120006497 substrate binding site [chemical binding]; other site 529120006498 lipoprotein; Provisional; Region: PRK11679 529120006499 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 529120006500 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 529120006501 dihydrodipicolinate synthase; Region: dapA; TIGR00674 529120006502 dimer interface [polypeptide binding]; other site 529120006503 active site 529120006504 catalytic residue [active] 529120006505 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 529120006506 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 529120006507 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 529120006508 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 529120006509 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 529120006510 catalytic triad [active] 529120006511 Domain of unknown function DUF20; Region: UPF0118; pfam01594 529120006512 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 529120006513 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 529120006514 Peptidase family M48; Region: Peptidase_M48; pfam01435 529120006515 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 529120006516 TPR motif; other site 529120006517 binding surface 529120006518 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 529120006519 binding surface 529120006520 TPR motif; other site 529120006521 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 529120006522 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 529120006523 catalytic residues [active] 529120006524 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 529120006525 ArsC family; Region: ArsC; pfam03960 529120006526 catalytic residues [active] 529120006527 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120006528 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 529120006529 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 529120006530 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 529120006531 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 529120006532 ATP binding site [chemical binding]; other site 529120006533 Walker A motif; other site 529120006534 Walker B motif; other site 529120006535 arginine finger; other site 529120006536 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 529120006537 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 529120006538 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 529120006539 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 529120006540 dimerization interface [polypeptide binding]; other site 529120006541 putative ATP binding site [chemical binding]; other site 529120006542 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 529120006543 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 529120006544 active site 529120006545 substrate binding site [chemical binding]; other site 529120006546 cosubstrate binding site; other site 529120006547 catalytic site [active] 529120006548 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 529120006549 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 529120006550 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 529120006551 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 529120006552 active site 529120006553 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 529120006554 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 529120006555 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120006556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006557 active site 529120006558 phosphorylation site [posttranslational modification] 529120006559 intermolecular recognition site; other site 529120006560 dimerization interface [polypeptide binding]; other site 529120006561 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 529120006562 DNA binding residues [nucleotide binding] 529120006563 dimerization interface [polypeptide binding]; other site 529120006564 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 529120006565 S-adenosylmethionine binding site [chemical binding]; other site 529120006566 Methyltransferase domain; Region: Methyltransf_31; pfam13847 529120006567 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 529120006568 S-adenosylmethionine binding site [chemical binding]; other site 529120006569 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 529120006570 active site 529120006571 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 529120006572 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 529120006573 active site 529120006574 motif I; other site 529120006575 motif II; other site 529120006576 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 529120006577 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 529120006578 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 529120006579 trehalose synthase; Region: treS_nterm; TIGR02456 529120006580 active site 529120006581 homodimer interface [polypeptide binding]; other site 529120006582 catalytic site [active] 529120006583 phosphoglycolate phosphatase; Provisional; Region: PRK13222 529120006584 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 529120006585 motif II; other site 529120006586 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 529120006587 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 529120006588 dimer interface [polypeptide binding]; other site 529120006589 putative functional site; other site 529120006590 putative MPT binding site; other site 529120006591 multidrug efflux protein; Reviewed; Region: PRK01766 529120006592 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 529120006593 cation binding site [ion binding]; other site 529120006594 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 529120006595 Ligand binding site; other site 529120006596 metal-binding site 529120006597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 529120006598 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 529120006599 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 529120006600 Walker A motif; other site 529120006601 ATP binding site [chemical binding]; other site 529120006602 Walker B motif; other site 529120006603 arginine finger; other site 529120006604 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 529120006605 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 529120006606 dimer interface [polypeptide binding]; other site 529120006607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006608 catalytic residue [active] 529120006609 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 529120006610 chromosomal replication initiation protein; Provisional; Region: PRK12422 529120006611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 529120006612 Transposase; Region: HTH_Tnp_1; pfam01527 529120006613 putative transposase OrfB; Reviewed; Region: PHA02517 529120006614 HTH-like domain; Region: HTH_21; pfam13276 529120006615 Integrase core domain; Region: rve; pfam00665 529120006616 Integrase core domain; Region: rve_3; pfam13683 529120006617 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 529120006618 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 529120006619 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 529120006620 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120006621 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 529120006622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 529120006623 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 529120006624 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 529120006625 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 529120006626 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 529120006627 enoyl-CoA hydratase; Provisional; Region: PRK06688 529120006628 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 529120006629 substrate binding site [chemical binding]; other site 529120006630 oxyanion hole (OAH) forming residues; other site 529120006631 trimer interface [polypeptide binding]; other site 529120006632 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 529120006633 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 529120006634 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120006635 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 529120006636 catalytic residues [active] 529120006637 dimer interface [polypeptide binding]; other site 529120006638 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120006639 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 529120006640 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 529120006641 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 529120006642 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 529120006643 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 529120006644 CHRD domain; Region: CHRD; pfam07452 529120006645 CHRD domain; Region: CHRD; pfam07452 529120006646 CHRD domain; Region: CHRD; pfam07452 529120006647 hypothetical protein; Provisional; Region: PRK05939 529120006648 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 529120006649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120006650 catalytic residue [active] 529120006651 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 529120006652 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 529120006653 putative acyl-acceptor binding pocket; other site 529120006654 NRDE protein; Region: NRDE; cl01315 529120006655 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 529120006656 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 529120006657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006658 homodimer interface [polypeptide binding]; other site 529120006659 catalytic residue [active] 529120006660 Peptidase S46; Region: Peptidase_S46; pfam10459 529120006661 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 529120006662 short chain dehydrogenase; Provisional; Region: PRK07035 529120006663 classical (c) SDRs; Region: SDR_c; cd05233 529120006664 NAD(P) binding site [chemical binding]; other site 529120006665 active site 529120006666 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 529120006667 classical (c) SDRs; Region: SDR_c; cd05233 529120006668 NAD(P) binding site [chemical binding]; other site 529120006669 active site 529120006670 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 529120006671 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 529120006672 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120006673 active site 529120006674 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 529120006675 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 529120006676 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 529120006677 conserved cys residue [active] 529120006678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120006679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120006680 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120006681 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 529120006682 N-terminal plug; other site 529120006683 ligand-binding site [chemical binding]; other site 529120006684 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 529120006685 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120006686 potential frameshift: common BLAST hit: gi|332142145|ref|YP_004427883.1| RND family efflux transporter 529120006687 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120006688 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120006689 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 529120006690 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 529120006691 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 529120006692 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 529120006693 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 529120006694 Ligand binding site [chemical binding]; other site 529120006695 Electron transfer flavoprotein domain; Region: ETF; pfam01012 529120006696 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 529120006697 hydroxyglutarate oxidase; Provisional; Region: PRK11728 529120006698 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 529120006699 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 529120006700 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 529120006701 acyl-CoA esterase; Provisional; Region: PRK10673 529120006702 PGAP1-like protein; Region: PGAP1; pfam07819 529120006703 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 529120006704 flavodoxin FldA; Validated; Region: PRK09267 529120006705 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 529120006706 dimerization interface [polypeptide binding]; other site 529120006707 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120006708 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120006709 dimer interface [polypeptide binding]; other site 529120006710 putative CheW interface [polypeptide binding]; other site 529120006711 ferric uptake regulator; Provisional; Region: fur; PRK09462 529120006712 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 529120006713 metal binding site 2 [ion binding]; metal-binding site 529120006714 putative DNA binding helix; other site 529120006715 metal binding site 1 [ion binding]; metal-binding site 529120006716 dimer interface [polypeptide binding]; other site 529120006717 structural Zn2+ binding site [ion binding]; other site 529120006718 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 529120006719 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 529120006720 homodimer interface [polypeptide binding]; other site 529120006721 substrate-cofactor binding pocket; other site 529120006722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006723 catalytic residue [active] 529120006724 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 529120006725 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 529120006726 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 529120006727 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 529120006728 putative active site [active] 529120006729 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 529120006730 S1 domain; Region: S1_2; pfam13509 529120006731 OsmC-like protein; Region: OsmC; cl00767 529120006732 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120006733 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120006734 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120006735 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 529120006736 potential frameshift: common BLAST hit: gi|332142073|ref|YP_004427811.1| acriflavin resistance protein 529120006737 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 529120006738 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 529120006739 potential frameshift: common BLAST hit: gi|332142076|ref|YP_004427814.1| aminotransferase AlaT 529120006740 5'-nucleotidase; Provisional; Region: PRK03826 529120006741 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 529120006742 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 529120006743 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 529120006744 TMAO/DMSO reductase; Reviewed; Region: PRK05363 529120006745 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 529120006746 Moco binding site; other site 529120006747 metal coordination site [ion binding]; other site 529120006748 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 529120006749 Predicted membrane protein [Function unknown]; Region: COG1238 529120006750 SEC-C motif; Region: SEC-C; pfam02810 529120006751 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 529120006752 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 529120006753 active site 529120006754 Ca binding site [ion binding]; other site 529120006755 catalytic site [active] 529120006756 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 529120006757 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 529120006758 NAD(P) binding site [chemical binding]; other site 529120006759 Phosphotransferase enzyme family; Region: APH; pfam01636 529120006760 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 529120006761 putative active site [active] 529120006762 putative substrate binding site [chemical binding]; other site 529120006763 ATP binding site [chemical binding]; other site 529120006764 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 529120006765 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120006766 active site 529120006767 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 529120006768 catalytic core [active] 529120006769 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 529120006770 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120006771 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120006772 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 529120006773 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 529120006774 XdhC Rossmann domain; Region: XdhC_C; pfam13478 529120006775 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 529120006776 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 529120006777 catalytic residues [active] 529120006778 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 529120006779 active site 529120006780 catalytic triad [active] 529120006781 oxyanion hole [active] 529120006782 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 529120006783 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 529120006784 FeS/SAM binding site; other site 529120006785 HemN C-terminal domain; Region: HemN_C; pfam06969 529120006786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120006787 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 529120006788 Walker A/P-loop; other site 529120006789 ATP binding site [chemical binding]; other site 529120006790 Q-loop/lid; other site 529120006791 ABC transporter signature motif; other site 529120006792 Walker B; other site 529120006793 D-loop; other site 529120006794 H-loop/switch region; other site 529120006795 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 529120006796 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 529120006797 putative PBP binding loops; other site 529120006798 dimer interface [polypeptide binding]; other site 529120006799 ABC-ATPase subunit interface; other site 529120006800 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 529120006801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 529120006802 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 529120006803 MoaE homodimer interface [polypeptide binding]; other site 529120006804 MoaD interaction [polypeptide binding]; other site 529120006805 active site residues [active] 529120006806 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 529120006807 MoaE interaction surface [polypeptide binding]; other site 529120006808 MoeB interaction surface [polypeptide binding]; other site 529120006809 thiocarboxylated glycine; other site 529120006810 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 529120006811 trimer interface [polypeptide binding]; other site 529120006812 dimer interface [polypeptide binding]; other site 529120006813 putative active site [active] 529120006814 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 529120006815 MPT binding site; other site 529120006816 trimer interface [polypeptide binding]; other site 529120006817 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 529120006818 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 529120006819 ATP binding site [chemical binding]; other site 529120006820 substrate interface [chemical binding]; other site 529120006821 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 529120006822 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 529120006823 active site 529120006824 Zn binding site [ion binding]; other site 529120006825 HNH endonuclease; Region: HNH_5; pfam14279 529120006826 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 529120006827 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 529120006828 active site 529120006829 putative protease; Provisional; Region: PRK15452 529120006830 Peptidase family U32; Region: Peptidase_U32; pfam01136 529120006831 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 529120006832 aminotransferase; Validated; Region: PRK07337 529120006833 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 529120006834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006835 homodimer interface [polypeptide binding]; other site 529120006836 catalytic residue [active] 529120006837 Uncharacterized conserved protein [Function unknown]; Region: COG3268 529120006838 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 529120006839 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 529120006840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006841 homodimer interface [polypeptide binding]; other site 529120006842 catalytic residue [active] 529120006843 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 529120006844 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 529120006845 methionine synthase; Provisional; Region: PRK01207 529120006846 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 529120006847 substrate binding site [chemical binding]; other site 529120006848 THF binding site; other site 529120006849 zinc-binding site [ion binding]; other site 529120006850 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 529120006851 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 529120006852 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 529120006853 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 529120006854 EamA-like transporter family; Region: EamA; pfam00892 529120006855 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 529120006856 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 529120006857 active site 529120006858 DNA binding site [nucleotide binding] 529120006859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120006860 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 529120006861 active site 529120006862 metal binding site [ion binding]; metal-binding site 529120006863 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120006864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 529120006865 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 529120006866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120006867 DNA-binding site [nucleotide binding]; DNA binding site 529120006868 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 529120006869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120006870 homodimer interface [polypeptide binding]; other site 529120006871 catalytic residue [active] 529120006872 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 529120006873 AAA domain; Region: AAA_30; pfam13604 529120006874 Family description; Region: UvrD_C_2; pfam13538 529120006875 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 529120006876 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 529120006877 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 529120006878 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 529120006879 dUTPase; Region: dUTPase_2; pfam08761 529120006880 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 529120006881 active site 529120006882 homodimer interface [polypeptide binding]; other site 529120006883 metal binding site [ion binding]; metal-binding site 529120006884 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 529120006885 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 529120006886 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 529120006887 acyl-activating enzyme (AAE) consensus motif; other site 529120006888 putative AMP binding site [chemical binding]; other site 529120006889 putative active site [active] 529120006890 putative CoA binding site [chemical binding]; other site 529120006891 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 529120006892 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 529120006893 PAS domain; Region: PAS_9; pfam13426 529120006894 putative active site [active] 529120006895 heme pocket [chemical binding]; other site 529120006896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120006897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120006898 metal binding site [ion binding]; metal-binding site 529120006899 active site 529120006900 I-site; other site 529120006901 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 529120006902 conserved hypothetical protein; Region: MG423; TIGR00649 529120006903 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 529120006904 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 529120006905 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 529120006906 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 529120006907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120006908 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 529120006909 dimerization interface [polypeptide binding]; other site 529120006910 Protein of unknown function, DUF; Region: DUF413; cl10479 529120006911 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 529120006912 dimerization interface [polypeptide binding]; other site 529120006913 putative DNA binding site [nucleotide binding]; other site 529120006914 putative Zn2+ binding site [ion binding]; other site 529120006915 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 529120006916 active site residue [active] 529120006917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120006918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120006919 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 529120006920 dimerization interface [polypeptide binding]; other site 529120006921 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 529120006922 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 529120006923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006924 active site 529120006925 phosphorylation site [posttranslational modification] 529120006926 intermolecular recognition site; other site 529120006927 dimerization interface [polypeptide binding]; other site 529120006928 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 529120006929 Walker A motif; other site 529120006930 ATP binding site [chemical binding]; other site 529120006931 Walker B motif; other site 529120006932 arginine finger; other site 529120006933 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 529120006934 CHASE3 domain; Region: CHASE3; pfam05227 529120006935 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 529120006936 dimer interface [polypeptide binding]; other site 529120006937 phosphorylation site [posttranslational modification] 529120006938 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 529120006939 ATP binding site [chemical binding]; other site 529120006940 Mg2+ binding site [ion binding]; other site 529120006941 G-X-G motif; other site 529120006942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120006943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006944 active site 529120006945 phosphorylation site [posttranslational modification] 529120006946 intermolecular recognition site; other site 529120006947 dimerization interface [polypeptide binding]; other site 529120006948 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120006949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006950 active site 529120006951 phosphorylation site [posttranslational modification] 529120006952 intermolecular recognition site; other site 529120006953 dimerization interface [polypeptide binding]; other site 529120006954 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120006955 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 529120006956 dimer interface [polypeptide binding]; other site 529120006957 phosphorylation site [posttranslational modification] 529120006958 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 529120006959 ATP binding site [chemical binding]; other site 529120006960 Mg2+ binding site [ion binding]; other site 529120006961 G-X-G motif; other site 529120006962 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120006963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006964 active site 529120006965 phosphorylation site [posttranslational modification] 529120006966 intermolecular recognition site; other site 529120006967 dimerization interface [polypeptide binding]; other site 529120006968 Response regulator receiver domain; Region: Response_reg; pfam00072 529120006969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120006970 active site 529120006971 phosphorylation site [posttranslational modification] 529120006972 intermolecular recognition site; other site 529120006973 dimerization interface [polypeptide binding]; other site 529120006974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 529120006975 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 529120006976 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 529120006977 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 529120006978 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 529120006979 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 529120006980 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 529120006981 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 529120006982 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 529120006983 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 529120006984 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 529120006985 putative active site [active] 529120006986 Zn binding site [ion binding]; other site 529120006987 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 529120006988 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 529120006989 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 529120006990 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 529120006991 methionine sulfoxide reductase B; Provisional; Region: PRK00222 529120006992 SelR domain; Region: SelR; pfam01641 529120006993 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 529120006994 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 529120006995 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 529120006996 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 529120006997 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 529120006998 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 529120006999 active site 529120007000 catalytic site [active] 529120007001 glycogen branching enzyme; Provisional; Region: PRK05402 529120007002 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 529120007003 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 529120007004 active site 529120007005 catalytic site [active] 529120007006 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 529120007007 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 529120007008 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 529120007009 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 529120007010 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 529120007011 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 529120007012 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 529120007013 active site 529120007014 phosphate binding residues; other site 529120007015 catalytic residues [active] 529120007016 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 529120007017 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 529120007018 active site 529120007019 intersubunit interface [polypeptide binding]; other site 529120007020 catalytic residue [active] 529120007021 glucokinase; Provisional; Region: glk; PRK00292 529120007022 glucokinase, proteobacterial type; Region: glk; TIGR00749 529120007023 phosphogluconate dehydratase; Validated; Region: PRK09054 529120007024 6-phosphogluconate dehydratase; Region: edd; TIGR01196 529120007025 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 529120007026 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 529120007027 putative active site [active] 529120007028 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 529120007029 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 529120007030 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 529120007031 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 529120007032 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 529120007033 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 529120007034 putative active site [active] 529120007035 pyruvate kinase; Provisional; Region: PRK05826 529120007036 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 529120007037 domain interfaces; other site 529120007038 active site 529120007039 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 529120007040 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 529120007041 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 529120007042 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 529120007043 BON domain; Region: BON; pfam04972 529120007044 BON domain; Region: BON; pfam04972 529120007045 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 529120007046 putative catalytic site [active] 529120007047 putative metal binding site [ion binding]; other site 529120007048 putative phosphate binding site [ion binding]; other site 529120007049 The TATA Binding Protein (TBP) Associated Factor 10; Region: TAF10; cl02150 529120007050 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 529120007051 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 529120007052 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 529120007053 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 529120007054 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 529120007055 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 529120007056 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 529120007057 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 529120007058 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 529120007059 NADP binding site [chemical binding]; other site 529120007060 homodimer interface [polypeptide binding]; other site 529120007061 active site 529120007062 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 529120007063 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 529120007064 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 529120007065 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 529120007066 DctM-like transporters; Region: DctM; pfam06808 529120007067 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 529120007068 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120007069 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120007070 DNA binding site [nucleotide binding] 529120007071 domain linker motif; other site 529120007072 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 529120007073 putative dimerization interface [polypeptide binding]; other site 529120007074 putative ligand binding site [chemical binding]; other site 529120007075 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 529120007076 galactarate dehydratase; Region: galactar-dH20; TIGR03248 529120007077 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 529120007078 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 529120007079 glucuronate isomerase; Reviewed; Region: PRK02925 529120007080 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 529120007081 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 529120007082 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 529120007083 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 529120007084 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 529120007085 active site 529120007086 intersubunit interface [polypeptide binding]; other site 529120007087 catalytic residue [active] 529120007088 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 529120007089 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 529120007090 substrate binding site [chemical binding]; other site 529120007091 ATP binding site [chemical binding]; other site 529120007092 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 529120007093 active site 529120007094 catalytic triad [active] 529120007095 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120007096 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 529120007097 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 529120007098 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 529120007099 potential frameshift: common BLAST hit: gi|90020600|ref|YP_526427.1| glycoside hydrolase family protein 529120007100 Pectinesterase; Region: Pectinesterase; pfam01095 529120007101 putative pectinesterase; Region: PLN02432; cl01911 529120007102 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 529120007103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120007104 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 529120007105 dimer interface [polypeptide binding]; other site 529120007106 phosphorylation site [posttranslational modification] 529120007107 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 529120007108 ATP binding site [chemical binding]; other site 529120007109 Mg2+ binding site [ion binding]; other site 529120007110 G-X-G motif; other site 529120007111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120007112 Response regulator receiver domain; Region: Response_reg; pfam00072 529120007113 active site 529120007114 phosphorylation site [posttranslational modification] 529120007115 intermolecular recognition site; other site 529120007116 dimerization interface [polypeptide binding]; other site 529120007117 Response regulator receiver domain; Region: Response_reg; pfam00072 529120007118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120007119 active site 529120007120 phosphorylation site [posttranslational modification] 529120007121 intermolecular recognition site; other site 529120007122 dimerization interface [polypeptide binding]; other site 529120007123 WYL domain; Region: WYL; pfam13280 529120007124 PEP-CTERM motif; Region: VPEP; pfam07589 529120007125 Endonuclease I; Region: Endonuclease_1; pfam04231 529120007126 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 529120007127 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 529120007128 generic binding surface II; other site 529120007129 generic binding surface I; other site 529120007130 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 529120007131 putative active site [active] 529120007132 putative catalytic site [active] 529120007133 putative Mg binding site IVb [ion binding]; other site 529120007134 putative phosphate binding site [ion binding]; other site 529120007135 putative DNA binding site [nucleotide binding]; other site 529120007136 putative Mg binding site IVa [ion binding]; other site 529120007137 Peptidase family M1; Region: Peptidase_M1; pfam01433 529120007138 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 529120007139 Zn binding site [ion binding]; other site 529120007140 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 529120007141 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 529120007142 dimerization interface [polypeptide binding]; other site 529120007143 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120007144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120007145 dimer interface [polypeptide binding]; other site 529120007146 putative CheW interface [polypeptide binding]; other site 529120007147 DNA topoisomerase I; Validated; Region: PRK07219 529120007148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120007149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120007150 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 529120007151 dimerization interface [polypeptide binding]; other site 529120007152 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 529120007153 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 529120007154 potential catalytic triad [active] 529120007155 conserved cys residue [active] 529120007156 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 529120007157 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 529120007158 dimer interface [polypeptide binding]; other site 529120007159 active site 529120007160 metal binding site [ion binding]; metal-binding site 529120007161 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120007162 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 529120007163 active site 529120007164 FMN binding site [chemical binding]; other site 529120007165 substrate binding site [chemical binding]; other site 529120007166 homotetramer interface [polypeptide binding]; other site 529120007167 catalytic residue [active] 529120007168 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120007169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120007170 metal binding site [ion binding]; metal-binding site 529120007171 active site 529120007172 I-site; other site 529120007173 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 529120007174 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 529120007175 putative FMN binding site [chemical binding]; other site 529120007176 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 529120007177 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 529120007178 tetramer interface [polypeptide binding]; other site 529120007179 heme binding pocket [chemical binding]; other site 529120007180 NADPH binding site [chemical binding]; other site 529120007181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 529120007182 active site 529120007183 phosphorylation site [posttranslational modification] 529120007184 intermolecular recognition site; other site 529120007185 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 529120007186 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 529120007187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120007188 Zn2+ binding site [ion binding]; other site 529120007189 Mg2+ binding site [ion binding]; other site 529120007190 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120007191 GAF domain; Region: GAF; pfam01590 529120007192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120007193 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 529120007194 dimer interface [polypeptide binding]; other site 529120007195 phosphorylation site [posttranslational modification] 529120007196 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 529120007197 ATP binding site [chemical binding]; other site 529120007198 Mg2+ binding site [ion binding]; other site 529120007199 G-X-G motif; other site 529120007200 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 529120007201 Helix-turn-helix domain; Region: HTH_18; pfam12833 529120007202 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 529120007203 Uncharacterized conserved protein [Function unknown]; Region: COG2128 529120007204 YrhK-like protein; Region: YrhK; pfam14145 529120007205 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 529120007206 Barrier to autointegration factor; Region: BAF; cl03803 529120007207 Cupin; Region: Cupin_6; pfam12852 529120007208 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 529120007209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120007210 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 529120007211 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 529120007212 transmembrane helices; other site 529120007213 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 529120007214 trimer interface [polypeptide binding]; other site 529120007215 active site 529120007216 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 529120007217 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 529120007218 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 529120007219 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 529120007220 active site 529120007221 HIGH motif; other site 529120007222 KMSKS motif; other site 529120007223 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 529120007224 anticodon binding site; other site 529120007225 tRNA binding surface [nucleotide binding]; other site 529120007226 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 529120007227 dimer interface [polypeptide binding]; other site 529120007228 putative tRNA-binding site [nucleotide binding]; other site 529120007229 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120007230 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120007231 Methyltransferase domain; Region: Methyltransf_11; pfam08241 529120007232 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 529120007233 potential frameshift: common BLAST hit: gi|332141406|ref|YP_004427144.1| putative membrane-bound lytic murein transglycosylase 529120007234 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 529120007235 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 529120007236 putative DNA binding site [nucleotide binding]; other site 529120007237 putative Zn2+ binding site [ion binding]; other site 529120007238 AsnC family; Region: AsnC_trans_reg; pfam01037 529120007239 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 529120007240 Amidinotransferase; Region: Amidinotransf; pfam02274 529120007241 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 529120007242 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 529120007243 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 529120007244 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 529120007245 active site 529120007246 HIGH motif; other site 529120007247 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 529120007248 KMSKS motif; other site 529120007249 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 529120007250 tRNA binding surface [nucleotide binding]; other site 529120007251 anticodon binding site; other site 529120007252 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 529120007253 substrate binding site [chemical binding]; other site 529120007254 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 529120007255 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 529120007256 putative active site [active] 529120007257 putative metal binding site [ion binding]; other site 529120007258 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 529120007259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 529120007260 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 529120007261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120007262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120007263 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 529120007264 putative effector binding pocket; other site 529120007265 putative dimerization interface [polypeptide binding]; other site 529120007266 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 529120007267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120007268 NAD(P) binding site [chemical binding]; other site 529120007269 active site 529120007270 sucrose phosphorylase; Provisional; Region: PRK13840 529120007271 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 529120007272 active site 529120007273 homodimer interface [polypeptide binding]; other site 529120007274 catalytic site [active] 529120007275 Predicted transcriptional regulators [Transcription]; Region: COG1733 529120007276 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 529120007277 dimerization interface [polypeptide binding]; other site 529120007278 putative DNA binding site [nucleotide binding]; other site 529120007279 putative Zn2+ binding site [ion binding]; other site 529120007280 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 529120007281 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 529120007282 NADP binding site [chemical binding]; other site 529120007283 dimer interface [polypeptide binding]; other site 529120007284 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 529120007285 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 529120007286 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 529120007287 putative NAD(P) binding site [chemical binding]; other site 529120007288 dimer interface [polypeptide binding]; other site 529120007289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120007290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120007291 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 529120007292 putative effector binding pocket; other site 529120007293 dimerization interface [polypeptide binding]; other site 529120007294 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 529120007295 Nidogen-like; Region: NIDO; pfam06119 529120007296 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 529120007297 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 529120007298 Protein of unknown function, DUF479; Region: DUF479; cl01203 529120007299 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 529120007300 active site 529120007301 dinuclear metal binding site [ion binding]; other site 529120007302 dimerization interface [polypeptide binding]; other site 529120007303 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 529120007304 amidophosphoribosyltransferase; Provisional; Region: PRK09246 529120007305 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 529120007306 active site 529120007307 tetramer interface [polypeptide binding]; other site 529120007308 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120007309 active site 529120007310 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 529120007311 Colicin V production protein; Region: Colicin_V; cl00567 529120007312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 529120007313 Sporulation related domain; Region: SPOR; pfam05036 529120007314 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 529120007315 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120007316 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 529120007317 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 529120007318 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 529120007319 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 529120007320 dimerization interface 3.5A [polypeptide binding]; other site 529120007321 active site 529120007322 FimV N-terminal domain; Region: FimV_core; TIGR03505 529120007323 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 529120007324 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 529120007325 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 529120007326 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 529120007327 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 529120007328 ligand binding site [chemical binding]; other site 529120007329 NAD binding site [chemical binding]; other site 529120007330 catalytic site [active] 529120007331 homodimer interface [polypeptide binding]; other site 529120007332 aldolase II superfamily protein; Provisional; Region: PRK07044 529120007333 intersubunit interface [polypeptide binding]; other site 529120007334 active site 529120007335 Zn2+ binding site [ion binding]; other site 529120007336 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 529120007337 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 529120007338 ligand binding site [chemical binding]; other site 529120007339 flexible hinge region; other site 529120007340 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 529120007341 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 529120007342 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 529120007343 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 529120007344 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 529120007345 dimer interface [polypeptide binding]; other site 529120007346 active site 529120007347 potential frameshift: common BLAST hit: gi|332141787|ref|YP_004427525.1| acyl-CoA synthase 529120007348 Kelch motif; Region: Kelch_6; pfam13964 529120007349 Uncharacterized conserved protein [Function unknown]; Region: COG4121 529120007350 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 529120007351 Predicted integral membrane protein [Function unknown]; Region: COG5616 529120007352 Predicted integral membrane protein [Function unknown]; Region: COG5616 529120007353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120007354 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120007355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 529120007356 Coenzyme A binding pocket [chemical binding]; other site 529120007357 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 529120007358 active site 529120007359 metal binding site [ion binding]; metal-binding site 529120007360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120007361 Coenzyme A binding pocket [chemical binding]; other site 529120007362 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 529120007363 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 529120007364 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 529120007365 DNA binding residues [nucleotide binding] 529120007366 putative dimer interface [polypeptide binding]; other site 529120007367 putative metal binding residues [ion binding]; other site 529120007368 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120007369 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 529120007370 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 529120007371 classical (c) SDRs; Region: SDR_c; cd05233 529120007372 NAD(P) binding site [chemical binding]; other site 529120007373 active site 529120007374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120007375 Walker A/P-loop; other site 529120007376 ATP binding site [chemical binding]; other site 529120007377 ABC transporter; Region: ABC_tran; pfam00005 529120007378 Q-loop/lid; other site 529120007379 ABC transporter signature motif; other site 529120007380 Walker B; other site 529120007381 D-loop; other site 529120007382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120007383 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 529120007384 Walker A/P-loop; other site 529120007385 ATP binding site [chemical binding]; other site 529120007386 Q-loop/lid; other site 529120007387 ABC transporter signature motif; other site 529120007388 Walker B; other site 529120007389 D-loop; other site 529120007390 H-loop/switch region; other site 529120007391 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 529120007392 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 529120007393 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 529120007394 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 529120007395 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 529120007396 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 529120007397 conserved cys residue [active] 529120007398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120007399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120007400 Isochorismatase family; Region: Isochorismatase; pfam00857 529120007401 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 529120007402 catalytic triad [active] 529120007403 conserved cis-peptide bond; other site 529120007404 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 529120007405 Isochorismatase family; Region: Isochorismatase; pfam00857 529120007406 catalytic triad [active] 529120007407 conserved cis-peptide bond; other site 529120007408 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 529120007409 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 529120007410 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 529120007411 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 529120007412 dimer interface [polypeptide binding]; other site 529120007413 phosphorylation site [posttranslational modification] 529120007414 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 529120007415 ATP binding site [chemical binding]; other site 529120007416 Mg2+ binding site [ion binding]; other site 529120007417 G-X-G motif; other site 529120007418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120007419 active site 529120007420 dimerization interface [polypeptide binding]; other site 529120007421 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120007422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120007423 active site 529120007424 phosphorylation site [posttranslational modification] 529120007425 intermolecular recognition site; other site 529120007426 dimerization interface [polypeptide binding]; other site 529120007427 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120007428 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120007429 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120007430 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120007431 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120007432 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120007433 YfcL protein; Region: YfcL; pfam08891 529120007434 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 529120007435 Protein of unknown function, DUF462; Region: DUF462; pfam04315 529120007436 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 529120007437 active site 529120007438 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 529120007439 catalytic motif [active] 529120007440 Catalytic residue [active] 529120007441 HopJ type III effector protein; Region: HopJ; pfam08888 529120007442 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120007443 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 529120007444 active site 529120007445 FMN binding site [chemical binding]; other site 529120007446 2,4-decadienoyl-CoA binding site; other site 529120007447 catalytic residue [active] 529120007448 4Fe-4S cluster binding site [ion binding]; other site 529120007449 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120007450 enoyl-CoA hydratase; Provisional; Region: PRK06142 529120007451 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 529120007452 substrate binding site [chemical binding]; other site 529120007453 oxyanion hole (OAH) forming residues; other site 529120007454 trimer interface [polypeptide binding]; other site 529120007455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120007456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120007457 WHG domain; Region: WHG; pfam13305 529120007458 choline dehydrogenase; Validated; Region: PRK02106 529120007459 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 529120007460 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 529120007461 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 529120007462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 529120007463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120007464 Bacterial transcriptional repressor; Region: TetR; pfam13972 529120007465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 529120007466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 529120007467 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 529120007468 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 529120007469 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 529120007470 active site 529120007471 nucleophile elbow; other site 529120007472 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 529120007473 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 529120007474 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120007475 fatty acid metabolism regulator; Provisional; Region: PRK04984 529120007476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120007477 DNA-binding site [nucleotide binding]; DNA binding site 529120007478 FadR C-terminal domain; Region: FadR_C; pfam07840 529120007479 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 529120007480 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 529120007481 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 529120007482 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 529120007483 hypothetical protein; Provisional; Region: PRK05170 529120007484 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 529120007485 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 529120007486 Transglycosylase SLT domain; Region: SLT_2; pfam13406 529120007487 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 529120007488 N-acetyl-D-glucosamine binding site [chemical binding]; other site 529120007489 YcgL domain; Region: YcgL; pfam05166 529120007490 ribonuclease D; Provisional; Region: PRK10829 529120007491 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 529120007492 catalytic site [active] 529120007493 putative active site [active] 529120007494 putative substrate binding site [chemical binding]; other site 529120007495 HRDC domain; Region: HRDC; pfam00570 529120007496 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 529120007497 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 529120007498 acyl-activating enzyme (AAE) consensus motif; other site 529120007499 putative AMP binding site [chemical binding]; other site 529120007500 putative active site [active] 529120007501 putative CoA binding site [chemical binding]; other site 529120007502 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120007503 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120007504 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 529120007505 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 529120007506 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 529120007507 Glycoprotease family; Region: Peptidase_M22; pfam00814 529120007508 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 529120007509 DEAD/DEAH box helicase; Region: DEAD; pfam00270 529120007510 DEAD_2; Region: DEAD_2; pfam06733 529120007511 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 529120007512 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 529120007513 Cation efflux family; Region: Cation_efflux; cl00316 529120007514 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 529120007515 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 529120007516 iron-sulfur cluster [ion binding]; other site 529120007517 [2Fe-2S] cluster binding site [ion binding]; other site 529120007518 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 529120007519 alpha subunit interface [polypeptide binding]; other site 529120007520 active site 529120007521 substrate binding site [chemical binding]; other site 529120007522 Fe binding site [ion binding]; other site 529120007523 Uncharacterized conserved protein [Function unknown]; Region: COG3791 529120007524 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 529120007525 Ca2+ binding site [ion binding]; other site 529120007526 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 529120007527 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 529120007528 active site 529120007529 catalytic site [active] 529120007530 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 529120007531 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 529120007532 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 529120007533 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 529120007534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 529120007535 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 529120007536 P-loop; other site 529120007537 Magnesium ion binding site [ion binding]; other site 529120007538 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 529120007539 Magnesium ion binding site [ion binding]; other site 529120007540 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 529120007541 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 529120007542 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 529120007543 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 529120007544 histidinol dehydrogenase; Region: hisD; TIGR00069 529120007545 NAD binding site [chemical binding]; other site 529120007546 dimerization interface [polypeptide binding]; other site 529120007547 product binding site; other site 529120007548 substrate binding site [chemical binding]; other site 529120007549 zinc binding site [ion binding]; other site 529120007550 catalytic residues [active] 529120007551 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 529120007552 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 529120007553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120007554 homodimer interface [polypeptide binding]; other site 529120007555 catalytic residue [active] 529120007556 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 529120007557 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 529120007558 active site 529120007559 motif I; other site 529120007560 motif II; other site 529120007561 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 529120007562 putative active site pocket [active] 529120007563 4-fold oligomerization interface [polypeptide binding]; other site 529120007564 metal binding residues [ion binding]; metal-binding site 529120007565 3-fold/trimer interface [polypeptide binding]; other site 529120007566 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 529120007567 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 529120007568 putative active site [active] 529120007569 oxyanion strand; other site 529120007570 catalytic triad [active] 529120007571 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 529120007572 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 529120007573 catalytic residues [active] 529120007574 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 529120007575 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 529120007576 substrate binding site [chemical binding]; other site 529120007577 glutamase interaction surface [polypeptide binding]; other site 529120007578 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 529120007579 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 529120007580 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 529120007581 metal binding site [ion binding]; metal-binding site 529120007582 legume lectins; Region: lectin_L-type; cl14058 529120007583 carbohydrate binding site [chemical binding]; other site 529120007584 metal binding site [ion binding]; metal-binding site 529120007585 homotetramer interaction site [polypeptide binding]; other site 529120007586 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 529120007587 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 529120007588 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120007589 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120007590 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120007591 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120007592 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 529120007593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 529120007594 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 529120007595 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 529120007596 Catalytic site [active] 529120007597 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 529120007598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120007599 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 529120007600 N-terminal plug; other site 529120007601 ligand-binding site [chemical binding]; other site 529120007602 MAPEG family; Region: MAPEG; cl09190 529120007603 adenylate kinase; Reviewed; Region: adk; PRK00279 529120007604 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 529120007605 AMP-binding site [chemical binding]; other site 529120007606 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 529120007607 heat shock protein 90; Provisional; Region: PRK05218 529120007608 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 529120007609 ATP binding site [chemical binding]; other site 529120007610 Mg2+ binding site [ion binding]; other site 529120007611 G-X-G motif; other site 529120007612 recombination protein RecR; Reviewed; Region: recR; PRK00076 529120007613 RecR protein; Region: RecR; pfam02132 529120007614 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 529120007615 putative active site [active] 529120007616 putative metal-binding site [ion binding]; other site 529120007617 tetramer interface [polypeptide binding]; other site 529120007618 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 529120007619 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 529120007620 FAD binding pocket [chemical binding]; other site 529120007621 FAD binding motif [chemical binding]; other site 529120007622 phosphate binding motif [ion binding]; other site 529120007623 beta-alpha-beta structure motif; other site 529120007624 NAD binding pocket [chemical binding]; other site 529120007625 hypothetical protein; Validated; Region: PRK00153 529120007626 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 529120007627 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 529120007628 Walker A motif; other site 529120007629 ATP binding site [chemical binding]; other site 529120007630 Walker B motif; other site 529120007631 arginine finger; other site 529120007632 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 529120007633 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 529120007634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120007635 active site 529120007636 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 529120007637 hypothetical protein; Provisional; Region: PRK05409 529120007638 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 529120007639 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120007640 DNA binding site [nucleotide binding] 529120007641 AAA ATPase domain; Region: AAA_16; pfam13191 529120007642 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120007643 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 529120007644 putative active site [active] 529120007645 heme pocket [chemical binding]; other site 529120007646 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120007647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120007648 metal binding site [ion binding]; metal-binding site 529120007649 active site 529120007650 I-site; other site 529120007651 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 529120007652 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 529120007653 Domain of unknown function (DUF378); Region: DUF378; cl00943 529120007654 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 529120007655 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 529120007656 binding surface 529120007657 TPR motif; other site 529120007658 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 529120007659 TPR motif; other site 529120007660 binding surface 529120007661 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 529120007662 binding surface 529120007663 TPR motif; other site 529120007664 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 529120007665 TPR motif; other site 529120007666 binding surface 529120007667 D-lactate dehydrogenase; Provisional; Region: PRK11183 529120007668 FAD binding domain; Region: FAD_binding_4; pfam01565 529120007669 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 529120007670 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 529120007671 L-lactate permease; Region: Lactate_perm; cl00701 529120007672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120007673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120007674 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 529120007675 putative effector binding pocket; other site 529120007676 dimerization interface [polypeptide binding]; other site 529120007677 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 529120007678 Clp amino terminal domain; Region: Clp_N; pfam02861 529120007679 Clp amino terminal domain; Region: Clp_N; pfam02861 529120007680 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 529120007681 Walker A motif; other site 529120007682 ATP binding site [chemical binding]; other site 529120007683 Walker B motif; other site 529120007684 arginine finger; other site 529120007685 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 529120007686 Walker A motif; other site 529120007687 ATP binding site [chemical binding]; other site 529120007688 Walker B motif; other site 529120007689 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 529120007690 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 529120007691 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 529120007692 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 529120007693 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 529120007694 RNA binding surface [nucleotide binding]; other site 529120007695 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 529120007696 active site 529120007697 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 529120007698 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 529120007699 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 529120007700 RNA polymerase sigma factor; Provisional; Region: PRK11924 529120007701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120007702 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 529120007703 DNA binding residues [nucleotide binding] 529120007704 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 529120007705 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120007706 short chain dehydrogenase; Provisional; Region: PRK06101 529120007707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120007708 NAD(P) binding site [chemical binding]; other site 529120007709 active site 529120007710 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 529120007711 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 529120007712 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 529120007713 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 529120007714 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 529120007715 S-adenosylmethionine binding site [chemical binding]; other site 529120007716 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 529120007717 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 529120007718 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120007719 ligand binding site [chemical binding]; other site 529120007720 flagellar motor protein PomA; Reviewed; Region: PRK08990 529120007721 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 529120007722 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 529120007723 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 529120007724 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 529120007725 substrate binding pocket [chemical binding]; other site 529120007726 chain length determination region; other site 529120007727 substrate-Mg2+ binding site; other site 529120007728 catalytic residues [active] 529120007729 aspartate-rich region 1; other site 529120007730 active site lid residues [active] 529120007731 aspartate-rich region 2; other site 529120007732 potential frameshift: common BLAST hit: gi|332141879|ref|YP_004427617.1| 1-deoxy-D-xylulose-5-phosphate synthase 529120007733 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 529120007734 tetramer interfaces [polypeptide binding]; other site 529120007735 binuclear metal-binding site [ion binding]; other site 529120007736 thiamine monophosphate kinase; Provisional; Region: PRK05731 529120007737 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 529120007738 ATP binding site [chemical binding]; other site 529120007739 dimerization interface [polypeptide binding]; other site 529120007740 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 529120007741 putative RNA binding site [nucleotide binding]; other site 529120007742 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 529120007743 homopentamer interface [polypeptide binding]; other site 529120007744 active site 529120007745 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 529120007746 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 529120007747 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 529120007748 dimerization interface [polypeptide binding]; other site 529120007749 active site 529120007750 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 529120007751 Lumazine binding domain; Region: Lum_binding; pfam00677 529120007752 Lumazine binding domain; Region: Lum_binding; pfam00677 529120007753 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 529120007754 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 529120007755 catalytic motif [active] 529120007756 Zn binding site [ion binding]; other site 529120007757 RibD C-terminal domain; Region: RibD_C; cl17279 529120007758 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 529120007759 ATP cone domain; Region: ATP-cone; pfam03477 529120007760 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 529120007761 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 529120007762 dimer interface [polypeptide binding]; other site 529120007763 active site 529120007764 glycine-pyridoxal phosphate binding site [chemical binding]; other site 529120007765 folate binding site [chemical binding]; other site 529120007766 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 529120007767 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 529120007768 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 529120007769 trimer interface [polypeptide binding]; other site 529120007770 active site 529120007771 UDP-GlcNAc binding site [chemical binding]; other site 529120007772 lipid binding site [chemical binding]; lipid-binding site 529120007773 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 529120007774 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120007775 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120007776 ABC transporter; Region: ABC_tran_2; pfam12848 529120007777 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120007778 DNA repair protein RadA; Provisional; Region: PRK11823 529120007779 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 529120007780 Walker A motif/ATP binding site; other site 529120007781 ATP binding site [chemical binding]; other site 529120007782 Walker B motif; other site 529120007783 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 529120007784 PilZ domain; Region: PilZ; pfam07238 529120007785 phosphoserine phosphatase SerB; Region: serB; TIGR00338 529120007786 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 529120007787 motif II; other site 529120007788 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 529120007789 active site 529120007790 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 529120007791 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 529120007792 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 529120007793 GTPase Era; Reviewed; Region: era; PRK00089 529120007794 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 529120007795 G1 box; other site 529120007796 GTP/Mg2+ binding site [chemical binding]; other site 529120007797 Switch I region; other site 529120007798 G2 box; other site 529120007799 Switch II region; other site 529120007800 G3 box; other site 529120007801 G4 box; other site 529120007802 G5 box; other site 529120007803 KH domain; Region: KH_2; pfam07650 529120007804 ribonuclease III; Reviewed; Region: rnc; PRK00102 529120007805 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 529120007806 dimerization interface [polypeptide binding]; other site 529120007807 active site 529120007808 metal binding site [ion binding]; metal-binding site 529120007809 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 529120007810 dsRNA binding site [nucleotide binding]; other site 529120007811 signal peptidase I; Provisional; Region: PRK10861 529120007812 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 529120007813 Catalytic site [active] 529120007814 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 529120007815 GTP-binding protein LepA; Provisional; Region: PRK05433 529120007816 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 529120007817 G1 box; other site 529120007818 putative GEF interaction site [polypeptide binding]; other site 529120007819 GTP/Mg2+ binding site [chemical binding]; other site 529120007820 Switch I region; other site 529120007821 G2 box; other site 529120007822 G3 box; other site 529120007823 Switch II region; other site 529120007824 G4 box; other site 529120007825 G5 box; other site 529120007826 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 529120007827 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 529120007828 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 529120007829 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 529120007830 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 529120007831 anti-sigma E factor; Provisional; Region: rseB; PRK09455 529120007832 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 529120007833 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 529120007834 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 529120007835 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120007836 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 529120007837 DNA binding residues [nucleotide binding] 529120007838 L-aspartate oxidase; Provisional; Region: PRK09077 529120007839 L-aspartate oxidase; Provisional; Region: PRK06175 529120007840 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 529120007841 (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 529120007842 active site 529120007843 catalytic site [active] 529120007844 Uncharacterized conserved protein [Function unknown]; Region: COG2938 529120007845 putative global regulator; Reviewed; Region: PRK09559 529120007846 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 529120007847 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 529120007848 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 529120007849 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 529120007850 Nitrogen regulatory protein P-II; Region: P-II; smart00938 529120007851 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 529120007852 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 529120007853 homodimer interface [polypeptide binding]; other site 529120007854 NAD binding pocket [chemical binding]; other site 529120007855 ATP binding pocket [chemical binding]; other site 529120007856 Mg binding site [ion binding]; other site 529120007857 active-site loop [active] 529120007858 Type II transport protein GspH; Region: GspH; pfam12019 529120007859 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 529120007860 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 529120007861 hypothetical protein; Provisional; Region: PRK10506 529120007862 hypothetical protein; Provisional; Region: PRK10557 529120007863 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 529120007864 von Willebrand factor type A domain; Region: VWA_2; pfam13519 529120007865 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 529120007866 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 529120007867 PilX N-terminal; Region: PilX_N; pfam14341 529120007868 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 529120007869 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 529120007870 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 529120007871 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 529120007872 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 529120007873 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 529120007874 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 529120007875 lipoprotein signal peptidase; Provisional; Region: PRK14787 529120007876 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 529120007877 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 529120007878 active site 529120007879 HIGH motif; other site 529120007880 nucleotide binding site [chemical binding]; other site 529120007881 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 529120007882 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 529120007883 active site 529120007884 KMSKS motif; other site 529120007885 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 529120007886 tRNA binding surface [nucleotide binding]; other site 529120007887 anticodon binding site; other site 529120007888 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 529120007889 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 529120007890 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 529120007891 active site 529120007892 Riboflavin kinase; Region: Flavokinase; smart00904 529120007893 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 529120007894 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 529120007895 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 529120007896 short chain dehydrogenase; Provisional; Region: PRK08251 529120007897 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 529120007898 putative NAD(P) binding site [chemical binding]; other site 529120007899 active site 529120007900 Phosphotransferase enzyme family; Region: APH; pfam01636 529120007901 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 529120007902 putative active site [active] 529120007903 putative substrate binding site [chemical binding]; other site 529120007904 ATP binding site [chemical binding]; other site 529120007905 short chain dehydrogenase; Provisional; Region: PRK05650 529120007906 classical (c) SDRs; Region: SDR_c; cd05233 529120007907 NAD(P) binding site [chemical binding]; other site 529120007908 active site 529120007909 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 529120007910 Sodium Bile acid symporter family; Region: SBF; pfam01758 529120007911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120007912 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120007913 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 529120007914 substrate binding pocket [chemical binding]; other site 529120007915 dimerization interface [polypeptide binding]; other site 529120007916 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 529120007917 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 529120007918 putative active site [active] 529120007919 putative metal binding site [ion binding]; other site 529120007920 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 529120007921 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 529120007922 putative acyl-acceptor binding pocket; other site 529120007923 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 529120007924 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 529120007925 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 529120007926 metal binding site [ion binding]; metal-binding site 529120007927 dimer interface [polypeptide binding]; other site 529120007928 periplasmic folding chaperone; Provisional; Region: PRK10788 529120007929 SurA N-terminal domain; Region: SurA_N_3; cl07813 529120007930 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 529120007931 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 529120007932 IHF dimer interface [polypeptide binding]; other site 529120007933 IHF - DNA interface [nucleotide binding]; other site 529120007934 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 529120007935 Found in ATP-dependent protease La (LON); Region: LON; smart00464 529120007936 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 529120007937 Walker A motif; other site 529120007938 ATP binding site [chemical binding]; other site 529120007939 Walker B motif; other site 529120007940 arginine finger; other site 529120007941 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 529120007942 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 529120007943 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 529120007944 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 529120007945 Walker A motif; other site 529120007946 ATP binding site [chemical binding]; other site 529120007947 Walker B motif; other site 529120007948 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 529120007949 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 529120007950 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 529120007951 oligomer interface [polypeptide binding]; other site 529120007952 active site residues [active] 529120007953 trigger factor; Provisional; Region: tig; PRK01490 529120007954 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 529120007955 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 529120007956 potential protein location (hypothetical protein MASE_12730 [Alteromonas macleodii ATCC 27126]) that overlaps RNA (tRNA-P) 529120007957 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 529120007958 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 529120007959 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 529120007960 homodimer interface [polypeptide binding]; other site 529120007961 NADP binding site [chemical binding]; other site 529120007962 substrate binding site [chemical binding]; other site 529120007963 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 529120007964 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 529120007965 homodimer interaction site [polypeptide binding]; other site 529120007966 cofactor binding site; other site 529120007967 prolyl-tRNA synthetase; Provisional; Region: PRK09194 529120007968 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 529120007969 dimer interface [polypeptide binding]; other site 529120007970 motif 1; other site 529120007971 active site 529120007972 motif 2; other site 529120007973 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 529120007974 putative deacylase active site [active] 529120007975 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 529120007976 active site 529120007977 motif 3; other site 529120007978 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 529120007979 anticodon binding site; other site 529120007980 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 529120007981 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 529120007982 dimerization interface [polypeptide binding]; other site 529120007983 substrate binding site [chemical binding]; other site 529120007984 active site 529120007985 calcium binding site [ion binding]; other site 529120007986 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 529120007987 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 529120007988 putative active site [active] 529120007989 Zn binding site [ion binding]; other site 529120007990 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120007991 dimer interface [polypeptide binding]; other site 529120007992 putative CheW interface [polypeptide binding]; other site 529120007993 GMP synthase; Reviewed; Region: guaA; PRK00074 529120007994 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 529120007995 AMP/PPi binding site [chemical binding]; other site 529120007996 candidate oxyanion hole; other site 529120007997 catalytic triad [active] 529120007998 potential glutamine specificity residues [chemical binding]; other site 529120007999 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 529120008000 ATP Binding subdomain [chemical binding]; other site 529120008001 Ligand Binding sites [chemical binding]; other site 529120008002 Dimerization subdomain; other site 529120008003 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 529120008004 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 529120008005 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 529120008006 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 529120008007 active site 529120008008 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 529120008009 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 529120008010 generic binding surface II; other site 529120008011 generic binding surface I; other site 529120008012 GTP-binding protein Der; Reviewed; Region: PRK00093 529120008013 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 529120008014 G1 box; other site 529120008015 GTP/Mg2+ binding site [chemical binding]; other site 529120008016 Switch I region; other site 529120008017 G2 box; other site 529120008018 Switch II region; other site 529120008019 G3 box; other site 529120008020 G4 box; other site 529120008021 G5 box; other site 529120008022 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 529120008023 G1 box; other site 529120008024 GTP/Mg2+ binding site [chemical binding]; other site 529120008025 Switch I region; other site 529120008026 G2 box; other site 529120008027 G3 box; other site 529120008028 Switch II region; other site 529120008029 G4 box; other site 529120008030 G5 box; other site 529120008031 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 529120008032 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 529120008033 Trp docking motif [polypeptide binding]; other site 529120008034 active site 529120008035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 529120008036 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 529120008037 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 529120008038 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 529120008039 dimer interface [polypeptide binding]; other site 529120008040 motif 1; other site 529120008041 active site 529120008042 motif 2; other site 529120008043 motif 3; other site 529120008044 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 529120008045 anticodon binding site; other site 529120008046 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 529120008047 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 529120008048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 529120008049 cytoskeletal protein RodZ; Provisional; Region: PRK10856 529120008050 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 529120008051 non-specific DNA binding site [nucleotide binding]; other site 529120008052 salt bridge; other site 529120008053 sequence-specific DNA binding site [nucleotide binding]; other site 529120008054 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 529120008055 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 529120008056 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 529120008057 binding surface 529120008058 TPR motif; other site 529120008059 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 529120008060 binding surface 529120008061 TPR motif; other site 529120008062 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 529120008063 binding surface 529120008064 TPR motif; other site 529120008065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 529120008066 potential frameshift: common BLAST hit: gi|332141967|ref|YP_004427705.1| ribosomal RNA large subunit methyltransferase N 529120008067 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 529120008068 active site 529120008069 multimer interface [polypeptide binding]; other site 529120008070 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 529120008071 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 529120008072 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 529120008073 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 529120008074 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 529120008075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120008076 catalytic residue [active] 529120008077 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 529120008078 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 529120008079 FeS assembly ATPase SufC; Region: sufC; TIGR01978 529120008080 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 529120008081 Walker A/P-loop; other site 529120008082 ATP binding site [chemical binding]; other site 529120008083 Q-loop/lid; other site 529120008084 ABC transporter signature motif; other site 529120008085 Walker B; other site 529120008086 D-loop; other site 529120008087 H-loop/switch region; other site 529120008088 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 529120008089 putative ABC transporter; Region: ycf24; CHL00085 529120008090 cysteine desulfurase; Provisional; Region: PRK14012 529120008091 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 529120008092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120008093 catalytic residue [active] 529120008094 Transcriptional regulator; Region: Rrf2; cl17282 529120008095 Rrf2 family protein; Region: rrf2_super; TIGR00738 529120008096 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 529120008097 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 529120008098 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 529120008099 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 529120008100 serine O-acetyltransferase; Region: cysE; TIGR01172 529120008101 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 529120008102 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 529120008103 trimer interface [polypeptide binding]; other site 529120008104 active site 529120008105 substrate binding site [chemical binding]; other site 529120008106 CoA binding site [chemical binding]; other site 529120008107 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 529120008108 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 529120008109 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 529120008110 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 529120008111 active site 529120008112 dimerization interface [polypeptide binding]; other site 529120008113 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 529120008114 Acyltransferase family; Region: Acyl_transf_3; pfam01757 529120008115 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 529120008116 LytTr DNA-binding domain; Region: LytTR; smart00850 529120008117 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 529120008118 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 529120008119 Protein export membrane protein; Region: SecD_SecF; pfam02355 529120008120 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 529120008121 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 529120008122 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 529120008123 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 529120008124 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 529120008125 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 529120008126 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 529120008127 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 529120008128 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 529120008129 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 529120008130 PspA/IM30 family; Region: PspA_IM30; pfam04012 529120008131 Ion channel; Region: Ion_trans_2; pfam07885 529120008132 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 529120008133 Predicted membrane protein [Function unknown]; Region: COG3766 529120008134 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 529120008135 hypothetical protein; Provisional; Region: PRK11653 529120008136 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 529120008137 Rhomboid family; Region: Rhomboid; pfam01694 529120008138 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 529120008139 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 529120008140 Walker A/P-loop; other site 529120008141 ATP binding site [chemical binding]; other site 529120008142 Q-loop/lid; other site 529120008143 ABC transporter signature motif; other site 529120008144 Walker B; other site 529120008145 D-loop; other site 529120008146 H-loop/switch region; other site 529120008147 FtsX-like permease family; Region: FtsX; pfam02687 529120008148 FtsX-like permease family; Region: FtsX; pfam02687 529120008149 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 529120008150 glutaminase; Provisional; Region: PRK00971 529120008151 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 529120008152 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 529120008153 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 529120008154 dimer interface [polypeptide binding]; other site 529120008155 active site 529120008156 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 529120008157 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008159 active site 529120008160 phosphorylation site [posttranslational modification] 529120008161 intermolecular recognition site; other site 529120008162 dimerization interface [polypeptide binding]; other site 529120008163 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 529120008164 tetramer interface [polypeptide binding]; other site 529120008165 active site 529120008166 Mg2+/Mn2+ binding site [ion binding]; other site 529120008167 isocitrate lyase; Region: PLN02892 529120008168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120008169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120008170 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 529120008171 substrate binding pocket [chemical binding]; other site 529120008172 dimerization interface [polypeptide binding]; other site 529120008173 malate synthase G; Provisional; Region: PRK02999 529120008174 active site 529120008175 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 529120008176 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 529120008177 active site 529120008178 nucleophile elbow; other site 529120008179 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120008180 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 529120008181 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 529120008182 putative NAD(P) binding site [chemical binding]; other site 529120008183 active site 529120008184 putative substrate binding site [chemical binding]; other site 529120008185 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 529120008186 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 529120008187 FAD binding domain; Region: FAD_binding_4; pfam01565 529120008188 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 529120008189 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 529120008190 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 529120008191 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 529120008192 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 529120008193 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 529120008194 TPR motif; other site 529120008195 binding surface 529120008196 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 529120008197 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 529120008198 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 529120008199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 529120008200 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 529120008201 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 529120008202 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 529120008203 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 529120008204 active site 529120008205 homodimer interface [polypeptide binding]; other site 529120008206 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 529120008207 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 529120008208 putative active site [active] 529120008209 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 529120008210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120008211 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 529120008212 Acyltransferase family; Region: Acyl_transf_3; pfam01757 529120008213 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 529120008214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120008215 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 529120008216 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 529120008217 active site 529120008218 dimer interface [polypeptide binding]; other site 529120008219 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 529120008220 Ligand Binding Site [chemical binding]; other site 529120008221 Molecular Tunnel; other site 529120008222 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 529120008223 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 529120008224 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 529120008225 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 529120008226 O-Antigen ligase; Region: Wzy_C; cl04850 529120008227 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120008228 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 529120008229 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 529120008230 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 529120008231 active site 529120008232 dimer interface [polypeptide binding]; other site 529120008233 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 529120008234 Ligand Binding Site [chemical binding]; other site 529120008235 Molecular Tunnel; other site 529120008236 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120008237 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 529120008238 Probable Catalytic site; other site 529120008239 metal-binding site 529120008240 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 529120008241 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 529120008242 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 529120008243 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 529120008244 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 529120008245 putative active site [active] 529120008246 putative catalytic site [active] 529120008247 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 529120008248 Bacterial sugar transferase; Region: Bac_transf; pfam02397 529120008249 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 529120008250 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 529120008251 SLBB domain; Region: SLBB; pfam10531 529120008252 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 529120008253 Chain length determinant protein; Region: Wzz; pfam02706 529120008254 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 529120008255 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 529120008256 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 529120008257 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 529120008258 potential frameshift: common BLAST hit: gi|332140891|ref|YP_004426629.1| putative general secretion pathway protein A 529120008259 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 529120008260 GIY-YIG motif/motif A; other site 529120008261 putative active site [active] 529120008262 putative metal binding site [ion binding]; other site 529120008263 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 529120008264 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 529120008265 metal binding triad; other site 529120008266 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 529120008267 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 529120008268 metal binding triad; other site 529120008269 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 529120008270 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 529120008271 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 529120008272 putative acyl-acceptor binding pocket; other site 529120008273 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 529120008274 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 529120008275 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 529120008276 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120008277 active site 529120008278 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 529120008279 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 529120008280 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120008281 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120008282 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 529120008283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120008284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120008285 metal binding site [ion binding]; metal-binding site 529120008286 active site 529120008287 I-site; other site 529120008288 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 529120008289 thymidine kinase; Provisional; Region: PRK04296 529120008290 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120008291 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 529120008292 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 529120008293 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120008294 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120008295 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120008296 DNA binding site [nucleotide binding] 529120008297 domain linker motif; other site 529120008298 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 529120008299 putative dimerization interface [polypeptide binding]; other site 529120008300 putative ligand binding site [chemical binding]; other site 529120008301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120008302 active site 529120008303 Pectinacetylesterase; Region: PAE; pfam03283 529120008304 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 529120008305 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 529120008306 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 529120008307 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 529120008308 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 529120008309 GTP/Mg2+ binding site [chemical binding]; other site 529120008310 G4 box; other site 529120008311 G5 box; other site 529120008312 G1 box; other site 529120008313 Switch I region; other site 529120008314 G2 box; other site 529120008315 G3 box; other site 529120008316 Switch II region; other site 529120008317 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 529120008318 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 529120008319 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 529120008320 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 529120008321 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 529120008322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120008323 catalytic residue [active] 529120008324 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 529120008325 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 529120008326 substrate binding site [chemical binding]; other site 529120008327 oxyanion hole (OAH) forming residues; other site 529120008328 trimer interface [polypeptide binding]; other site 529120008329 Predicted membrane protein [Function unknown]; Region: COG4539 529120008330 META domain; Region: META; pfam03724 529120008331 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 529120008332 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 529120008333 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 529120008334 NAD(P) binding site [chemical binding]; other site 529120008335 catalytic residues [active] 529120008336 choline dehydrogenase; Validated; Region: PRK02106 529120008337 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 529120008338 BCCT family transporter; Region: BCCT; cl00569 529120008339 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 529120008340 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 529120008341 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 529120008342 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 529120008343 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 529120008344 DNA binding residues [nucleotide binding] 529120008345 dimer interface [polypeptide binding]; other site 529120008346 [2Fe-2S] cluster binding site [ion binding]; other site 529120008347 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 529120008348 active site 529120008349 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 529120008350 active site 529120008351 potential frameshift: common BLAST hit: gi|332142199|ref|YP_004427937.1| PaaX-like protein 529120008352 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 529120008353 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 529120008354 active site 529120008355 DsrE/DsrF-like family; Region: DrsE; pfam02635 529120008356 potential frameshift: common BLAST hit: gi|325285292|ref|YP_004261082.1| major royal jelly protein 529120008357 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 529120008358 adenylate cyclase; Provisional; Region: cyaA; PRK09450 529120008359 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 529120008360 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 529120008361 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 529120008362 Penicillinase repressor; Region: Pencillinase_R; pfam03965 529120008363 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 529120008364 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 529120008365 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120008366 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 529120008367 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 529120008368 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 529120008369 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 529120008370 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 529120008371 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 529120008372 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120008373 dimer interface [polypeptide binding]; other site 529120008374 active site 529120008375 metal binding site [ion binding]; metal-binding site 529120008376 glutathione binding site [chemical binding]; other site 529120008377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 529120008378 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 529120008379 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 529120008380 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 529120008381 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 529120008382 catalytic loop [active] 529120008383 iron binding site [ion binding]; other site 529120008384 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 529120008385 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 529120008386 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 529120008387 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 529120008388 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 529120008389 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120008390 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 529120008391 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 529120008392 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 529120008393 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 529120008394 dimer interface [polypeptide binding]; other site 529120008395 conserved gate region; other site 529120008396 putative PBP binding loops; other site 529120008397 ABC-ATPase subunit interface; other site 529120008398 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 529120008399 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 529120008400 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 529120008401 Walker A/P-loop; other site 529120008402 ATP binding site [chemical binding]; other site 529120008403 Q-loop/lid; other site 529120008404 ABC transporter signature motif; other site 529120008405 Walker B; other site 529120008406 D-loop; other site 529120008407 H-loop/switch region; other site 529120008408 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 529120008409 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120008410 Walker A/P-loop; other site 529120008411 ATP binding site [chemical binding]; other site 529120008412 Q-loop/lid; other site 529120008413 ABC transporter signature motif; other site 529120008414 Walker B; other site 529120008415 D-loop; other site 529120008416 H-loop/switch region; other site 529120008417 hypothetical protein; Provisional; Region: PRK06194 529120008418 classical (c) SDRs; Region: SDR_c; cd05233 529120008419 NAD(P) binding site [chemical binding]; other site 529120008420 active site 529120008421 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 529120008422 putative heme binding site [chemical binding]; other site 529120008423 putative substrate binding site [chemical binding]; other site 529120008424 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 529120008425 classical (c) SDRs; Region: SDR_c; cd05233 529120008426 NAD(P) binding site [chemical binding]; other site 529120008427 active site 529120008428 intracellular protease, PfpI family; Region: PfpI; TIGR01382 529120008429 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 529120008430 proposed catalytic triad [active] 529120008431 conserved cys residue [active] 529120008432 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 529120008433 putative MFS family transporter protein; Provisional; Region: PRK03633 529120008434 Beta-lactamase; Region: Beta-lactamase; pfam00144 529120008435 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 529120008436 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120008437 Histidine kinase; Region: His_kinase; pfam06580 529120008438 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 529120008439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008440 active site 529120008441 phosphorylation site [posttranslational modification] 529120008442 intermolecular recognition site; other site 529120008443 dimerization interface [polypeptide binding]; other site 529120008444 LytTr DNA-binding domain; Region: LytTR; smart00850 529120008445 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 529120008446 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 529120008447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120008448 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 529120008449 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 529120008450 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120008451 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 529120008452 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 529120008453 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 529120008454 metal ion-dependent adhesion site (MIDAS); other site 529120008455 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 529120008456 active site 529120008457 catalytic site [active] 529120008458 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 529120008459 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 529120008460 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120008461 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 529120008462 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 529120008463 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 529120008464 adenosine deaminase; Provisional; Region: PRK09358 529120008465 active site 529120008466 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 529120008467 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 529120008468 putative catalytic residues [active] 529120008469 YaeQ protein; Region: YaeQ; pfam07152 529120008470 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 529120008471 catalytic motif [active] 529120008472 Catalytic residue [active] 529120008473 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 529120008474 putative FMN binding site [chemical binding]; other site 529120008475 putative dimer interface [polypeptide binding]; other site 529120008476 sugar efflux transporter; Region: 2A0120; TIGR00899 529120008477 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 529120008478 putative substrate translocation pore; other site 529120008479 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 529120008480 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 529120008481 active site 529120008482 Zn binding site [ion binding]; other site 529120008483 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 529120008484 Transcriptional regulators [Transcription]; Region: MarR; COG1846 529120008485 MarR family; Region: MarR_2; pfam12802 529120008486 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 529120008487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120008488 Coenzyme A binding pocket [chemical binding]; other site 529120008489 endonuclease VIII; Provisional; Region: PRK10445 529120008490 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 529120008491 DNA binding site [nucleotide binding] 529120008492 catalytic residue [active] 529120008493 putative catalytic residues [active] 529120008494 H2TH interface [polypeptide binding]; other site 529120008495 intercalation triad [nucleotide binding]; other site 529120008496 substrate specificity determining residue; other site 529120008497 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 529120008498 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 529120008499 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 529120008500 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 529120008501 NADP binding site [chemical binding]; other site 529120008502 dimer interface [polypeptide binding]; other site 529120008503 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 529120008504 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 529120008505 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 529120008506 ATP binding site [chemical binding]; other site 529120008507 putative Mg++ binding site [ion binding]; other site 529120008508 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 529120008509 nucleotide binding region [chemical binding]; other site 529120008510 ATP-binding site [chemical binding]; other site 529120008511 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 529120008512 homodimer interface [polypeptide binding]; other site 529120008513 active site 529120008514 SAM binding site [chemical binding]; other site 529120008515 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 529120008516 binding surface 529120008517 TPR motif; other site 529120008518 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120008519 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 529120008520 binding surface 529120008521 TPR motif; other site 529120008522 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 529120008523 dimer interface [polypeptide binding]; other site 529120008524 phosphorylation site [posttranslational modification] 529120008525 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 529120008526 ATP binding site [chemical binding]; other site 529120008527 Mg2+ binding site [ion binding]; other site 529120008528 G-X-G motif; other site 529120008529 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008531 active site 529120008532 phosphorylation site [posttranslational modification] 529120008533 intermolecular recognition site; other site 529120008534 dimerization interface [polypeptide binding]; other site 529120008535 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120008536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008537 active site 529120008538 phosphorylation site [posttranslational modification] 529120008539 intermolecular recognition site; other site 529120008540 dimerization interface [polypeptide binding]; other site 529120008541 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 529120008542 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 529120008543 GAF domain; Region: GAF; pfam01590 529120008544 Phytochrome region; Region: PHY; pfam00360 529120008545 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 529120008546 dimer interface [polypeptide binding]; other site 529120008547 phosphorylation site [posttranslational modification] 529120008548 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 529120008549 ATP binding site [chemical binding]; other site 529120008550 Mg2+ binding site [ion binding]; other site 529120008551 G-X-G motif; other site 529120008552 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008554 active site 529120008555 phosphorylation site [posttranslational modification] 529120008556 intermolecular recognition site; other site 529120008557 dimerization interface [polypeptide binding]; other site 529120008558 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 529120008559 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 529120008560 conserved hypothetical protein; Region: TIGR02285 529120008561 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 529120008562 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 529120008563 binding surface 529120008564 TPR repeat; Region: TPR_11; pfam13414 529120008565 TPR motif; other site 529120008566 Beta-lactamase; Region: Beta-lactamase; pfam00144 529120008567 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 529120008568 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 529120008569 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 529120008570 glycine dehydrogenase; Provisional; Region: PRK05367 529120008571 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 529120008572 tetramer interface [polypeptide binding]; other site 529120008573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120008574 catalytic residue [active] 529120008575 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 529120008576 tetramer interface [polypeptide binding]; other site 529120008577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120008578 catalytic residue [active] 529120008579 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 529120008580 lipoyl attachment site [posttranslational modification]; other site 529120008581 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 529120008582 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 529120008583 L-fucose transporter; Provisional; Region: PRK10133; cl17665 529120008584 glucose/galactose transporter; Region: gluP; TIGR01272 529120008585 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 529120008586 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 529120008587 active site 529120008588 dimer interface [polypeptide binding]; other site 529120008589 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 529120008590 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 529120008591 dimer interface [polypeptide binding]; other site 529120008592 active site 529120008593 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 529120008594 dimer interface [polypeptide binding]; other site 529120008595 active site 529120008596 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 529120008597 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 529120008598 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 529120008599 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 529120008600 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 529120008601 active site 529120008602 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 529120008603 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120008604 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 529120008605 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 529120008606 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120008607 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120008608 DNA binding site [nucleotide binding] 529120008609 domain linker motif; other site 529120008610 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 529120008611 putative dimerization interface [polypeptide binding]; other site 529120008612 putative ligand binding site [chemical binding]; other site 529120008613 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120008614 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120008615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120008616 LysR substrate binding domain; Region: LysR_substrate; pfam03466 529120008617 dimerization interface [polypeptide binding]; other site 529120008618 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 529120008619 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 529120008620 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 529120008621 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 529120008622 active site 529120008623 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120008624 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 529120008625 PA/protease or protease-like domain interface [polypeptide binding]; other site 529120008626 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120008627 Peptidase family M28; Region: Peptidase_M28; pfam04389 529120008628 metal binding site [ion binding]; metal-binding site 529120008629 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 529120008630 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 529120008631 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 529120008632 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 529120008633 proline aminopeptidase P II; Provisional; Region: PRK10879 529120008634 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 529120008635 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 529120008636 active site 529120008637 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 529120008638 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 529120008639 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 529120008640 substrate binding site [chemical binding]; other site 529120008641 dimer interface [polypeptide binding]; other site 529120008642 ATP binding site [chemical binding]; other site 529120008643 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 529120008644 active site 529120008645 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120008646 GAF domain; Region: GAF; pfam01590 529120008647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120008648 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 529120008649 dimer interface [polypeptide binding]; other site 529120008650 phosphorylation site [posttranslational modification] 529120008651 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 529120008652 ATP binding site [chemical binding]; other site 529120008653 Mg2+ binding site [ion binding]; other site 529120008654 G-X-G motif; other site 529120008655 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008657 active site 529120008658 phosphorylation site [posttranslational modification] 529120008659 intermolecular recognition site; other site 529120008660 dimerization interface [polypeptide binding]; other site 529120008661 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 529120008662 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 529120008663 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 529120008664 tetramer (dimer of dimers) interface [polypeptide binding]; other site 529120008665 active site 529120008666 dimer interface [polypeptide binding]; other site 529120008667 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 529120008668 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 529120008669 ligand binding site [chemical binding]; other site 529120008670 NAD binding site [chemical binding]; other site 529120008671 tetramer interface [polypeptide binding]; other site 529120008672 catalytic site [active] 529120008673 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 529120008674 L-serine binding site [chemical binding]; other site 529120008675 ACT domain interface; other site 529120008676 Protein of unknown function, DUF481; Region: DUF481; pfam04338 529120008677 Protein of unknown function, DUF481; Region: DUF481; pfam04338 529120008678 HDOD domain; Region: HDOD; pfam08668 529120008679 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 529120008680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 529120008681 potential frameshift: common BLAST hit: gi|332142383|ref|YP_004428121.1| RND multidrug efflux transporter MexF 529120008682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120008683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120008684 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120008685 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 529120008686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120008687 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 529120008688 substrate binding pocket [chemical binding]; other site 529120008689 dimerization interface [polypeptide binding]; other site 529120008690 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 529120008691 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 529120008692 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120008693 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 529120008694 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 529120008695 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 529120008696 E3 interaction surface; other site 529120008697 lipoyl attachment site [posttranslational modification]; other site 529120008698 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 529120008699 E3 interaction surface; other site 529120008700 lipoyl attachment site [posttranslational modification]; other site 529120008701 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 529120008702 E3 interaction surface; other site 529120008703 lipoyl attachment site [posttranslational modification]; other site 529120008704 e3 binding domain; Region: E3_binding; pfam02817 529120008705 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 529120008706 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 529120008707 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 529120008708 dimer interface [polypeptide binding]; other site 529120008709 TPP-binding site [chemical binding]; other site 529120008710 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 529120008711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120008712 DNA-binding site [nucleotide binding]; DNA binding site 529120008713 FCD domain; Region: FCD; pfam07729 529120008714 regulatory protein AmpE; Provisional; Region: PRK10987 529120008715 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 529120008716 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 529120008717 amidase catalytic site [active] 529120008718 Zn binding residues [ion binding]; other site 529120008719 substrate binding site [chemical binding]; other site 529120008720 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 529120008721 catalytic motif [active] 529120008722 Catalytic residue [active] 529120008723 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 529120008724 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 529120008725 dimerization interface [polypeptide binding]; other site 529120008726 active site 529120008727 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 529120008728 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 529120008729 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120008730 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120008731 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 529120008732 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 529120008733 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 529120008734 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 529120008735 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 529120008736 CoA-binding site [chemical binding]; other site 529120008737 ATP-binding [chemical binding]; other site 529120008738 hypothetical protein; Provisional; Region: PRK05287 529120008739 Domain of unknown function (DUF329); Region: DUF329; pfam03884 529120008740 aspartoacylase; Provisional; Region: PRK02259 529120008741 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 529120008742 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 529120008743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120008744 dimer interface [polypeptide binding]; other site 529120008745 putative CheW interface [polypeptide binding]; other site 529120008746 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008748 active site 529120008749 phosphorylation site [posttranslational modification] 529120008750 intermolecular recognition site; other site 529120008751 dimerization interface [polypeptide binding]; other site 529120008752 AAA domain; Region: AAA_31; pfam13614 529120008753 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 529120008754 P-loop; other site 529120008755 Magnesium ion binding site [ion binding]; other site 529120008756 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 529120008757 Magnesium ion binding site [ion binding]; other site 529120008758 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 529120008759 putative binding surface; other site 529120008760 active site 529120008761 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 529120008762 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 529120008763 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 529120008764 ATP binding site [chemical binding]; other site 529120008765 Mg2+ binding site [ion binding]; other site 529120008766 G-X-G motif; other site 529120008767 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 529120008768 Response regulator receiver domain; Region: Response_reg; pfam00072 529120008769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008770 active site 529120008771 phosphorylation site [posttranslational modification] 529120008772 intermolecular recognition site; other site 529120008773 dimerization interface [polypeptide binding]; other site 529120008774 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 529120008775 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 529120008776 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 529120008777 HEAT repeats; Region: HEAT_2; pfam13646 529120008778 HEAT repeats; Region: HEAT_2; pfam13646 529120008779 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 529120008780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008781 active site 529120008782 phosphorylation site [posttranslational modification] 529120008783 intermolecular recognition site; other site 529120008784 CheB methylesterase; Region: CheB_methylest; pfam01339 529120008785 CheW-like domain; Region: CheW; pfam01584 529120008786 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 529120008787 CheW-like domain; Region: CheW; pfam01584 529120008788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120008789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120008790 dimer interface [polypeptide binding]; other site 529120008791 putative CheW interface [polypeptide binding]; other site 529120008792 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120008793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120008794 dimer interface [polypeptide binding]; other site 529120008795 putative CheW interface [polypeptide binding]; other site 529120008796 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 529120008797 active site 529120008798 8-oxo-dGMP binding site [chemical binding]; other site 529120008799 nudix motif; other site 529120008800 metal binding site [ion binding]; metal-binding site 529120008801 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 529120008802 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 529120008803 SEC-C motif; Region: SEC-C; pfam02810 529120008804 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 529120008805 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120008806 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 529120008807 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 529120008808 cell division protein FtsZ; Validated; Region: PRK09330 529120008809 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 529120008810 nucleotide binding site [chemical binding]; other site 529120008811 SulA interaction site; other site 529120008812 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 529120008813 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 529120008814 nucleotide binding site [chemical binding]; other site 529120008815 Cell division protein FtsA; Region: FtsA; pfam14450 529120008816 cell division protein FtsQ; Provisional; Region: PRK10775 529120008817 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 529120008818 Cell division protein FtsQ; Region: FtsQ; pfam03799 529120008819 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 529120008820 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 529120008821 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120008822 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 529120008823 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 529120008824 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120008825 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 529120008826 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 529120008827 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 529120008828 active site 529120008829 homodimer interface [polypeptide binding]; other site 529120008830 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 529120008831 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 529120008832 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120008833 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 529120008834 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 529120008835 Mg++ binding site [ion binding]; other site 529120008836 putative catalytic motif [active] 529120008837 putative substrate binding site [chemical binding]; other site 529120008838 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 529120008839 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 529120008840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120008841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 529120008842 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 529120008843 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 529120008844 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 529120008845 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 529120008846 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 529120008847 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 529120008848 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 529120008849 Cell division protein FtsL; Region: FtsL; pfam04999 529120008850 MraW methylase family; Region: Methyltransf_5; pfam01795 529120008851 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 529120008852 cell division protein MraZ; Reviewed; Region: PRK00326 529120008853 MraZ protein; Region: MraZ; pfam02381 529120008854 MraZ protein; Region: MraZ; pfam02381 529120008855 SapC; Region: SapC; pfam07277 529120008856 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 529120008857 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 529120008858 active site 529120008859 dimer interface [polypeptide binding]; other site 529120008860 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 529120008861 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 529120008862 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120008863 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 529120008864 Outer membrane efflux protein; Region: OEP; pfam02321 529120008865 Outer membrane efflux protein; Region: OEP; pfam02321 529120008866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120008867 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 529120008868 catalytic triad [active] 529120008869 dimer interface [polypeptide binding]; other site 529120008870 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120008871 ParA-like protein; Provisional; Region: PHA02518 529120008872 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 529120008873 P-loop; other site 529120008874 Magnesium ion binding site [ion binding]; other site 529120008875 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120008876 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120008877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120008878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120008879 metal binding site [ion binding]; metal-binding site 529120008880 active site 529120008881 I-site; other site 529120008882 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 529120008883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008884 active site 529120008885 phosphorylation site [posttranslational modification] 529120008886 intermolecular recognition site; other site 529120008887 dimerization interface [polypeptide binding]; other site 529120008888 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 529120008889 Walker A motif; other site 529120008890 ATP binding site [chemical binding]; other site 529120008891 Walker B motif; other site 529120008892 arginine finger; other site 529120008893 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 529120008894 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 529120008895 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 529120008896 ATP binding site [chemical binding]; other site 529120008897 Mg2+ binding site [ion binding]; other site 529120008898 G-X-G motif; other site 529120008899 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 529120008900 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 529120008901 active site 529120008902 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120008903 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 529120008904 catalytic triad [active] 529120008905 dimer interface [polypeptide binding]; other site 529120008906 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120008907 ParA-like protein; Provisional; Region: PHA02518 529120008908 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 529120008909 P-loop; other site 529120008910 Magnesium ion binding site [ion binding]; other site 529120008911 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120008912 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120008913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120008914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120008915 metal binding site [ion binding]; metal-binding site 529120008916 active site 529120008917 I-site; other site 529120008918 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 529120008919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120008920 active site 529120008921 phosphorylation site [posttranslational modification] 529120008922 intermolecular recognition site; other site 529120008923 dimerization interface [polypeptide binding]; other site 529120008924 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 529120008925 Walker A motif; other site 529120008926 ATP binding site [chemical binding]; other site 529120008927 Walker B motif; other site 529120008928 arginine finger; other site 529120008929 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 529120008930 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 529120008931 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 529120008932 ATP binding site [chemical binding]; other site 529120008933 Mg2+ binding site [ion binding]; other site 529120008934 G-X-G motif; other site 529120008935 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 529120008936 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 529120008937 active site 529120008938 Peptidase family M48; Region: Peptidase_M48; pfam01435 529120008939 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120008940 RNA methyltransferase, RsmE family; Region: TIGR00046 529120008941 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 529120008942 glutathione synthetase; Provisional; Region: PRK05246 529120008943 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 529120008944 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 529120008945 hypothetical protein; Validated; Region: PRK00228 529120008946 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 529120008947 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 529120008948 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 529120008949 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 529120008950 ATP binding site [chemical binding]; other site 529120008951 Walker B motif; other site 529120008952 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 529120008953 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 529120008954 Walker A motif; other site 529120008955 ATP binding site [chemical binding]; other site 529120008956 Walker B motif; other site 529120008957 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 529120008958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 529120008959 catalytic residue [active] 529120008960 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 529120008961 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 529120008962 YGGT family; Region: YGGT; pfam02325 529120008963 YGGT family; Region: YGGT; pfam02325 529120008964 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 529120008965 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120008966 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 529120008967 active site 529120008968 FMN binding site [chemical binding]; other site 529120008969 2,4-decadienoyl-CoA binding site; other site 529120008970 catalytic residue [active] 529120008971 4Fe-4S cluster binding site [ion binding]; other site 529120008972 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 529120008973 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120008974 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 529120008975 active site 529120008976 metal binding site [ion binding]; metal-binding site 529120008977 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 529120008978 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120008979 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 529120008980 putative C-terminal domain interface [polypeptide binding]; other site 529120008981 putative GSH binding site (G-site) [chemical binding]; other site 529120008982 putative dimer interface [polypeptide binding]; other site 529120008983 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 529120008984 dimer interface [polypeptide binding]; other site 529120008985 N-terminal domain interface [polypeptide binding]; other site 529120008986 substrate binding pocket (H-site) [chemical binding]; other site 529120008987 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 529120008988 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 529120008989 active site 529120008990 Cu2+ binding site [ion binding]; other site 529120008991 E-class dimer interface [polypeptide binding]; other site 529120008992 Zn2+ binding site [ion binding]; other site 529120008993 P-class dimer interface [polypeptide binding]; other site 529120008994 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 529120008995 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 529120008996 AzlC protein; Region: AzlC; pfam03591 529120008997 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 529120008998 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 529120008999 sequence-specific DNA binding site [nucleotide binding]; other site 529120009000 salt bridge; other site 529120009001 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 529120009002 MFS transport protein AraJ; Provisional; Region: PRK10091 529120009003 putative substrate translocation pore; other site 529120009004 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 529120009005 RNA recognition motif; Region: RRM; smart00360 529120009006 hypothetical protein; Validated; Region: PRK02101 529120009007 transaldolase-like protein; Provisional; Region: PTZ00411 529120009008 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 529120009009 active site 529120009010 dimer interface [polypeptide binding]; other site 529120009011 catalytic residue [active] 529120009012 potential frameshift: common BLAST hit: gi|332142483|ref|YP_004428221.1| glucose-6-phosphate isomerase 529120009013 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 529120009014 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 529120009015 ligand binding site [chemical binding]; other site 529120009016 active site 529120009017 UGI interface [polypeptide binding]; other site 529120009018 catalytic site [active] 529120009019 threonine synthase; Validated; Region: PRK09225 529120009020 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 529120009021 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120009022 catalytic residue [active] 529120009023 homoserine kinase; Provisional; Region: PRK01212 529120009024 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 529120009025 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 529120009026 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 529120009027 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 529120009028 putative catalytic residues [active] 529120009029 putative nucleotide binding site [chemical binding]; other site 529120009030 putative aspartate binding site [chemical binding]; other site 529120009031 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 529120009032 dimer interface [polypeptide binding]; other site 529120009033 putative threonine allosteric regulatory site; other site 529120009034 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 529120009035 putative threonine allosteric regulatory site; other site 529120009036 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 529120009037 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 529120009038 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 529120009039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120009040 ABC transporter signature motif; other site 529120009041 Walker B; other site 529120009042 D-loop; other site 529120009043 H-loop/switch region; other site 529120009044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120009045 AAA domain; Region: AAA_21; pfam13304 529120009046 Walker A/P-loop; other site 529120009047 ATP binding site [chemical binding]; other site 529120009048 Q-loop/lid; other site 529120009049 ABC transporter signature motif; other site 529120009050 Walker B; other site 529120009051 D-loop; other site 529120009052 H-loop/switch region; other site 529120009053 LysR family transcriptional regulator; Provisional; Region: PRK14997 529120009054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120009055 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 529120009056 dimerization interface [polypeptide binding]; other site 529120009057 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 529120009058 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 529120009059 substrate binding site [chemical binding]; other site 529120009060 catalytic Zn binding site [ion binding]; other site 529120009061 NAD binding site [chemical binding]; other site 529120009062 structural Zn binding site [ion binding]; other site 529120009063 dimer interface [polypeptide binding]; other site 529120009064 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 529120009065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009067 active site 529120009068 phosphorylation site [posttranslational modification] 529120009069 intermolecular recognition site; other site 529120009070 dimerization interface [polypeptide binding]; other site 529120009071 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 529120009072 DNA binding residues [nucleotide binding] 529120009073 dimerization interface [polypeptide binding]; other site 529120009074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 529120009075 Histidine kinase; Region: HisKA_3; pfam07730 529120009076 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 529120009077 catalytic residues [active] 529120009078 active site 529120009079 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 529120009080 putative Zn2+ binding site [ion binding]; other site 529120009081 putative DNA binding site [nucleotide binding]; other site 529120009082 Low molecular weight phosphatase family; Region: LMWPc; cd00115 529120009083 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 529120009084 active site 529120009085 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120009086 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 529120009087 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 529120009088 arsenical-resistance protein; Region: acr3; TIGR00832 529120009089 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009091 active site 529120009092 phosphorylation site [posttranslational modification] 529120009093 intermolecular recognition site; other site 529120009094 dimerization interface [polypeptide binding]; other site 529120009095 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 529120009096 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 529120009097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120009098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009099 active site 529120009100 phosphorylation site [posttranslational modification] 529120009101 intermolecular recognition site; other site 529120009102 dimerization interface [polypeptide binding]; other site 529120009103 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 529120009104 DNA binding site [nucleotide binding] 529120009105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120009106 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 529120009107 dimerization interface [polypeptide binding]; other site 529120009108 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 529120009109 dimer interface [polypeptide binding]; other site 529120009110 phosphorylation site [posttranslational modification] 529120009111 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 529120009112 ATP binding site [chemical binding]; other site 529120009113 Mg2+ binding site [ion binding]; other site 529120009114 G-X-G motif; other site 529120009115 hypothetical protein; Provisional; Region: PRK09273 529120009116 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 529120009117 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 529120009118 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 529120009119 D-cysteine desulfhydrase; Validated; Region: PRK03910 529120009120 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 529120009121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120009122 catalytic residue [active] 529120009123 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 529120009124 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 529120009125 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 529120009126 active site 529120009127 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 529120009128 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 529120009129 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 529120009130 putative hydrophobic ligand binding site [chemical binding]; other site 529120009131 protein interface [polypeptide binding]; other site 529120009132 gate; other site 529120009133 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 529120009134 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 529120009135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120009136 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 529120009137 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 529120009138 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 529120009139 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 529120009140 dimer interface [polypeptide binding]; other site 529120009141 active site 529120009142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 529120009143 catalytic residues [active] 529120009144 substrate binding site [chemical binding]; other site 529120009145 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 529120009146 Predicted methyltransferases [General function prediction only]; Region: COG0313 529120009147 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 529120009148 putative SAM binding site [chemical binding]; other site 529120009149 putative homodimer interface [polypeptide binding]; other site 529120009150 LppC putative lipoprotein; Region: LppC; pfam04348 529120009151 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 529120009152 putative ligand binding site [chemical binding]; other site 529120009153 hypothetical protein; Reviewed; Region: PRK12497 529120009154 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120009155 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 529120009156 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 529120009157 dimer interface [polypeptide binding]; other site 529120009158 active site 529120009159 BON domain; Region: BON; pfam04972 529120009160 BON domain; Region: BON; pfam04972 529120009161 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 529120009162 Major Facilitator Superfamily; Region: MFS_1; pfam07690 529120009163 putative substrate translocation pore; other site 529120009164 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 529120009165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 529120009166 Histidine kinase; Region: HisKA_3; pfam07730 529120009167 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009169 active site 529120009170 phosphorylation site [posttranslational modification] 529120009171 intermolecular recognition site; other site 529120009172 dimerization interface [polypeptide binding]; other site 529120009173 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 529120009174 DNA binding residues [nucleotide binding] 529120009175 dimerization interface [polypeptide binding]; other site 529120009176 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009177 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 529120009178 N-terminal plug; other site 529120009179 ligand-binding site [chemical binding]; other site 529120009180 Transcriptional regulators [Transcription]; Region: GntR; COG1802 529120009181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120009182 DNA-binding site [nucleotide binding]; DNA binding site 529120009183 FCD domain; Region: FCD; pfam07729 529120009184 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 529120009185 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 529120009186 tetramer interface [polypeptide binding]; other site 529120009187 active site 529120009188 Mg2+/Mn2+ binding site [ion binding]; other site 529120009189 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 529120009190 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 529120009191 dimer interface [polypeptide binding]; other site 529120009192 active site 529120009193 citrylCoA binding site [chemical binding]; other site 529120009194 oxalacetate/citrate binding site [chemical binding]; other site 529120009195 coenzyme A binding site [chemical binding]; other site 529120009196 catalytic triad [active] 529120009197 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 529120009198 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 529120009199 substrate binding site [chemical binding]; other site 529120009200 ligand binding site [chemical binding]; other site 529120009201 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 529120009202 substrate binding site [chemical binding]; other site 529120009203 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 529120009204 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120009205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009206 active site 529120009207 phosphorylation site [posttranslational modification] 529120009208 intermolecular recognition site; other site 529120009209 dimerization interface [polypeptide binding]; other site 529120009210 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009212 active site 529120009213 phosphorylation site [posttranslational modification] 529120009214 intermolecular recognition site; other site 529120009215 dimerization interface [polypeptide binding]; other site 529120009216 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120009217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120009218 metal binding site [ion binding]; metal-binding site 529120009219 active site 529120009220 I-site; other site 529120009221 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 529120009222 Na binding site [ion binding]; other site 529120009223 Predicted membrane protein [Function unknown]; Region: COG3428 529120009224 Bacterial PH domain; Region: DUF304; pfam03703 529120009225 Bacterial PH domain; Region: DUF304; cl01348 529120009226 Bacterial PH domain; Region: DUF304; pfam03703 529120009227 Bacterial PH domain; Region: DUF304; cl01348 529120009228 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 529120009229 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 529120009230 putative active site [active] 529120009231 heme pocket [chemical binding]; other site 529120009232 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 529120009233 dimer interface [polypeptide binding]; other site 529120009234 phosphorylation site [posttranslational modification] 529120009235 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 529120009236 ATP binding site [chemical binding]; other site 529120009237 Mg2+ binding site [ion binding]; other site 529120009238 G-X-G motif; other site 529120009239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009240 active site 529120009241 phosphorylation site [posttranslational modification] 529120009242 intermolecular recognition site; other site 529120009243 dimerization interface [polypeptide binding]; other site 529120009244 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 529120009245 putative binding surface; other site 529120009246 active site 529120009247 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 529120009248 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 529120009249 substrate binding site [chemical binding]; other site 529120009250 amidase catalytic site [active] 529120009251 Zn binding residues [ion binding]; other site 529120009252 Bacterial SH3 domain; Region: SH3_3; pfam08239 529120009253 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 529120009254 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 529120009255 active site 529120009256 dimer interface [polypeptide binding]; other site 529120009257 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 529120009258 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 529120009259 active site 529120009260 FMN binding site [chemical binding]; other site 529120009261 substrate binding site [chemical binding]; other site 529120009262 3Fe-4S cluster binding site [ion binding]; other site 529120009263 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 529120009264 domain interface; other site 529120009265 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 529120009266 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 529120009267 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120009268 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 529120009269 hypothetical protein; Provisional; Region: PRK08201 529120009270 metal binding site [ion binding]; metal-binding site 529120009271 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 529120009272 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 529120009273 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 529120009274 CobD/Cbib protein; Region: CobD_Cbib; cl00561 529120009275 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 529120009276 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 529120009277 cobalamin binding residues [chemical binding]; other site 529120009278 putative BtuC binding residues; other site 529120009279 dimer interface [polypeptide binding]; other site 529120009280 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 529120009281 active site residue [active] 529120009282 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 529120009283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120009284 Coenzyme A binding pocket [chemical binding]; other site 529120009285 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 529120009286 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 529120009287 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 529120009288 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 529120009289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120009290 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 529120009291 DNA binding residues [nucleotide binding] 529120009292 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 529120009293 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 529120009294 active site 529120009295 HIGH motif; other site 529120009296 dimer interface [polypeptide binding]; other site 529120009297 KMSKS motif; other site 529120009298 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 529120009299 RNA binding surface [nucleotide binding]; other site 529120009300 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 529120009301 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 529120009302 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120009303 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 529120009304 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 529120009305 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 529120009306 L-fucose transporter; Provisional; Region: PRK10133; cl17665 529120009307 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 529120009308 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 529120009309 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 529120009310 FMN binding site [chemical binding]; other site 529120009311 active site 529120009312 substrate binding site [chemical binding]; other site 529120009313 catalytic residue [active] 529120009314 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 529120009315 putative hydrophobic ligand binding site [chemical binding]; other site 529120009316 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 529120009317 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 529120009318 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120009319 catalytic residue [active] 529120009320 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 529120009321 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 529120009322 NAD binding site [chemical binding]; other site 529120009323 ligand binding site [chemical binding]; other site 529120009324 catalytic site [active] 529120009325 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120009326 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 529120009327 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 529120009328 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 529120009329 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 529120009330 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 529120009331 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 529120009332 Switch I; other site 529120009333 Switch II; other site 529120009334 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 529120009335 septum formation inhibitor; Reviewed; Region: minC; PRK00339 529120009336 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 529120009337 fumarate hydratase; Reviewed; Region: fumC; PRK00485 529120009338 Class II fumarases; Region: Fumarase_classII; cd01362 529120009339 active site 529120009340 tetramer interface [polypeptide binding]; other site 529120009341 azurin; Region: azurin; TIGR02695 529120009342 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 529120009343 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 529120009344 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 529120009345 Cl- selectivity filter; other site 529120009346 Cl- binding residues [ion binding]; other site 529120009347 pore gating glutamate residue; other site 529120009348 dimer interface [polypeptide binding]; other site 529120009349 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 529120009350 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 529120009351 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 529120009352 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 529120009353 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 529120009354 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 529120009355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120009356 homodimer interface [polypeptide binding]; other site 529120009357 catalytic residue [active] 529120009358 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009360 active site 529120009361 phosphorylation site [posttranslational modification] 529120009362 intermolecular recognition site; other site 529120009363 dimerization interface [polypeptide binding]; other site 529120009364 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 529120009365 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 529120009366 G1 box; other site 529120009367 putative GEF interaction site [polypeptide binding]; other site 529120009368 GTP/Mg2+ binding site [chemical binding]; other site 529120009369 Switch I region; other site 529120009370 G2 box; other site 529120009371 G3 box; other site 529120009372 Switch II region; other site 529120009373 G4 box; other site 529120009374 G5 box; other site 529120009375 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 529120009376 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 529120009377 glutamine synthetase; Provisional; Region: glnA; PRK09469 529120009378 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 529120009379 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 529120009380 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 529120009381 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 529120009382 putative active site [active] 529120009383 heme pocket [chemical binding]; other site 529120009384 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 529120009385 dimer interface [polypeptide binding]; other site 529120009386 phosphorylation site [posttranslational modification] 529120009387 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 529120009388 ATP binding site [chemical binding]; other site 529120009389 Mg2+ binding site [ion binding]; other site 529120009390 G-X-G motif; other site 529120009391 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 529120009392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009393 active site 529120009394 phosphorylation site [posttranslational modification] 529120009395 intermolecular recognition site; other site 529120009396 dimerization interface [polypeptide binding]; other site 529120009397 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 529120009398 Walker A motif; other site 529120009399 ATP binding site [chemical binding]; other site 529120009400 Walker B motif; other site 529120009401 arginine finger; other site 529120009402 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 529120009403 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 529120009404 putative binding surface; other site 529120009405 active site 529120009406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120009407 Zn2+ binding site [ion binding]; other site 529120009408 Mg2+ binding site [ion binding]; other site 529120009409 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 529120009410 putative acyl-acceptor binding pocket; other site 529120009411 RNase E inhibitor protein; Provisional; Region: PRK11191 529120009412 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 529120009413 The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of...; Region: ML; cl00274 529120009414 PAS domain; Region: PAS; smart00091 529120009415 PAS domain; Region: PAS_9; pfam13426 529120009416 putative active site [active] 529120009417 heme pocket [chemical binding]; other site 529120009418 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 529120009419 PAS domain; Region: PAS_9; pfam13426 529120009420 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 529120009421 putative active site [active] 529120009422 heme pocket [chemical binding]; other site 529120009423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120009424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120009425 metal binding site [ion binding]; metal-binding site 529120009426 active site 529120009427 I-site; other site 529120009428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 529120009429 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 529120009430 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 529120009431 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 529120009432 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 529120009433 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 529120009434 dimer interface [polypeptide binding]; other site 529120009435 phosphorylation site [posttranslational modification] 529120009436 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 529120009437 ATP binding site [chemical binding]; other site 529120009438 Mg2+ binding site [ion binding]; other site 529120009439 G-X-G motif; other site 529120009440 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120009441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009442 active site 529120009443 phosphorylation site [posttranslational modification] 529120009444 intermolecular recognition site; other site 529120009445 dimerization interface [polypeptide binding]; other site 529120009446 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 529120009447 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 529120009448 HIGH motif; other site 529120009449 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 529120009450 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 529120009451 active site 529120009452 KMSKS motif; other site 529120009453 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 529120009454 tRNA binding surface [nucleotide binding]; other site 529120009455 anticodon binding site; other site 529120009456 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 529120009457 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 529120009458 multifunctional aminopeptidase A; Provisional; Region: PRK00913 529120009459 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 529120009460 interface (dimer of trimers) [polypeptide binding]; other site 529120009461 Substrate-binding/catalytic site; other site 529120009462 Zn-binding sites [ion binding]; other site 529120009463 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 529120009464 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 529120009465 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 529120009466 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 529120009467 RDD family; Region: RDD; pfam06271 529120009468 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009469 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 529120009470 N-terminal plug; other site 529120009471 ligand-binding site [chemical binding]; other site 529120009472 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 529120009473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120009474 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 529120009475 DNA binding residues [nucleotide binding] 529120009476 Anti-sigma-K factor rskA; Region: RskA; pfam10099 529120009477 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 529120009478 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 529120009479 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 529120009480 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 529120009481 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 529120009482 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120009483 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 529120009484 putative catalytic residues [active] 529120009485 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 529120009486 Part of AAA domain; Region: AAA_19; pfam13245 529120009487 Family description; Region: UvrD_C_2; pfam13538 529120009488 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 529120009489 active site flap/lid [active] 529120009490 nucleophilic elbow; other site 529120009491 catalytic triad [active] 529120009492 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 529120009493 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 529120009494 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 529120009495 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 529120009496 PAS fold; Region: PAS_4; pfam08448 529120009497 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 529120009498 putative active site [active] 529120009499 heme pocket [chemical binding]; other site 529120009500 GAF domain; Region: GAF; pfam01590 529120009501 PAS domain S-box; Region: sensory_box; TIGR00229 529120009502 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 529120009503 putative active site [active] 529120009504 heme pocket [chemical binding]; other site 529120009505 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 529120009506 PAS fold; Region: PAS_3; pfam08447 529120009507 putative active site [active] 529120009508 heme pocket [chemical binding]; other site 529120009509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120009510 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 529120009511 dimer interface [polypeptide binding]; other site 529120009512 phosphorylation site [posttranslational modification] 529120009513 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 529120009514 ATP binding site [chemical binding]; other site 529120009515 Mg2+ binding site [ion binding]; other site 529120009516 G-X-G motif; other site 529120009517 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009519 active site 529120009520 phosphorylation site [posttranslational modification] 529120009521 intermolecular recognition site; other site 529120009522 dimerization interface [polypeptide binding]; other site 529120009523 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 529120009524 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120009525 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 529120009526 N-terminal plug; other site 529120009527 ligand-binding site [chemical binding]; other site 529120009528 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 529120009529 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120009530 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120009531 cytochrome c-550; Provisional; Region: psbV; cl17239 529120009532 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 529120009533 potential frameshift: common BLAST hit: gi|291286879|ref|YP_003503695.1| TonB-dependent receptor plug 529120009534 Predicted periplasmic protein [Function unknown]; Region: COG3904 529120009535 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 529120009536 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 529120009537 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 529120009538 amphipathic channel; other site 529120009539 Asn-Pro-Ala signature motifs; other site 529120009540 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 529120009541 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 529120009542 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120009543 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 529120009544 N-terminal plug; other site 529120009545 ligand-binding site [chemical binding]; other site 529120009546 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 529120009547 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009548 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 529120009549 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 529120009550 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 529120009551 Na binding site [ion binding]; other site 529120009552 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120009553 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120009554 malate dehydrogenase; Provisional; Region: PRK13529 529120009555 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 529120009556 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 529120009557 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 529120009558 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 529120009559 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 529120009560 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 529120009561 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 529120009562 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 529120009563 TAP-like protein; Region: Abhydrolase_4; pfam08386 529120009564 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120009565 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120009566 DNA binding site [nucleotide binding] 529120009567 domain linker motif; other site 529120009568 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 529120009569 putative dimerization interface [polypeptide binding]; other site 529120009570 putative ligand binding site [chemical binding]; other site 529120009571 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 529120009572 histidinol dehydrogenase; Region: hisD; TIGR00069 529120009573 NAD binding site [chemical binding]; other site 529120009574 dimerization interface [polypeptide binding]; other site 529120009575 product binding site; other site 529120009576 substrate binding site [chemical binding]; other site 529120009577 zinc binding site [ion binding]; other site 529120009578 catalytic residues [active] 529120009579 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 529120009580 classical (c) SDRs; Region: SDR_c; cd05233 529120009581 NAD(P) binding site [chemical binding]; other site 529120009582 active site 529120009583 Cupin domain; Region: Cupin_2; cl17218 529120009584 Cupin domain; Region: Cupin_2; pfam07883 529120009585 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 529120009586 SnoaL-like domain; Region: SnoaL_2; pfam12680 529120009587 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 529120009588 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 529120009589 Asp-box motif; other site 529120009590 catalytic site [active] 529120009591 hypothetical protein; Provisional; Region: PRK11469 529120009592 Domain of unknown function DUF; Region: DUF204; pfam02659 529120009593 Domain of unknown function DUF; Region: DUF204; pfam02659 529120009594 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 529120009595 Uncharacterized conserved protein [Function unknown]; Region: COG0397 529120009596 hypothetical protein; Validated; Region: PRK00029 529120009597 potential frameshift: common BLAST hit: gi|344202410|ref|YP_004787553.1| oxidoreductase domain-containing protein 529120009598 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 529120009599 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 529120009600 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 529120009601 active site 529120009602 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 529120009603 NAD binding site [chemical binding]; other site 529120009604 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 529120009605 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 529120009606 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120009607 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120009608 metal binding site [ion binding]; metal-binding site 529120009609 active site 529120009610 I-site; other site 529120009611 Predicted permeases [General function prediction only]; Region: COG0679 529120009612 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 529120009613 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 529120009614 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 529120009615 dimer interface [polypeptide binding]; other site 529120009616 Trp docking motif [polypeptide binding]; other site 529120009617 active site 529120009618 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 529120009619 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 529120009620 substrate binding pocket [chemical binding]; other site 529120009621 membrane-bound complex binding site; other site 529120009622 hinge residues; other site 529120009623 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 529120009624 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 529120009625 ligand binding site [chemical binding]; other site 529120009626 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 529120009627 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 529120009628 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 529120009629 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 529120009630 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 529120009631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120009632 Walker A/P-loop; other site 529120009633 ATP binding site [chemical binding]; other site 529120009634 Q-loop/lid; other site 529120009635 ABC transporter signature motif; other site 529120009636 Walker B; other site 529120009637 D-loop; other site 529120009638 H-loop/switch region; other site 529120009639 ABC-2 type transporter; Region: ABC2_membrane; cl17235 529120009640 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 529120009641 multifunctional aminopeptidase A; Provisional; Region: PRK00913 529120009642 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 529120009643 interface (dimer of trimers) [polypeptide binding]; other site 529120009644 Substrate-binding/catalytic site; other site 529120009645 Zn-binding sites [ion binding]; other site 529120009646 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 529120009647 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 529120009648 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 529120009649 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 529120009650 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 529120009651 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 529120009652 FeS/SAM binding site; other site 529120009653 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 529120009654 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 529120009655 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009656 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120009657 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009658 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 529120009659 Gram-negative porin; Region: Porin_4; pfam13609 529120009660 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009661 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009662 active site 529120009663 phosphorylation site [posttranslational modification] 529120009664 intermolecular recognition site; other site 529120009665 dimerization interface [polypeptide binding]; other site 529120009666 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 529120009667 DNA binding residues [nucleotide binding] 529120009668 dimerization interface [polypeptide binding]; other site 529120009669 PAS fold; Region: PAS_7; pfam12860 529120009670 PAS fold; Region: PAS; pfam00989 529120009671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120009672 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 529120009673 dimer interface [polypeptide binding]; other site 529120009674 phosphorylation site [posttranslational modification] 529120009675 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 529120009676 ATP binding site [chemical binding]; other site 529120009677 G-X-G motif; other site 529120009678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009679 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009680 active site 529120009681 phosphorylation site [posttranslational modification] 529120009682 intermolecular recognition site; other site 529120009683 dimerization interface [polypeptide binding]; other site 529120009684 Uncharacterized conserved protein [Function unknown]; Region: COG3287 529120009685 FIST N domain; Region: FIST; pfam08495 529120009686 FIST C domain; Region: FIST_C; pfam10442 529120009687 FMN-binding domain; Region: FMN_bind; cl01081 529120009688 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 529120009689 4Fe-4S binding domain; Region: Fer4_5; pfam12801 529120009690 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 529120009691 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 529120009692 NAD(P) binding site [chemical binding]; other site 529120009693 catalytic residues [active] 529120009694 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009696 active site 529120009697 phosphorylation site [posttranslational modification] 529120009698 intermolecular recognition site; other site 529120009699 dimerization interface [polypeptide binding]; other site 529120009700 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 529120009701 DNA binding residues [nucleotide binding] 529120009702 dimerization interface [polypeptide binding]; other site 529120009703 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 529120009704 Histidine kinase; Region: HisKA_3; pfam07730 529120009705 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 529120009706 ATP binding site [chemical binding]; other site 529120009707 Mg2+ binding site [ion binding]; other site 529120009708 G-X-G motif; other site 529120009709 PAS domain; Region: PAS_9; pfam13426 529120009710 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 529120009711 putative active site [active] 529120009712 heme pocket [chemical binding]; other site 529120009713 PAS domain; Region: PAS_9; pfam13426 529120009714 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 529120009715 putative active site [active] 529120009716 heme pocket [chemical binding]; other site 529120009717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120009718 dimer interface [polypeptide binding]; other site 529120009719 putative CheW interface [polypeptide binding]; other site 529120009720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120009721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120009722 LysR substrate binding domain; Region: LysR_substrate; pfam03466 529120009723 dimerization interface [polypeptide binding]; other site 529120009724 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 529120009725 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 529120009726 tetrameric interface [polypeptide binding]; other site 529120009727 NAD binding site [chemical binding]; other site 529120009728 catalytic residues [active] 529120009729 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 529120009730 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 529120009731 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 529120009732 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 529120009733 active site 529120009734 BCCT family transporter; Region: BCCT; pfam02028 529120009735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120009736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120009737 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 529120009738 putative effector binding pocket; other site 529120009739 dimerization interface [polypeptide binding]; other site 529120009740 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 529120009741 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 529120009742 active site 529120009743 substrate binding site [chemical binding]; other site 529120009744 FMN binding site [chemical binding]; other site 529120009745 putative catalytic residues [active] 529120009746 D-lactate dehydrogenase; Provisional; Region: PRK11183 529120009747 FAD binding domain; Region: FAD_binding_4; pfam01565 529120009748 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 529120009749 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009750 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 529120009751 DNA binding residues [nucleotide binding] 529120009752 dimerization interface [polypeptide binding]; other site 529120009753 lipoprotein; Provisional; Region: PRK11443 529120009754 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 529120009755 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 529120009756 Curli assembly protein CsgE; Region: CsgE; pfam10627 529120009757 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 529120009758 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 529120009759 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 529120009760 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 529120009761 catalytic triad [active] 529120009762 putative active site [active] 529120009763 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 529120009764 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 529120009765 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120009766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009767 active site 529120009768 phosphorylation site [posttranslational modification] 529120009769 intermolecular recognition site; other site 529120009770 dimerization interface [polypeptide binding]; other site 529120009771 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 529120009772 DNA binding residues [nucleotide binding] 529120009773 dimerization interface [polypeptide binding]; other site 529120009774 MASE1; Region: MASE1; cl17823 529120009775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 529120009776 Histidine kinase; Region: HisKA_3; pfam07730 529120009777 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 529120009778 ATP binding site [chemical binding]; other site 529120009779 Mg2+ binding site [ion binding]; other site 529120009780 G-X-G motif; other site 529120009781 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 529120009782 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 529120009783 DEAD-like helicases superfamily; Region: DEXDc; smart00487 529120009784 ATP binding site [chemical binding]; other site 529120009785 Mg++ binding site [ion binding]; other site 529120009786 motif III; other site 529120009787 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 529120009788 nucleotide binding region [chemical binding]; other site 529120009789 ATP-binding site [chemical binding]; other site 529120009790 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120009791 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 529120009792 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 529120009793 heme binding site [chemical binding]; other site 529120009794 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 529120009795 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 529120009796 PAS domain S-box; Region: sensory_box; TIGR00229 529120009797 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 529120009798 putative active site [active] 529120009799 heme pocket [chemical binding]; other site 529120009800 PAS domain S-box; Region: sensory_box; TIGR00229 529120009801 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 529120009802 putative active site [active] 529120009803 heme pocket [chemical binding]; other site 529120009804 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 529120009805 PAS domain; Region: PAS_9; pfam13426 529120009806 putative active site [active] 529120009807 heme pocket [chemical binding]; other site 529120009808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120009809 putative CheW interface [polypeptide binding]; other site 529120009810 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 529120009811 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 529120009812 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 529120009813 putative active site [active] 529120009814 putative active site [active] 529120009815 catalytic site [active] 529120009816 catalytic site [active] 529120009817 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 529120009818 putative active site [active] 529120009819 catalytic site [active] 529120009820 Uncharacterized conserved protein [Function unknown]; Region: COG0398 529120009821 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 529120009822 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 529120009823 putative catalytic site [active] 529120009824 putative metal binding site [ion binding]; other site 529120009825 putative phosphate binding site [ion binding]; other site 529120009826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120009827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120009828 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 529120009829 dimerization interface [polypeptide binding]; other site 529120009830 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120009831 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 529120009832 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 529120009833 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 529120009834 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 529120009835 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 529120009836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120009837 homodimer interface [polypeptide binding]; other site 529120009838 catalytic residue [active] 529120009839 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009841 active site 529120009842 phosphorylation site [posttranslational modification] 529120009843 intermolecular recognition site; other site 529120009844 dimerization interface [polypeptide binding]; other site 529120009845 CheC-like family; Region: CheC; pfam04509 529120009846 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 529120009847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120009848 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 529120009849 dimer interface [polypeptide binding]; other site 529120009850 phosphorylation site [posttranslational modification] 529120009851 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 529120009852 ATP binding site [chemical binding]; other site 529120009853 Mg2+ binding site [ion binding]; other site 529120009854 G-X-G motif; other site 529120009855 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 529120009856 DNA polymerase II; Reviewed; Region: PRK05762 529120009857 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 529120009858 active site 529120009859 catalytic site [active] 529120009860 substrate binding site [chemical binding]; other site 529120009861 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 529120009862 active site 529120009863 metal-binding site 529120009864 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 529120009865 pseudo EF-hand loop; other site 529120009866 peptide binding pocket; other site 529120009867 Ca2+ binding site [ion binding]; other site 529120009868 AMP-binding domain protein; Validated; Region: PRK08315 529120009869 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 529120009870 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 529120009871 acyl-activating enzyme (AAE) consensus motif; other site 529120009872 acyl-activating enzyme (AAE) consensus motif; other site 529120009873 putative AMP binding site [chemical binding]; other site 529120009874 putative active site [active] 529120009875 putative CoA binding site [chemical binding]; other site 529120009876 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 529120009877 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 529120009878 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 529120009879 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 529120009880 S-adenosylmethionine binding site [chemical binding]; other site 529120009881 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 529120009882 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120009883 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 529120009884 Fatty acid desaturase; Region: FA_desaturase; pfam00487 529120009885 Di-iron ligands [ion binding]; other site 529120009886 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 529120009887 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 529120009888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120009889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120009890 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 529120009891 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 529120009892 ligand binding site [chemical binding]; other site 529120009893 active site 529120009894 Response regulator receiver domain; Region: Response_reg; pfam00072 529120009895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120009896 active site 529120009897 phosphorylation site [posttranslational modification] 529120009898 intermolecular recognition site; other site 529120009899 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 529120009900 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120009901 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120009902 metal binding site [ion binding]; metal-binding site 529120009903 active site 529120009904 I-site; other site 529120009905 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 529120009906 TIGR03899 family protein; Region: TIGR03899 529120009907 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 529120009908 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 529120009909 Active Sites [active] 529120009910 sulfite reductase subunit beta; Provisional; Region: PRK13504 529120009911 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 529120009912 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 529120009913 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 529120009914 Flavodoxin; Region: Flavodoxin_1; pfam00258 529120009915 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 529120009916 FAD binding pocket [chemical binding]; other site 529120009917 FAD binding motif [chemical binding]; other site 529120009918 catalytic residues [active] 529120009919 NAD binding pocket [chemical binding]; other site 529120009920 phosphate binding motif [ion binding]; other site 529120009921 beta-alpha-beta structure motif; other site 529120009922 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 529120009923 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 529120009924 PspC domain; Region: PspC; pfam04024 529120009925 phage shock protein A; Region: phageshock_pspA; TIGR02977 529120009926 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 529120009927 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 529120009928 FMN binding site [chemical binding]; other site 529120009929 active site 529120009930 catalytic residues [active] 529120009931 substrate binding site [chemical binding]; other site 529120009932 hypothetical protein; Provisional; Region: PRK11281 529120009933 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120009934 ligand binding site [chemical binding]; other site 529120009935 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 529120009936 Rab subfamily motif 1 (RabSF1); other site 529120009937 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 529120009938 G1 box; other site 529120009939 GTP/Mg2+ binding site [chemical binding]; other site 529120009940 Rab subfamily motif 2 (RabSF2); other site 529120009941 Switch I region; other site 529120009942 G2 box; other site 529120009943 effector interaction site; other site 529120009944 GDI interaction site; other site 529120009945 Rab family motif 1 (RabF1); other site 529120009946 GEF interaction site [polypeptide binding]; other site 529120009947 Rab family motif 2 (RabF2); other site 529120009948 G3 box; other site 529120009949 Switch II region; other site 529120009950 Rab family motif 3 (RabF3); other site 529120009951 Rab family motif 4 (RabF4); other site 529120009952 Rab family motif 5 (RabF5); other site 529120009953 Rab subfamily motif 3 (RabSF3); other site 529120009954 G4 box; other site 529120009955 G5 box; other site 529120009956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120009957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120009958 metal binding site [ion binding]; metal-binding site 529120009959 active site 529120009960 I-site; other site 529120009961 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 529120009962 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 529120009963 S-formylglutathione hydrolase; Region: PLN02442 529120009964 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 529120009965 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 529120009966 putative acyl-acceptor binding pocket; other site 529120009967 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 529120009968 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 529120009969 putative acyl-acceptor binding pocket; other site 529120009970 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120009971 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120009972 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 529120009973 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 529120009974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120009975 NAD(P) binding site [chemical binding]; other site 529120009976 active site 529120009977 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 529120009978 Na2 binding site [ion binding]; other site 529120009979 putative substrate binding site 1 [chemical binding]; other site 529120009980 Na binding site 1 [ion binding]; other site 529120009981 putative substrate binding site 2 [chemical binding]; other site 529120009982 C factor cell-cell signaling protein; Provisional; Region: PRK09009 529120009983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120009984 NAD(P) binding site [chemical binding]; other site 529120009985 active site 529120009986 Protein of unknown function, DUF393; Region: DUF393; pfam04134 529120009987 methionine sulfoxide reductase A; Provisional; Region: PRK14054 529120009988 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 529120009989 metal binding site [ion binding]; metal-binding site 529120009990 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 529120009991 putative active site [active] 529120009992 putative metal binding site [ion binding]; other site 529120009993 flavodoxin FldB; Provisional; Region: PRK12359 529120009994 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 529120009995 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 529120009996 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 529120009997 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 529120009998 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 529120009999 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 529120010000 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 529120010001 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 529120010002 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 529120010003 DXD motif; other site 529120010004 PilZ domain; Region: PilZ; pfam07238 529120010005 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 529120010006 Methyltransferase domain; Region: Methyltransf_26; pfam13659 529120010007 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 529120010008 NADH(P)-binding; Region: NAD_binding_10; pfam13460 529120010009 NAD binding site [chemical binding]; other site 529120010010 active site 529120010011 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 529120010012 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 529120010013 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120010014 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 529120010015 pentamer interface [polypeptide binding]; other site 529120010016 dodecaamer interface [polypeptide binding]; other site 529120010017 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 529120010018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120010019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120010020 metal binding site [ion binding]; metal-binding site 529120010021 active site 529120010022 I-site; other site 529120010023 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 529120010024 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 529120010025 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 529120010026 tetramer interface [polypeptide binding]; other site 529120010027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120010028 catalytic residue [active] 529120010029 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 529120010030 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 529120010031 active site 529120010032 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 529120010033 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 529120010034 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120010035 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 529120010036 active site 529120010037 metal binding site [ion binding]; metal-binding site 529120010038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120010039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120010040 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 529120010041 dimerization interface [polypeptide binding]; other site 529120010042 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 529120010043 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 529120010044 putative active site [active] 529120010045 putative dimer interface [polypeptide binding]; other site 529120010046 Predicted membrane protein [Function unknown]; Region: COG4682 529120010047 yiaA/B two helix domain; Region: YiaAB; pfam05360 529120010048 yiaA/B two helix domain; Region: YiaAB; cl01759 529120010049 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 529120010050 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 529120010051 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 529120010052 Na binding site [ion binding]; other site 529120010053 putative substrate binding site [chemical binding]; other site 529120010054 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120010055 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120010056 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 529120010057 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 529120010058 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 529120010059 tetrameric interface [polypeptide binding]; other site 529120010060 NAD binding site [chemical binding]; other site 529120010061 catalytic residues [active] 529120010062 Flavin Reductases; Region: FlaRed; cl00801 529120010063 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 529120010064 putative FMN binding site [chemical binding]; other site 529120010065 pyrimidine utilization protein D; Region: RutD; TIGR03611 529120010066 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 529120010067 homotrimer interaction site [polypeptide binding]; other site 529120010068 putative active site [active] 529120010069 Isochorismatase family; Region: Isochorismatase; pfam00857 529120010070 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 529120010071 catalytic triad [active] 529120010072 conserved cis-peptide bond; other site 529120010073 pyrimidine utilization protein A; Region: RutA; TIGR03612 529120010074 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 529120010075 active site 529120010076 dimer interface [polypeptide binding]; other site 529120010077 non-prolyl cis peptide bond; other site 529120010078 insertion regions; other site 529120010079 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 529120010080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 529120010081 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 529120010082 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 529120010083 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 529120010084 ligand binding site [chemical binding]; other site 529120010085 flexible hinge region; other site 529120010086 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 529120010087 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 529120010088 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 529120010089 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 529120010090 fructuronate transporter; Provisional; Region: PRK10034; cl15264 529120010091 GntP family permease; Region: GntP_permease; pfam02447 529120010092 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 529120010093 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120010094 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120010095 DNA binding site [nucleotide binding] 529120010096 domain linker motif; other site 529120010097 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 529120010098 putative dimerization interface [polypeptide binding]; other site 529120010099 putative ligand binding site [chemical binding]; other site 529120010100 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 529120010101 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 529120010102 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 529120010103 active site 529120010104 DNA polymerase IV; Validated; Region: PRK02406 529120010105 DNA binding site [nucleotide binding] 529120010106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 529120010107 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 529120010108 ApbE family; Region: ApbE; pfam02424 529120010109 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 529120010110 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 529120010111 FAD binding pocket [chemical binding]; other site 529120010112 FAD binding motif [chemical binding]; other site 529120010113 phosphate binding motif [ion binding]; other site 529120010114 beta-alpha-beta structure motif; other site 529120010115 NAD binding pocket [chemical binding]; other site 529120010116 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 529120010117 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 529120010118 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 529120010119 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 529120010120 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 529120010121 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 529120010122 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 529120010123 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 529120010124 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 529120010125 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 529120010126 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 529120010127 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 529120010128 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 529120010129 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 529120010130 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 529120010131 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 529120010132 malate dehydrogenase; Provisional; Region: PRK05086 529120010133 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 529120010134 NAD binding site [chemical binding]; other site 529120010135 dimerization interface [polypeptide binding]; other site 529120010136 Substrate binding site [chemical binding]; other site 529120010137 arginine repressor; Provisional; Region: PRK05066 529120010138 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 529120010139 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 529120010140 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 529120010141 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 529120010142 potential catalytic triad [active] 529120010143 conserved cys residue [active] 529120010144 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 529120010145 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120010146 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 529120010147 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 529120010148 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 529120010149 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 529120010150 Sugar specificity; other site 529120010151 Pyrimidine base specificity; other site 529120010152 ATP-binding site [chemical binding]; other site 529120010153 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 529120010154 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 529120010155 Nucleoside recognition; Region: Gate; pfam07670 529120010156 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 529120010157 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 529120010158 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 529120010159 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 529120010160 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 529120010161 TPR motif; other site 529120010162 TPR repeat; Region: TPR_11; pfam13414 529120010163 binding surface 529120010164 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 529120010165 binding surface 529120010166 TPR motif; other site 529120010167 TPR repeat; Region: TPR_11; pfam13414 529120010168 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 529120010169 Fasciclin domain; Region: Fasciclin; pfam02469 529120010170 MAPEG family; Region: MAPEG; pfam01124 529120010171 Response regulator receiver domain; Region: Response_reg; pfam00072 529120010172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010173 active site 529120010174 phosphorylation site [posttranslational modification] 529120010175 intermolecular recognition site; other site 529120010176 dimerization interface [polypeptide binding]; other site 529120010177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120010178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120010179 metal binding site [ion binding]; metal-binding site 529120010180 active site 529120010181 I-site; other site 529120010182 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 529120010183 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 529120010184 active site 529120010185 catalytic site [active] 529120010186 substrate binding site [chemical binding]; other site 529120010187 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 529120010188 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 529120010189 ligand binding site [chemical binding]; other site 529120010190 flexible hinge region; other site 529120010191 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 529120010192 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 529120010193 metal binding triad; other site 529120010194 potential frameshift: common BLAST hit: gi|333891553|ref|YP_004465428.1| Na+/solute symporter 529120010195 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 529120010196 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 529120010197 Na binding site [ion binding]; other site 529120010198 PAS fold; Region: PAS_7; pfam12860 529120010199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120010200 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 529120010201 dimer interface [polypeptide binding]; other site 529120010202 phosphorylation site [posttranslational modification] 529120010203 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 529120010204 ATP binding site [chemical binding]; other site 529120010205 Mg2+ binding site [ion binding]; other site 529120010206 G-X-G motif; other site 529120010207 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120010208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010209 active site 529120010210 phosphorylation site [posttranslational modification] 529120010211 intermolecular recognition site; other site 529120010212 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 529120010213 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120010214 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 529120010215 RimK-like ATP-grasp domain; Region: RimK; pfam08443 529120010216 Predicted deacylase [General function prediction only]; Region: COG3608 529120010217 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 529120010218 putative active site [active] 529120010219 Zn binding site [ion binding]; other site 529120010220 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 529120010221 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120010222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010223 active site 529120010224 phosphorylation site [posttranslational modification] 529120010225 intermolecular recognition site; other site 529120010226 dimerization interface [polypeptide binding]; other site 529120010227 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 529120010228 DNA binding residues [nucleotide binding] 529120010229 dimerization interface [polypeptide binding]; other site 529120010230 acetyl-CoA synthetase; Provisional; Region: PRK00174 529120010231 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 529120010232 active site 529120010233 CoA binding site [chemical binding]; other site 529120010234 acyl-activating enzyme (AAE) consensus motif; other site 529120010235 AMP binding site [chemical binding]; other site 529120010236 acetate binding site [chemical binding]; other site 529120010237 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 529120010238 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 529120010239 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 529120010240 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120010241 active site 529120010242 catalytic tetrad [active] 529120010243 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 529120010244 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 529120010245 active site 529120010246 catalytic residues [active] 529120010247 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 529120010248 phosphopeptide binding site; other site 529120010249 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 529120010250 GAF domain; Region: GAF_2; pfam13185 529120010251 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 529120010252 Catalytic domain of Protein Kinases; Region: PKc; cd00180 529120010253 active site 529120010254 ATP binding site [chemical binding]; other site 529120010255 substrate binding site [chemical binding]; other site 529120010256 activation loop (A-loop); other site 529120010257 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 529120010258 TPR motif; other site 529120010259 binding surface 529120010260 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120010261 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120010262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 529120010263 Histidine kinase; Region: HisKA_3; pfam07730 529120010264 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 529120010265 ATP binding site [chemical binding]; other site 529120010266 Mg2+ binding site [ion binding]; other site 529120010267 G-X-G motif; other site 529120010268 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120010269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010270 active site 529120010271 phosphorylation site [posttranslational modification] 529120010272 intermolecular recognition site; other site 529120010273 dimerization interface [polypeptide binding]; other site 529120010274 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 529120010275 DNA binding residues [nucleotide binding] 529120010276 dimerization interface [polypeptide binding]; other site 529120010277 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 529120010278 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 529120010279 active site 529120010280 catalytic residues [active] 529120010281 S-layer homology domain; Region: SLH; pfam00395 529120010282 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 529120010283 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 529120010284 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 529120010285 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 529120010286 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 529120010287 tetramer interface [polypeptide binding]; other site 529120010288 heme binding pocket [chemical binding]; other site 529120010289 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 529120010290 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 529120010291 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 529120010292 Switch II region; other site 529120010293 G4 box; other site 529120010294 G5 box; other site 529120010295 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 529120010296 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 529120010297 G1 box; other site 529120010298 GTP/Mg2+ binding site [chemical binding]; other site 529120010299 G2 box; other site 529120010300 Switch I region; other site 529120010301 Type III pantothenate kinase; Region: Pan_kinase; cl17198 529120010302 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 529120010303 putative DNA binding site [nucleotide binding]; other site 529120010304 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 529120010305 putative Zn2+ binding site [ion binding]; other site 529120010306 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 529120010307 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 529120010308 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 529120010309 FAD binding domain; Region: FAD_binding_4; pfam01565 529120010310 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 529120010311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 529120010312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120010313 dimer interface [polypeptide binding]; other site 529120010314 putative CheW interface [polypeptide binding]; other site 529120010315 potential frameshift: common BLAST hit: gi|333895187|ref|YP_004469062.1| outer membrane component of multidrug efflux pump 529120010316 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120010317 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 529120010318 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120010319 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 529120010320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120010321 Walker A/P-loop; other site 529120010322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120010323 Q-loop/lid; other site 529120010324 Q-loop/lid; other site 529120010325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120010326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120010327 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 529120010328 dimerization interface [polypeptide binding]; other site 529120010329 Flagellin N-methylase; Region: FliB; pfam03692 529120010330 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 529120010331 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 529120010332 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 529120010333 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 529120010334 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 529120010335 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 529120010336 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 529120010337 NAD binding site [chemical binding]; other site 529120010338 substrate binding site [chemical binding]; other site 529120010339 homodimer interface [polypeptide binding]; other site 529120010340 active site 529120010341 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 529120010342 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 529120010343 NADP binding site [chemical binding]; other site 529120010344 active site 529120010345 putative substrate binding site [chemical binding]; other site 529120010346 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 529120010347 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 529120010348 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 529120010349 substrate binding site; other site 529120010350 tetramer interface; other site 529120010351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 529120010352 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 529120010353 Probable Catalytic site; other site 529120010354 metal-binding site 529120010355 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 529120010356 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 529120010357 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120010358 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 529120010359 nudix motif; other site 529120010360 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 529120010361 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 529120010362 NADP binding site [chemical binding]; other site 529120010363 active site 529120010364 putative substrate binding site [chemical binding]; other site 529120010365 Family description; Region: VCBS; pfam13517 529120010366 Family description; Region: VCBS; pfam13517 529120010367 Family description; Region: VCBS; pfam13517 529120010368 putative transposase OrfB; Reviewed; Region: PHA02517 529120010369 HTH-like domain; Region: HTH_21; pfam13276 529120010370 Integrase core domain; Region: rve; pfam00665 529120010371 Integrase core domain; Region: rve_3; pfam13683 529120010372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 529120010373 Transposase; Region: HTH_Tnp_1; pfam01527 529120010374 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 529120010375 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 529120010376 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 529120010377 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 529120010378 catalytic triad [active] 529120010379 putative active site [active] 529120010380 Family description; Region: VCBS; pfam13517 529120010381 Family description; Region: VCBS; pfam13517 529120010382 Family description; Region: VCBS; pfam13517 529120010383 Patatin-like phospholipase; Region: Patatin; pfam01734 529120010384 active site 529120010385 nucleophile elbow; other site 529120010386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 529120010387 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 529120010388 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 529120010389 NADP-binding site; other site 529120010390 homotetramer interface [polypeptide binding]; other site 529120010391 substrate binding site [chemical binding]; other site 529120010392 homodimer interface [polypeptide binding]; other site 529120010393 active site 529120010394 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 529120010395 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 529120010396 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 529120010397 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 529120010398 Ligand binding site; other site 529120010399 oligomer interface; other site 529120010400 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 529120010401 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 529120010402 motif II; other site 529120010403 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 529120010404 putative active site [active] 529120010405 KpsF/GutQ family protein; Region: kpsF; TIGR00393 529120010406 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 529120010407 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 529120010408 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 529120010409 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 529120010410 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 529120010411 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 529120010412 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 529120010413 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 529120010414 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 529120010415 active site 529120010416 substrate binding site [chemical binding]; other site 529120010417 trimer interface [polypeptide binding]; other site 529120010418 CoA binding site [chemical binding]; other site 529120010419 Family description; Region: VCBS; pfam13517 529120010420 Family description; Region: VCBS; pfam13517 529120010421 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 529120010422 binding surface 529120010423 TPR motif; other site 529120010424 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 529120010425 binding surface 529120010426 TPR motif; other site 529120010427 Tetratricopeptide repeat; Region: TPR_12; pfam13424 529120010428 choline-sulfatase; Region: chol_sulfatase; TIGR03417 529120010429 Sulfatase; Region: Sulfatase; pfam00884 529120010430 Family description; Region: VCBS; pfam13517 529120010431 Family description; Region: VCBS; pfam13517 529120010432 Family description; Region: VCBS; pfam13517 529120010433 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120010434 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 529120010435 active site 529120010436 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 529120010437 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 529120010438 Probable Catalytic site; other site 529120010439 metal-binding site 529120010440 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 529120010441 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 529120010442 Probable Catalytic site; other site 529120010443 metal-binding site 529120010444 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 529120010445 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 529120010446 Substrate binding site; other site 529120010447 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 529120010448 phosphomannomutase CpsG; Provisional; Region: PRK15414 529120010449 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 529120010450 active site 529120010451 substrate binding site [chemical binding]; other site 529120010452 metal binding site [ion binding]; metal-binding site 529120010453 flagellin; Provisional; Region: PRK12806 529120010454 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 529120010455 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 529120010456 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 529120010457 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 529120010458 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 529120010459 alphaNTD homodimer interface [polypeptide binding]; other site 529120010460 alphaNTD - beta interaction site [polypeptide binding]; other site 529120010461 alphaNTD - beta' interaction site [polypeptide binding]; other site 529120010462 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 529120010463 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 529120010464 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 529120010465 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 529120010466 RNA binding surface [nucleotide binding]; other site 529120010467 30S ribosomal protein S11; Validated; Region: PRK05309 529120010468 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 529120010469 30S ribosomal protein S13; Region: bact_S13; TIGR03631 529120010470 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 529120010471 potential frameshift: common BLAST hit: gi|332142186|ref|YP_004427924.1| preprotein translocase subunit SecY 529120010472 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 529120010473 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 529120010474 23S rRNA binding site [nucleotide binding]; other site 529120010475 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 529120010476 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 529120010477 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 529120010478 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 529120010479 5S rRNA interface [nucleotide binding]; other site 529120010480 23S rRNA interface [nucleotide binding]; other site 529120010481 L5 interface [polypeptide binding]; other site 529120010482 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 529120010483 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 529120010484 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 529120010485 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 529120010486 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 529120010487 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 529120010488 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 529120010489 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 529120010490 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 529120010491 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 529120010492 RNA binding site [nucleotide binding]; other site 529120010493 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 529120010494 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120010495 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 529120010496 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120010497 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 529120010498 dimer interface [polypeptide binding]; other site 529120010499 phosphorylation site [posttranslational modification] 529120010500 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 529120010501 ATP binding site [chemical binding]; other site 529120010502 Mg2+ binding site [ion binding]; other site 529120010503 G-X-G motif; other site 529120010504 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120010505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010506 active site 529120010507 phosphorylation site [posttranslational modification] 529120010508 intermolecular recognition site; other site 529120010509 dimerization interface [polypeptide binding]; other site 529120010510 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 529120010511 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 529120010512 active site 529120010513 catalytic residues [active] 529120010514 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 529120010515 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 529120010516 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 529120010517 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 529120010518 ribonuclease R; Region: RNase_R; TIGR02063 529120010519 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 529120010520 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 529120010521 RNB domain; Region: RNB; pfam00773 529120010522 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 529120010523 RNA binding site [nucleotide binding]; other site 529120010524 PhoD-like phosphatase; Region: PhoD; pfam09423 529120010525 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 529120010526 putative active site [active] 529120010527 putative metal binding site [ion binding]; other site 529120010528 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 529120010529 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 529120010530 Predicted transcriptional regulator [Transcription]; Region: COG3905 529120010531 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 529120010532 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120010533 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 529120010534 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 529120010535 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 529120010536 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 529120010537 Sel1-like repeats; Region: SEL1; smart00671 529120010538 Phosphate-starvation-inducible E; Region: PsiE; cl01264 529120010539 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 529120010540 FMN reductase; Validated; Region: fre; PRK08051 529120010541 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 529120010542 FAD binding pocket [chemical binding]; other site 529120010543 FAD binding motif [chemical binding]; other site 529120010544 phosphate binding motif [ion binding]; other site 529120010545 beta-alpha-beta structure motif; other site 529120010546 NAD binding pocket [chemical binding]; other site 529120010547 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 529120010548 Peptidase family M28; Region: Peptidase_M28; pfam04389 529120010549 putative metal binding site [ion binding]; other site 529120010550 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 529120010551 Interdomain contacts; other site 529120010552 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120010553 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 529120010554 substrate binding pocket [chemical binding]; other site 529120010555 membrane-bound complex binding site; other site 529120010556 hinge residues; other site 529120010557 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 529120010558 GAF domain; Region: GAF; pfam01590 529120010559 Phytochrome region; Region: PHY; pfam00360 529120010560 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 529120010561 dimer interface [polypeptide binding]; other site 529120010562 phosphorylation site [posttranslational modification] 529120010563 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 529120010564 ATP binding site [chemical binding]; other site 529120010565 Mg2+ binding site [ion binding]; other site 529120010566 G-X-G motif; other site 529120010567 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120010568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010569 active site 529120010570 phosphorylation site [posttranslational modification] 529120010571 intermolecular recognition site; other site 529120010572 dimerization interface [polypeptide binding]; other site 529120010573 Predicted transcriptional regulators [Transcription]; Region: COG1510 529120010574 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 529120010575 putative DNA binding site [nucleotide binding]; other site 529120010576 putative Zn2+ binding site [ion binding]; other site 529120010577 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 529120010578 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 529120010579 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 529120010580 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 529120010581 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 529120010582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120010583 dimer interface [polypeptide binding]; other site 529120010584 putative CheW interface [polypeptide binding]; other site 529120010585 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 529120010586 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 529120010587 putative DNA binding site [nucleotide binding]; other site 529120010588 putative Zn2+ binding site [ion binding]; other site 529120010589 AsnC family; Region: AsnC_trans_reg; pfam01037 529120010590 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 529120010591 DNA-binding site [nucleotide binding]; DNA binding site 529120010592 RNA-binding motif; other site 529120010593 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 529120010594 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 529120010595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 529120010596 SCP-2 sterol transfer family; Region: SCP2; pfam02036 529120010597 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 529120010598 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 529120010599 S-adenosylmethionine binding site [chemical binding]; other site 529120010600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 529120010601 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 529120010602 oligopeptidase A; Provisional; Region: PRK10911 529120010603 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 529120010604 active site 529120010605 Zn binding site [ion binding]; other site 529120010606 Helix-turn-helix domain; Region: HTH_17; pfam12728 529120010607 Response regulator receiver domain; Region: Response_reg; pfam00072 529120010608 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010609 active site 529120010610 phosphorylation site [posttranslational modification] 529120010611 intermolecular recognition site; other site 529120010612 dimerization interface [polypeptide binding]; other site 529120010613 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 529120010614 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 529120010615 dimerization interface [polypeptide binding]; other site 529120010616 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 529120010617 dimer interface [polypeptide binding]; other site 529120010618 phosphorylation site [posttranslational modification] 529120010619 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 529120010620 ATP binding site [chemical binding]; other site 529120010621 Mg2+ binding site [ion binding]; other site 529120010622 G-X-G motif; other site 529120010623 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 529120010624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010625 active site 529120010626 phosphorylation site [posttranslational modification] 529120010627 intermolecular recognition site; other site 529120010628 dimerization interface [polypeptide binding]; other site 529120010629 HD domain; Region: HD_5; pfam13487 529120010630 glutathione reductase; Validated; Region: PRK06116 529120010631 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 529120010632 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120010633 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 529120010634 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 529120010635 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 529120010636 putative [Fe4-S4] binding site [ion binding]; other site 529120010637 putative molybdopterin cofactor binding site [chemical binding]; other site 529120010638 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 529120010639 putative molybdopterin cofactor binding site; other site 529120010640 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120010641 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 529120010642 N-terminal plug; other site 529120010643 ligand-binding site [chemical binding]; other site 529120010644 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120010645 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 529120010646 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 529120010647 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 529120010648 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 529120010649 Amidohydrolase; Region: Amidohydro_5; pfam13594 529120010650 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 529120010651 active site 529120010652 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 529120010653 PEGA domain; Region: PEGA; pfam08308 529120010654 PEGA domain; Region: PEGA; pfam08308 529120010655 Uncharacterized conserved protein [Function unknown]; Region: COG1262 529120010656 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 529120010657 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 529120010658 metal ion-dependent adhesion site (MIDAS); other site 529120010659 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 529120010660 von Willebrand factor type A domain; Region: VWA_2; pfam13519 529120010661 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 529120010662 tetramerization interface [polypeptide binding]; other site 529120010663 substrate binding pocket [chemical binding]; other site 529120010664 catalytic residues [active] 529120010665 inhibitor binding sites; inhibition site 529120010666 NADP(H) binding site [chemical binding]; other site 529120010667 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 529120010668 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120010669 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 529120010670 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 529120010671 putative active site [active] 529120010672 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120010673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120010674 Walker A/P-loop; other site 529120010675 ATP binding site [chemical binding]; other site 529120010676 Q-loop/lid; other site 529120010677 ABC transporter signature motif; other site 529120010678 Walker B; other site 529120010679 D-loop; other site 529120010680 H-loop/switch region; other site 529120010681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 529120010682 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 529120010683 DNA binding residues [nucleotide binding] 529120010684 dimerization interface [polypeptide binding]; other site 529120010685 ATP-grasp domain; Region: ATP-grasp_4; cl17255 529120010686 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 529120010687 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 529120010688 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 529120010689 non-specific DNA binding site [nucleotide binding]; other site 529120010690 salt bridge; other site 529120010691 sequence-specific DNA binding site [nucleotide binding]; other site 529120010692 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 529120010693 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 529120010694 Walker A motif; other site 529120010695 ATP binding site [chemical binding]; other site 529120010696 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 529120010697 Walker B motif; other site 529120010698 arginine finger; other site 529120010699 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 529120010700 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 529120010701 active site 529120010702 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 529120010703 DNA-binding site [nucleotide binding]; DNA binding site 529120010704 RNA-binding motif; other site 529120010705 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 529120010706 MltA-interacting protein MipA; Region: MipA; cl01504 529120010707 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 529120010708 Sporulation related domain; Region: SPOR; pfam05036 529120010709 primosome assembly protein PriA; Validated; Region: PRK05580 529120010710 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 529120010711 ATP binding site [chemical binding]; other site 529120010712 putative Mg++ binding site [ion binding]; other site 529120010713 helicase superfamily c-terminal domain; Region: HELICc; smart00490 529120010714 ATP-binding site [chemical binding]; other site 529120010715 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 529120010716 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 529120010717 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 529120010718 Malic enzyme, N-terminal domain; Region: malic; pfam00390 529120010719 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 529120010720 putative NAD(P) binding site [chemical binding]; other site 529120010721 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 529120010722 dimerization interface [polypeptide binding]; other site 529120010723 DNA binding site [nucleotide binding] 529120010724 corepressor binding sites; other site 529120010725 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 529120010726 FAD binding site [chemical binding]; other site 529120010727 hypothetical protein; Reviewed; Region: PRK01637 529120010728 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 529120010729 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 529120010730 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 529120010731 putative active site [active] 529120010732 dimerization interface [polypeptide binding]; other site 529120010733 putative tRNAtyr binding site [nucleotide binding]; other site 529120010734 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 529120010735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120010736 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120010737 Coenzyme A binding pocket [chemical binding]; other site 529120010738 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 529120010739 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 529120010740 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120010741 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 529120010742 DNA binding residues [nucleotide binding] 529120010743 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 529120010744 EAL domain; Region: EAL; pfam00563 529120010745 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 529120010746 EAL domain; Region: EAL; pfam00563 529120010747 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 529120010748 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 529120010749 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 529120010750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120010751 Walker A/P-loop; other site 529120010752 ATP binding site [chemical binding]; other site 529120010753 Q-loop/lid; other site 529120010754 ABC transporter signature motif; other site 529120010755 Walker B; other site 529120010756 D-loop; other site 529120010757 H-loop/switch region; other site 529120010758 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 529120010759 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 529120010760 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 529120010761 P loop; other site 529120010762 GTP binding site [chemical binding]; other site 529120010763 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 529120010764 Protein of unknown function (DUF416); Region: DUF416; pfam04222 529120010765 MarC family integral membrane protein; Region: MarC; cl00919 529120010766 aminopeptidase B; Provisional; Region: PRK05015 529120010767 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 529120010768 interface (dimer of trimers) [polypeptide binding]; other site 529120010769 Substrate-binding/catalytic site; other site 529120010770 Zn-binding sites [ion binding]; other site 529120010771 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 529120010772 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 529120010773 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 529120010774 active site 529120010775 HIGH motif; other site 529120010776 nucleotide binding site [chemical binding]; other site 529120010777 active site 529120010778 KMSKS motif; other site 529120010779 poly(A) polymerase; Region: pcnB; TIGR01942 529120010780 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 529120010781 active site 529120010782 NTP binding site [chemical binding]; other site 529120010783 metal binding triad [ion binding]; metal-binding site 529120010784 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 529120010785 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 529120010786 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 529120010787 catalytic center binding site [active] 529120010788 ATP binding site [chemical binding]; other site 529120010789 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 529120010790 oligomerization interface [polypeptide binding]; other site 529120010791 active site 529120010792 metal binding site [ion binding]; metal-binding site 529120010793 pantoate--beta-alanine ligase; Region: panC; TIGR00018 529120010794 Pantoate-beta-alanine ligase; Region: PanC; cd00560 529120010795 active site 529120010796 ATP-binding site [chemical binding]; other site 529120010797 pantoate-binding site; other site 529120010798 HXXH motif; other site 529120010799 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 529120010800 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 529120010801 catalytic residue [active] 529120010802 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 529120010803 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 529120010804 S-adenosylmethionine binding site [chemical binding]; other site 529120010805 inner membrane transport permease; Provisional; Region: PRK15066 529120010806 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 529120010807 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 529120010808 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 529120010809 Walker A/P-loop; other site 529120010810 ATP binding site [chemical binding]; other site 529120010811 Q-loop/lid; other site 529120010812 ABC transporter signature motif; other site 529120010813 Walker B; other site 529120010814 D-loop; other site 529120010815 H-loop/switch region; other site 529120010816 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 529120010817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120010818 active site 529120010819 phosphorylation site [posttranslational modification] 529120010820 intermolecular recognition site; other site 529120010821 dimerization interface [polypeptide binding]; other site 529120010822 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 529120010823 DNA binding site [nucleotide binding] 529120010824 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 529120010825 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 529120010826 putative ligand binding site [chemical binding]; other site 529120010827 HAMP domain; Region: HAMP; pfam00672 529120010828 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 529120010829 dimer interface [polypeptide binding]; other site 529120010830 phosphorylation site [posttranslational modification] 529120010831 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 529120010832 ATP binding site [chemical binding]; other site 529120010833 Mg2+ binding site [ion binding]; other site 529120010834 G-X-G motif; other site 529120010835 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 529120010836 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 529120010837 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120010838 Domain of unknown function DUF21; Region: DUF21; pfam01595 529120010839 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 529120010840 Predicted permeases [General function prediction only]; Region: COG0701 529120010841 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 529120010842 Carbon starvation protein CstA; Region: CstA; pfam02554 529120010843 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 529120010844 Flavodoxin; Region: Flavodoxin_1; pfam00258 529120010845 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 529120010846 FAD binding pocket [chemical binding]; other site 529120010847 conserved FAD binding motif [chemical binding]; other site 529120010848 phosphate binding motif [ion binding]; other site 529120010849 beta-alpha-beta structure motif; other site 529120010850 NAD binding pocket [chemical binding]; other site 529120010851 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 529120010852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 529120010853 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 529120010854 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 529120010855 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 529120010856 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 529120010857 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120010858 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120010859 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 529120010860 TPR motif; other site 529120010861 binding surface 529120010862 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 529120010863 TPR motif; other site 529120010864 binding surface 529120010865 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 529120010866 Tetratricopeptide repeat; Region: TPR_16; pfam13432 529120010867 TPR motif; other site 529120010868 binding surface 529120010869 Tetratricopeptide repeat; Region: TPR_16; pfam13432 529120010870 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 529120010871 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 529120010872 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 529120010873 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 529120010874 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 529120010875 outer membrane receptor FepA; Provisional; Region: PRK13524 529120010876 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 529120010877 N-terminal plug; other site 529120010878 ligand-binding site [chemical binding]; other site 529120010879 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 529120010880 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 529120010881 active site 529120010882 substrate binding site [chemical binding]; other site 529120010883 FMN binding site [chemical binding]; other site 529120010884 putative catalytic residues [active] 529120010885 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 529120010886 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 529120010887 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 529120010888 N-terminal plug; other site 529120010889 ligand-binding site [chemical binding]; other site 529120010890 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 529120010891 TraB family; Region: TraB; pfam01963 529120010892 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 529120010893 G1 box; other site 529120010894 GTP/Mg2+ binding site [chemical binding]; other site 529120010895 G2 box; other site 529120010896 Switch I region; other site 529120010897 elongation factor G; Reviewed; Region: PRK00007 529120010898 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 529120010899 G1 box; other site 529120010900 putative GEF interaction site [polypeptide binding]; other site 529120010901 GTP/Mg2+ binding site [chemical binding]; other site 529120010902 Switch I region; other site 529120010903 G2 box; other site 529120010904 G3 box; other site 529120010905 Switch II region; other site 529120010906 G4 box; other site 529120010907 G5 box; other site 529120010908 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 529120010909 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 529120010910 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 529120010911 30S ribosomal protein S7; Validated; Region: PRK05302 529120010912 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 529120010913 S17 interaction site [polypeptide binding]; other site 529120010914 S8 interaction site; other site 529120010915 16S rRNA interaction site [nucleotide binding]; other site 529120010916 streptomycin interaction site [chemical binding]; other site 529120010917 23S rRNA interaction site [nucleotide binding]; other site 529120010918 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 529120010919 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 529120010920 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 529120010921 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 529120010922 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 529120010923 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 529120010924 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 529120010925 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 529120010926 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 529120010927 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 529120010928 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 529120010929 DNA binding site [nucleotide binding] 529120010930 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 529120010931 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 529120010932 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 529120010933 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 529120010934 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 529120010935 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 529120010936 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 529120010937 RPB3 interaction site [polypeptide binding]; other site 529120010938 RPB1 interaction site [polypeptide binding]; other site 529120010939 RPB11 interaction site [polypeptide binding]; other site 529120010940 RPB10 interaction site [polypeptide binding]; other site 529120010941 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 529120010942 23S rRNA interface [nucleotide binding]; other site 529120010943 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 529120010944 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 529120010945 mRNA/rRNA interface [nucleotide binding]; other site 529120010946 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 529120010947 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 529120010948 23S rRNA interface [nucleotide binding]; other site 529120010949 L7/L12 interface [polypeptide binding]; other site 529120010950 putative thiostrepton binding site; other site 529120010951 L25 interface [polypeptide binding]; other site 529120010952 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 529120010953 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 529120010954 putative homodimer interface [polypeptide binding]; other site 529120010955 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 529120010956 heterodimer interface [polypeptide binding]; other site 529120010957 homodimer interface [polypeptide binding]; other site 529120010958 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 529120010959 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 529120010960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120010961 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 529120010962 Walker A/P-loop; other site 529120010963 ATP binding site [chemical binding]; other site 529120010964 Q-loop/lid; other site 529120010965 ABC transporter signature motif; other site 529120010966 Walker B; other site 529120010967 D-loop; other site 529120010968 H-loop/switch region; other site 529120010969 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 529120010970 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 529120010971 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 529120010972 active site 529120010973 Zn binding site [ion binding]; other site 529120010974 YhhN-like protein; Region: YhhN; pfam07947 529120010975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 529120010976 ACT domain; Region: ACT_3; pfam10000 529120010977 Family description; Region: ACT_7; pfam13840 529120010978 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 529120010979 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 529120010980 ATP binding site [chemical binding]; other site 529120010981 Mg++ binding site [ion binding]; other site 529120010982 motif III; other site 529120010983 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 529120010984 nucleotide binding region [chemical binding]; other site 529120010985 ATP-binding site [chemical binding]; other site 529120010986 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 529120010987 putative RNA binding site [nucleotide binding]; other site 529120010988 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 529120010989 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 529120010990 active site 529120010991 substrate binding pocket [chemical binding]; other site 529120010992 dimer interface [polypeptide binding]; other site 529120010993 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 529120010994 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 529120010995 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 529120010996 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120010997 active site 529120010998 catalytic tetrad [active] 529120010999 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 529120011000 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120011001 putative metal binding site [ion binding]; other site 529120011002 Conserved TM helix; Region: TM_helix; pfam05552 529120011003 Mechanosensitive ion channel; Region: MS_channel; pfam00924 529120011004 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 529120011005 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 529120011006 putative substrate translocation pore; other site 529120011007 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 529120011008 trehalose synthase; Region: treS_nterm; TIGR02456 529120011009 active site 529120011010 catalytic site [active] 529120011011 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 529120011012 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 529120011013 active site 529120011014 dihydromonapterin reductase; Provisional; Region: PRK06483 529120011015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 529120011016 NAD(P) binding site [chemical binding]; other site 529120011017 active site 529120011018 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 529120011019 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 529120011020 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 529120011021 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 529120011022 putative active site; other site 529120011023 catalytic triad [active] 529120011024 putative dimer interface [polypeptide binding]; other site 529120011025 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 529120011026 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 529120011027 putative active site [active] 529120011028 putative metal binding site [ion binding]; other site 529120011029 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 529120011030 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 529120011031 putative Mg++ binding site [ion binding]; other site 529120011032 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 529120011033 nucleotide binding region [chemical binding]; other site 529120011034 ATP-binding site [chemical binding]; other site 529120011035 DEAD/H associated; Region: DEAD_assoc; pfam08494 529120011036 Predicted membrane protein [Function unknown]; Region: COG2311 529120011037 Protein of unknown function (DUF418); Region: DUF418; cl12135 529120011038 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 529120011039 substrate binding pocket [chemical binding]; other site 529120011040 membrane-bound complex binding site; other site 529120011041 hinge residues; other site 529120011042 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 529120011043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 529120011044 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 529120011045 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 529120011046 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 529120011047 active site 529120011048 DNA binding site [nucleotide binding] 529120011049 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 529120011050 DNA binding site [nucleotide binding] 529120011051 elongation factor P; Provisional; Region: PRK04542 529120011052 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 529120011053 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 529120011054 RNA binding site [nucleotide binding]; other site 529120011055 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 529120011056 RNA binding site [nucleotide binding]; other site 529120011057 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 529120011058 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 529120011059 putative substrate binding site [chemical binding]; other site 529120011060 putative ATP binding site [chemical binding]; other site 529120011061 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 529120011062 non-specific DNA interactions [nucleotide binding]; other site 529120011063 DNA binding site [nucleotide binding] 529120011064 sequence specific DNA binding site [nucleotide binding]; other site 529120011065 putative cAMP binding site [chemical binding]; other site 529120011066 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 529120011067 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 529120011068 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 529120011069 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 529120011070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120011071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120011072 LysR substrate binding domain; Region: LysR_substrate; pfam03466 529120011073 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 529120011074 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 529120011075 C-terminal domain interface [polypeptide binding]; other site 529120011076 GSH binding site (G-site) [chemical binding]; other site 529120011077 dimer interface [polypeptide binding]; other site 529120011078 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 529120011079 N-terminal domain interface [polypeptide binding]; other site 529120011080 dimer interface [polypeptide binding]; other site 529120011081 substrate binding pocket (H-site) [chemical binding]; other site 529120011082 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120011083 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 529120011084 putative C-terminal domain interface [polypeptide binding]; other site 529120011085 putative GSH binding site (G-site) [chemical binding]; other site 529120011086 putative dimer interface [polypeptide binding]; other site 529120011087 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 529120011088 N-terminal domain interface [polypeptide binding]; other site 529120011089 dimer interface [polypeptide binding]; other site 529120011090 substrate binding pocket (H-site) [chemical binding]; other site 529120011091 lipase chaperone; Provisional; Region: PRK01294 529120011092 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 529120011093 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 529120011094 Putative serine esterase (DUF676); Region: DUF676; pfam05057 529120011095 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 529120011096 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 529120011097 S-adenosylmethionine binding site [chemical binding]; other site 529120011098 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 529120011099 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 529120011100 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 529120011101 NAD(P) binding site [chemical binding]; other site 529120011102 catalytic residues [active] 529120011103 acetolactate synthase; Reviewed; Region: PRK08322 529120011104 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 529120011105 PYR/PP interface [polypeptide binding]; other site 529120011106 dimer interface [polypeptide binding]; other site 529120011107 TPP binding site [chemical binding]; other site 529120011108 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 529120011109 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 529120011110 TPP-binding site [chemical binding]; other site 529120011111 dimer interface [polypeptide binding]; other site 529120011112 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 529120011113 active site 529120011114 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 529120011115 ferrochelatase; Reviewed; Region: hemH; PRK00035 529120011116 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 529120011117 C-terminal domain interface [polypeptide binding]; other site 529120011118 active site 529120011119 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 529120011120 active site 529120011121 N-terminal domain interface [polypeptide binding]; other site 529120011122 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 529120011123 AbgT putative transporter family; Region: ABG_transport; pfam03806 529120011124 FtsH protease regulator HflC; Provisional; Region: PRK11029 529120011125 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 529120011126 FtsH protease regulator HflK; Provisional; Region: PRK10930 529120011127 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 529120011128 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 529120011129 GTPase HflX; Provisional; Region: PRK11058 529120011130 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 529120011131 HflX GTPase family; Region: HflX; cd01878 529120011132 G1 box; other site 529120011133 GTP/Mg2+ binding site [chemical binding]; other site 529120011134 Switch I region; other site 529120011135 G2 box; other site 529120011136 G3 box; other site 529120011137 Switch II region; other site 529120011138 G4 box; other site 529120011139 G5 box; other site 529120011140 bacterial Hfq-like; Region: Hfq; cd01716 529120011141 hexamer interface [polypeptide binding]; other site 529120011142 Sm1 motif; other site 529120011143 RNA binding site [nucleotide binding]; other site 529120011144 Sm2 motif; other site 529120011145 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 529120011146 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 529120011147 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 529120011148 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 529120011149 ATP binding site [chemical binding]; other site 529120011150 Mg2+ binding site [ion binding]; other site 529120011151 G-X-G motif; other site 529120011152 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 529120011153 ATP binding site [chemical binding]; other site 529120011154 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 529120011155 AMIN domain; Region: AMIN; pfam11741 529120011156 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 529120011157 active site 529120011158 metal binding site [ion binding]; metal-binding site 529120011159 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 529120011160 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 529120011161 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 529120011162 putative carbohydrate kinase; Provisional; Region: PRK10565 529120011163 Uncharacterized conserved protein [Function unknown]; Region: COG0062 529120011164 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 529120011165 putative substrate binding site [chemical binding]; other site 529120011166 putative ATP binding site [chemical binding]; other site 529120011167 epoxyqueuosine reductase; Region: TIGR00276 529120011168 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 529120011169 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 529120011170 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 529120011171 substrate binding site [chemical binding]; other site 529120011172 active site 529120011173 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 529120011174 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 529120011175 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 529120011176 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 529120011177 putative NADH binding site [chemical binding]; other site 529120011178 putative active site [active] 529120011179 nudix motif; other site 529120011180 putative metal binding site [ion binding]; other site 529120011181 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 529120011182 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 529120011183 metal binding site 2 [ion binding]; metal-binding site 529120011184 putative DNA binding helix; other site 529120011185 metal binding site 1 [ion binding]; metal-binding site 529120011186 dimer interface [polypeptide binding]; other site 529120011187 structural Zn2+ binding site [ion binding]; other site 529120011188 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 529120011189 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 529120011190 Uncharacterized conserved protein [Function unknown]; Region: COG0432 529120011191 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120011192 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 529120011193 ligand binding site [chemical binding]; other site 529120011194 replicative DNA helicase; Region: DnaB; TIGR00665 529120011195 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 529120011196 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 529120011197 Walker A motif; other site 529120011198 ATP binding site [chemical binding]; other site 529120011199 Walker B motif; other site 529120011200 DNA binding loops [nucleotide binding] 529120011201 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 529120011202 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 529120011203 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120011204 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 529120011205 DNA binding residues [nucleotide binding] 529120011206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 529120011207 MOSC domain; Region: MOSC; pfam03473 529120011208 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 529120011209 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 529120011210 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120011211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120011212 active site 529120011213 phosphorylation site [posttranslational modification] 529120011214 intermolecular recognition site; other site 529120011215 dimerization interface [polypeptide binding]; other site 529120011216 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 529120011217 DNA binding site [nucleotide binding] 529120011218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120011219 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 529120011220 dimerization interface [polypeptide binding]; other site 529120011221 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 529120011222 dimer interface [polypeptide binding]; other site 529120011223 phosphorylation site [posttranslational modification] 529120011224 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 529120011225 ATP binding site [chemical binding]; other site 529120011226 Mg2+ binding site [ion binding]; other site 529120011227 G-X-G motif; other site 529120011228 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 529120011229 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 529120011230 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 529120011231 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 529120011232 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 529120011233 N-terminal plug; other site 529120011234 ligand-binding site [chemical binding]; other site 529120011235 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 529120011236 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 529120011237 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120011238 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 529120011239 Protein export membrane protein; Region: SecD_SecF; cl14618 529120011240 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 529120011241 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 529120011242 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 529120011243 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 529120011244 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 529120011245 YebG protein; Region: YebG; pfam07130 529120011246 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 529120011247 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 529120011248 Walker A/P-loop; other site 529120011249 ATP binding site [chemical binding]; other site 529120011250 Q-loop/lid; other site 529120011251 ABC transporter signature motif; other site 529120011252 Walker B; other site 529120011253 D-loop; other site 529120011254 H-loop/switch region; other site 529120011255 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 529120011256 FtsX-like permease family; Region: FtsX; pfam02687 529120011257 PAS domain; Region: PAS_9; pfam13426 529120011258 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 529120011259 putative active site [active] 529120011260 heme pocket [chemical binding]; other site 529120011261 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120011262 dimer interface [polypeptide binding]; other site 529120011263 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 529120011264 putative CheW interface [polypeptide binding]; other site 529120011265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120011266 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 529120011267 ATP binding site [chemical binding]; other site 529120011268 Mg2+ binding site [ion binding]; other site 529120011269 G-X-G motif; other site 529120011270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 529120011271 dimer interface [polypeptide binding]; other site 529120011272 putative CheW interface [polypeptide binding]; other site 529120011273 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 529120011274 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 529120011275 sulfite oxidase; Provisional; Region: PLN00177 529120011276 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 529120011277 Moco binding site; other site 529120011278 metal coordination site [ion binding]; other site 529120011279 dimerization interface [polypeptide binding]; other site 529120011280 Predicted membrane protein [Function unknown]; Region: COG2855 529120011281 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 529120011282 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 529120011283 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120011284 active site 529120011285 catalytic tetrad [active] 529120011286 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 529120011287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120011288 DNA-binding site [nucleotide binding]; DNA binding site 529120011289 UTRA domain; Region: UTRA; pfam07702 529120011290 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 529120011291 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 529120011292 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 529120011293 active site 529120011294 catalytic site [active] 529120011295 putative transporter; Provisional; Region: PRK10484 529120011296 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 529120011297 Na binding site [ion binding]; other site 529120011298 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 529120011299 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 529120011300 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 529120011301 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 529120011302 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 529120011303 active site 529120011304 catalytic residues [active] 529120011305 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120011306 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 529120011307 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 529120011308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120011309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120011310 metal binding site [ion binding]; metal-binding site 529120011311 active site 529120011312 I-site; other site 529120011313 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 529120011314 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 529120011315 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 529120011316 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 529120011317 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 529120011318 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 529120011319 putative substrate translocation pore; other site 529120011320 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 529120011321 beta-galactosidase; Region: BGL; TIGR03356 529120011322 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120011323 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120011324 DNA binding site [nucleotide binding] 529120011325 domain linker motif; other site 529120011326 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 529120011327 dimerization interface (closed form) [polypeptide binding]; other site 529120011328 ligand binding site [chemical binding]; other site 529120011329 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 529120011330 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 529120011331 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 529120011332 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 529120011333 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 529120011334 Walker A/P-loop; other site 529120011335 ATP binding site [chemical binding]; other site 529120011336 Q-loop/lid; other site 529120011337 ABC transporter signature motif; other site 529120011338 Walker B; other site 529120011339 D-loop; other site 529120011340 H-loop/switch region; other site 529120011341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 529120011342 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 529120011343 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120011344 Walker A/P-loop; other site 529120011345 ATP binding site [chemical binding]; other site 529120011346 Q-loop/lid; other site 529120011347 ABC transporter signature motif; other site 529120011348 Walker B; other site 529120011349 D-loop; other site 529120011350 H-loop/switch region; other site 529120011351 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 529120011352 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 529120011353 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 529120011354 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 529120011355 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 529120011356 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 529120011357 PAS fold; Region: PAS_4; pfam08448 529120011358 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 529120011359 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 529120011360 Walker A motif; other site 529120011361 ATP binding site [chemical binding]; other site 529120011362 Walker B motif; other site 529120011363 arginine finger; other site 529120011364 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 529120011365 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 529120011366 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 529120011367 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 529120011368 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 529120011369 SnoaL-like domain; Region: SnoaL_3; pfam13474 529120011370 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 529120011371 Isochorismatase family; Region: Isochorismatase; pfam00857 529120011372 catalytic triad [active] 529120011373 dimer interface [polypeptide binding]; other site 529120011374 conserved cis-peptide bond; other site 529120011375 Cytochrome c553 [Energy production and conversion]; Region: COG2863 529120011376 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 529120011377 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 529120011378 active site 529120011379 Pirin-related protein [General function prediction only]; Region: COG1741 529120011380 Pirin; Region: Pirin; pfam02678 529120011381 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 529120011382 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 529120011383 MerC mercury resistance protein; Region: MerC; pfam03203 529120011384 putative GTP cyclohydrolase; Provisional; Region: PRK13674 529120011385 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 529120011386 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 529120011387 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 529120011388 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 529120011389 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 529120011390 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 529120011391 Major Facilitator Superfamily; Region: MFS_1; pfam07690 529120011392 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 529120011393 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 529120011394 FAD binding pocket [chemical binding]; other site 529120011395 FAD binding motif [chemical binding]; other site 529120011396 phosphate binding motif [ion binding]; other site 529120011397 NAD binding pocket [chemical binding]; other site 529120011398 CsbD-like; Region: CsbD; cl17424 529120011399 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 529120011400 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 529120011401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120011402 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 529120011403 DNA binding residues [nucleotide binding] 529120011404 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 529120011405 active site 529120011406 catalytic triad [active] 529120011407 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 529120011408 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 529120011409 hypothetical protein; Provisional; Region: PRK09256 529120011410 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 529120011411 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 529120011412 S-formylglutathione hydrolase; Region: PLN02442 529120011413 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 529120011414 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 529120011415 hypothetical protein; Provisional; Region: PRK03757 529120011416 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 529120011417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120011418 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 529120011419 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 529120011420 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 529120011421 N-terminal plug; other site 529120011422 ligand-binding site [chemical binding]; other site 529120011423 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 529120011424 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 529120011425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 529120011426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120011427 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 529120011428 dimerization interface [polypeptide binding]; other site 529120011429 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 529120011430 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 529120011431 Prostaglandin dehydrogenases; Region: PGDH; cd05288 529120011432 NAD(P) binding site [chemical binding]; other site 529120011433 substrate binding site [chemical binding]; other site 529120011434 dimer interface [polypeptide binding]; other site 529120011435 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120011436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120011437 metal binding site [ion binding]; metal-binding site 529120011438 active site 529120011439 I-site; other site 529120011440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120011441 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 529120011442 dimerization interface [polypeptide binding]; other site 529120011443 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 529120011444 dimer interface [polypeptide binding]; other site 529120011445 phosphorylation site [posttranslational modification] 529120011446 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 529120011447 ATP binding site [chemical binding]; other site 529120011448 Mg2+ binding site [ion binding]; other site 529120011449 G-X-G motif; other site 529120011450 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 529120011451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120011452 active site 529120011453 phosphorylation site [posttranslational modification] 529120011454 intermolecular recognition site; other site 529120011455 dimerization interface [polypeptide binding]; other site 529120011456 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 529120011457 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 529120011458 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 529120011459 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 529120011460 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 529120011461 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 529120011462 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 529120011463 DNA binding residues [nucleotide binding] 529120011464 dimer interface [polypeptide binding]; other site 529120011465 mercury binding site [ion binding]; other site 529120011466 MerT mercuric transport protein; Region: MerT; cl03578 529120011467 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 529120011468 metal-binding site [ion binding] 529120011469 Winged helix-turn helix; Region: HTH_29; pfam13551 529120011470 Integrase core domain; Region: rve; pfam00665 529120011471 Homeodomain-like domain; Region: HTH_23; pfam13384 529120011472 Winged helix-turn helix; Region: HTH_29; pfam13551 529120011473 Homeodomain-like domain; Region: HTH_32; pfam13565 529120011474 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 529120011475 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 529120011476 DNA binding residues [nucleotide binding] 529120011477 dimer interface [polypeptide binding]; other site 529120011478 putative metal binding site [ion binding]; other site 529120011479 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 529120011480 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 529120011481 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 529120011482 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 529120011483 Outer membrane efflux protein; Region: OEP; pfam02321 529120011484 Outer membrane efflux protein; Region: OEP; pfam02321 529120011485 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 529120011486 HlyD family secretion protein; Region: HlyD_3; pfam13437 529120011487 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 529120011488 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 529120011489 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 529120011490 non-specific DNA binding site [nucleotide binding]; other site 529120011491 salt bridge; other site 529120011492 sequence-specific DNA binding site [nucleotide binding]; other site 529120011493 Uncharacterized conserved protein [Function unknown]; Region: COG3586 529120011494 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 529120011495 HsdM N-terminal domain; Region: HsdM_N; pfam12161 529120011496 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 529120011497 S-adenosylmethionine binding site [chemical binding]; other site 529120011498 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 529120011499 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 529120011500 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 529120011501 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 529120011502 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 529120011503 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 529120011504 ATP binding site [chemical binding]; other site 529120011505 putative Mg++ binding site [ion binding]; other site 529120011506 AAA domain; Region: AAA_22; pfam13401 529120011507 AAA ATPase domain; Region: AAA_16; pfam13191 529120011508 Walker A motif; other site 529120011509 ATP binding site [chemical binding]; other site 529120011510 Walker B motif; other site 529120011511 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 529120011512 Integrase core domain; Region: rve; pfam00665 529120011513 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 529120011514 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 529120011515 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 529120011516 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 529120011517 glutaminase active site [active] 529120011518 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 529120011519 dimer interface [polypeptide binding]; other site 529120011520 active site 529120011521 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 529120011522 dimer interface [polypeptide binding]; other site 529120011523 active site 529120011524 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 529120011525 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 529120011526 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 529120011527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 529120011528 putative oxidoreductase; Provisional; Region: PRK11579 529120011529 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 529120011530 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 529120011531 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 529120011532 Substrate binding site; other site 529120011533 Mg++ binding site; other site 529120011534 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 529120011535 active site 529120011536 substrate binding site [chemical binding]; other site 529120011537 CoA binding site [chemical binding]; other site 529120011538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120011539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120011540 metal binding site [ion binding]; metal-binding site 529120011541 active site 529120011542 I-site; other site 529120011543 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 529120011544 EamA-like transporter family; Region: EamA; pfam00892 529120011545 EamA-like transporter family; Region: EamA; pfam00892 529120011546 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 529120011547 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 529120011548 DNA binding site [nucleotide binding] 529120011549 active site 529120011550 potential frameshift: common BLAST hit: gi|332143280|ref|YP_004429018.1| ada regulatory protein 529120011551 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 529120011552 Beta-lactamase; Region: Beta-lactamase; pfam00144 529120011553 arginine decarboxylase; Provisional; Region: PRK05354 529120011554 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 529120011555 dimer interface [polypeptide binding]; other site 529120011556 active site 529120011557 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 529120011558 catalytic residues [active] 529120011559 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 529120011560 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 529120011561 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 529120011562 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 529120011563 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 529120011564 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 529120011565 ligand binding site [chemical binding]; other site 529120011566 homodimer interface [polypeptide binding]; other site 529120011567 NAD(P) binding site [chemical binding]; other site 529120011568 trimer interface B [polypeptide binding]; other site 529120011569 trimer interface A [polypeptide binding]; other site 529120011570 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120011571 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 529120011572 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 529120011573 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120011574 SapC; Region: SapC; pfam07277 529120011575 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 529120011576 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 529120011577 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 529120011578 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 529120011579 N-terminal plug; other site 529120011580 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 529120011581 ligand-binding site [chemical binding]; other site 529120011582 Secretin and TonB N terminus short domain; Region: STN; smart00965 529120011583 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120011584 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 529120011585 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 529120011586 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 529120011587 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120011588 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 529120011589 DNA binding residues [nucleotide binding] 529120011590 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 529120011591 FecR protein; Region: FecR; pfam04773 529120011592 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 529120011593 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 529120011594 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 529120011595 UbiA prenyltransferase family; Region: UbiA; pfam01040 529120011596 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 529120011597 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 529120011598 Subunit I/III interface [polypeptide binding]; other site 529120011599 Subunit III/IV interface [polypeptide binding]; other site 529120011600 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 529120011601 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 529120011602 D-pathway; other site 529120011603 Putative ubiquinol binding site [chemical binding]; other site 529120011604 Low-spin heme (heme b) binding site [chemical binding]; other site 529120011605 Putative water exit pathway; other site 529120011606 Binuclear center (heme o3/CuB) [ion binding]; other site 529120011607 K-pathway; other site 529120011608 Putative proton exit pathway; other site 529120011609 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 529120011610 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 529120011611 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 529120011612 Transcriptional regulator [Transcription]; Region: IclR; COG1414 529120011613 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 529120011614 Pectate lyase; Region: Pec_lyase_C; cl01593 529120011615 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120011616 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 529120011617 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 529120011618 putative pectinesterase; Region: PLN02432; cl01911 529120011619 Amb_all domain; Region: Amb_all; smart00656 529120011620 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 529120011621 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 529120011622 ring oligomerisation interface [polypeptide binding]; other site 529120011623 ATP/Mg binding site [chemical binding]; other site 529120011624 stacking interactions; other site 529120011625 hinge regions; other site 529120011626 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 529120011627 oligomerisation interface [polypeptide binding]; other site 529120011628 mobile loop; other site 529120011629 roof hairpin; other site 529120011630 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 529120011631 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 529120011632 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 529120011633 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 529120011634 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 529120011635 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 529120011636 DsbD alpha interface [polypeptide binding]; other site 529120011637 catalytic residues [active] 529120011638 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 529120011639 Peptidase family M23; Region: Peptidase_M23; pfam01551 529120011640 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 529120011641 Dehydroquinase class II; Region: DHquinase_II; pfam01220 529120011642 active site 529120011643 trimer interface [polypeptide binding]; other site 529120011644 dimer interface [polypeptide binding]; other site 529120011645 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 529120011646 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 529120011647 carboxyltransferase (CT) interaction site; other site 529120011648 biotinylation site [posttranslational modification]; other site 529120011649 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 529120011650 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 529120011651 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 529120011652 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 529120011653 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 529120011654 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 529120011655 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 529120011656 active site 529120011657 catalytic site [active] 529120011658 substrate binding site [chemical binding]; other site 529120011659 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 529120011660 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 529120011661 High potential iron-sulfur protein; Region: HIPIP; pfam01355 529120011662 amidase; Provisional; Region: PRK08137 529120011663 Amidase; Region: Amidase; pfam01425 529120011664 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 529120011665 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 529120011666 substrate binding pocket [chemical binding]; other site 529120011667 membrane-bound complex binding site; other site 529120011668 hinge residues; other site 529120011669 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 529120011670 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 529120011671 S-adenosylmethionine binding site [chemical binding]; other site 529120011672 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 529120011673 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 529120011674 FMN binding site [chemical binding]; other site 529120011675 active site 529120011676 catalytic residues [active] 529120011677 substrate binding site [chemical binding]; other site 529120011678 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 529120011679 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 529120011680 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 529120011681 purine monophosphate binding site [chemical binding]; other site 529120011682 dimer interface [polypeptide binding]; other site 529120011683 putative catalytic residues [active] 529120011684 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 529120011685 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 529120011686 Predicted methyltransferase [General function prediction only]; Region: COG4798 529120011687 Methyltransferase domain; Region: Methyltransf_23; pfam13489 529120011688 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 529120011689 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 529120011690 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 529120011691 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 529120011692 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 529120011693 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 529120011694 putative ligand binding site [chemical binding]; other site 529120011695 Ion transport protein; Region: Ion_trans; pfam00520 529120011696 Ion channel; Region: Ion_trans_2; pfam07885 529120011697 phosphoribulokinase; Provisional; Region: PRK15453 529120011698 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 529120011699 osmolarity response regulator; Provisional; Region: ompR; PRK09468 529120011700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120011701 active site 529120011702 phosphorylation site [posttranslational modification] 529120011703 intermolecular recognition site; other site 529120011704 dimerization interface [polypeptide binding]; other site 529120011705 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 529120011706 DNA binding site [nucleotide binding] 529120011707 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 529120011708 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 529120011709 dimerization interface [polypeptide binding]; other site 529120011710 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 529120011711 dimer interface [polypeptide binding]; other site 529120011712 phosphorylation site [posttranslational modification] 529120011713 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 529120011714 ATP binding site [chemical binding]; other site 529120011715 Mg2+ binding site [ion binding]; other site 529120011716 G-X-G motif; other site 529120011717 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 529120011718 putative substrate translocation pore; other site 529120011719 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 529120011720 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 529120011721 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 529120011722 putative active site [active] 529120011723 putative catalytic site [active] 529120011724 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 529120011725 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 529120011726 active site 529120011727 substrate-binding site [chemical binding]; other site 529120011728 metal-binding site [ion binding] 529120011729 ATP binding site [chemical binding]; other site 529120011730 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 529120011731 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 529120011732 dimerization interface [polypeptide binding]; other site 529120011733 domain crossover interface; other site 529120011734 redox-dependent activation switch; other site 529120011735 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 529120011736 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 529120011737 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 529120011738 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 529120011739 type II secretion system protein D; Region: type_II_gspD; TIGR02517 529120011740 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 529120011741 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 529120011742 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 529120011743 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 529120011744 type II secretion system protein E; Region: type_II_gspE; TIGR02533 529120011745 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 529120011746 Walker A motif; other site 529120011747 ATP binding site [chemical binding]; other site 529120011748 Walker B motif; other site 529120011749 type II secretion system protein F; Region: GspF; TIGR02120 529120011750 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120011751 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 529120011752 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 529120011753 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 529120011754 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 529120011755 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 529120011756 type II secretion system protein I; Region: gspI; TIGR01707 529120011757 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 529120011758 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 529120011759 type II secretion system protein J; Region: gspJ; TIGR01711 529120011760 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 529120011761 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 529120011762 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 529120011763 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 529120011764 GspL periplasmic domain; Region: GspL_C; pfam12693 529120011765 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 529120011766 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 529120011767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 529120011768 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 529120011769 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 529120011770 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 529120011771 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 529120011772 NAD(P) binding site [chemical binding]; other site 529120011773 catalytic residues [active] 529120011774 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 529120011775 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 529120011776 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 529120011777 motif II; other site 529120011778 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 529120011779 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 529120011780 dimer interface [polypeptide binding]; other site 529120011781 ADP-ribose binding site [chemical binding]; other site 529120011782 active site 529120011783 nudix motif; other site 529120011784 metal binding site [ion binding]; metal-binding site 529120011785 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 529120011786 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 529120011787 active site 529120011788 YceI-like domain; Region: YceI; pfam04264 529120011789 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 529120011790 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 529120011791 Ligand binding site; other site 529120011792 DXD motif; other site 529120011793 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 529120011794 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 529120011795 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 529120011796 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 529120011797 putative hydrolase; Provisional; Region: PRK10985 529120011798 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 529120011799 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 529120011800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120011801 Walker A/P-loop; other site 529120011802 ATP binding site [chemical binding]; other site 529120011803 Q-loop/lid; other site 529120011804 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120011805 ABC transporter; Region: ABC_tran_2; pfam12848 529120011806 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120011807 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 529120011808 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 529120011809 SlyX; Region: SlyX; pfam04102 529120011810 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 529120011811 structural tetrad; other site 529120011812 FOG: WD40 repeat [General function prediction only]; Region: COG2319 529120011813 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 529120011814 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 529120011815 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 529120011816 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 529120011817 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 529120011818 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 529120011819 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 529120011820 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 529120011821 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 529120011822 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 529120011823 RNA binding site [nucleotide binding]; other site 529120011824 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120011825 Cupin-like domain; Region: Cupin_8; pfam13621 529120011826 SapC; Region: SapC; pfam07277 529120011827 SapC; Region: SapC; pfam07277 529120011828 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 529120011829 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 529120011830 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 529120011831 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120011832 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 529120011833 putative dimerization interface [polypeptide binding]; other site 529120011834 putative ligand binding site [chemical binding]; other site 529120011835 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 529120011836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 529120011837 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 529120011838 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 529120011839 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 529120011840 substrate binding site [chemical binding]; other site 529120011841 active site 529120011842 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 529120011843 Domain of unknown function (DUF303); Region: DUF303; pfam03629 529120011844 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 529120011845 Domain of unknown function (DUF303); Region: DUF303; pfam03629 529120011846 Glycosyl hydrolase family 10; Region: Glyco_10; smart00633 529120011847 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 529120011848 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 529120011849 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 529120011850 active site 529120011851 catalytic tetrad [active] 529120011852 transketolase; Reviewed; Region: PRK12753 529120011853 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 529120011854 TPP-binding site [chemical binding]; other site 529120011855 dimer interface [polypeptide binding]; other site 529120011856 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 529120011857 PYR/PP interface [polypeptide binding]; other site 529120011858 dimer interface [polypeptide binding]; other site 529120011859 TPP binding site [chemical binding]; other site 529120011860 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 529120011861 xylose isomerase; Provisional; Region: PRK05474 529120011862 xylose isomerase; Region: xylose_isom_A; TIGR02630 529120011863 xylulokinase; Provisional; Region: PRK15027 529120011864 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 529120011865 N- and C-terminal domain interface [polypeptide binding]; other site 529120011866 active site 529120011867 MgATP binding site [chemical binding]; other site 529120011868 catalytic site [active] 529120011869 metal binding site [ion binding]; metal-binding site 529120011870 xylulose binding site [chemical binding]; other site 529120011871 homodimer interface [polypeptide binding]; other site 529120011872 transaldolase-like protein; Provisional; Region: PTZ00411 529120011873 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 529120011874 active site 529120011875 dimer interface [polypeptide binding]; other site 529120011876 catalytic residue [active] 529120011877 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 529120011878 active site 529120011879 catalytic residues [active] 529120011880 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 529120011881 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 529120011882 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 529120011883 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 529120011884 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 529120011885 putative substrate translocation pore; other site 529120011886 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 529120011887 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 529120011888 Right handed beta helix region; Region: Beta_helix; pfam13229 529120011889 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 529120011890 potential frameshift: common BLAST hit: gi|254784954|ref|YP_003072382.1| glycoside hydrolase family 51 domain-containing protein 529120011891 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 529120011892 active site 529120011893 SprA-related family; Region: SprA-related; pfam12118 529120011894 PGAP1-like protein; Region: PGAP1; pfam07819 529120011895 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 529120011896 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 529120011897 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120011898 active site 529120011899 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 529120011900 putative active site [active] 529120011901 Zn binding site [ion binding]; other site 529120011902 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 529120011903 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 529120011904 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 529120011905 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 529120011906 aspartate racemase; Region: asp_race; TIGR00035 529120011907 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 529120011908 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 529120011909 Methyltransferase domain; Region: Methyltransf_23; pfam13489 529120011910 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 529120011911 S-adenosylmethionine binding site [chemical binding]; other site 529120011912 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 529120011913 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 529120011914 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 529120011915 putative active site [active] 529120011916 putative metal binding site [ion binding]; other site 529120011917 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 529120011918 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 529120011919 Coenzyme A binding pocket [chemical binding]; other site 529120011920 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 529120011921 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 529120011922 Cu(I) binding site [ion binding]; other site 529120011923 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 529120011924 UbiA prenyltransferase family; Region: UbiA; pfam01040 529120011925 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 529120011926 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 529120011927 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 529120011928 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 529120011929 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 529120011930 Subunit III/VIIa interface [polypeptide binding]; other site 529120011931 Phospholipid binding site [chemical binding]; other site 529120011932 Subunit I/III interface [polypeptide binding]; other site 529120011933 Subunit III/VIb interface [polypeptide binding]; other site 529120011934 Subunit III/VIa interface; other site 529120011935 Subunit III/Vb interface [polypeptide binding]; other site 529120011936 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 529120011937 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 529120011938 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 529120011939 Subunit I/III interface [polypeptide binding]; other site 529120011940 D-pathway; other site 529120011941 Subunit I/VIIc interface [polypeptide binding]; other site 529120011942 Subunit I/IV interface [polypeptide binding]; other site 529120011943 Subunit I/II interface [polypeptide binding]; other site 529120011944 Low-spin heme (heme a) binding site [chemical binding]; other site 529120011945 Subunit I/VIIa interface [polypeptide binding]; other site 529120011946 Subunit I/VIa interface [polypeptide binding]; other site 529120011947 Dimer interface; other site 529120011948 Putative water exit pathway; other site 529120011949 Binuclear center (heme a3/CuB) [ion binding]; other site 529120011950 K-pathway; other site 529120011951 Subunit I/Vb interface [polypeptide binding]; other site 529120011952 Putative proton exit pathway; other site 529120011953 Subunit I/VIb interface; other site 529120011954 Subunit I/VIc interface [polypeptide binding]; other site 529120011955 Electron transfer pathway; other site 529120011956 Subunit I/VIIIb interface [polypeptide binding]; other site 529120011957 Subunit I/VIIb interface [polypeptide binding]; other site 529120011958 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 529120011959 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 529120011960 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 529120011961 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 529120011962 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 529120011963 LexA repressor; Validated; Region: PRK00215 529120011964 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 529120011965 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 529120011966 Catalytic site [active] 529120011967 GAF domain; Region: GAF; pfam01590 529120011968 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 529120011969 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 529120011970 PAS domain; Region: PAS_9; pfam13426 529120011971 putative active site [active] 529120011972 heme pocket [chemical binding]; other site 529120011973 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 529120011974 PAS fold; Region: PAS_3; pfam08447 529120011975 putative active site [active] 529120011976 heme pocket [chemical binding]; other site 529120011977 GAF domain; Region: GAF; pfam01590 529120011978 GAF domain; Region: GAF_2; pfam13185 529120011979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 529120011980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 529120011981 metal binding site [ion binding]; metal-binding site 529120011982 active site 529120011983 I-site; other site 529120011984 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 529120011985 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 529120011986 putative acyl-acceptor binding pocket; other site 529120011987 threonine dehydratase; Reviewed; Region: PRK09224 529120011988 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 529120011989 tetramer interface [polypeptide binding]; other site 529120011990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 529120011991 catalytic residue [active] 529120011992 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 529120011993 putative Ile/Val binding site [chemical binding]; other site 529120011994 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 529120011995 putative Ile/Val binding site [chemical binding]; other site 529120011996 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 529120011997 UPF0126 domain; Region: UPF0126; pfam03458 529120011998 Predicted membrane protein [Function unknown]; Region: COG2860 529120011999 UPF0126 domain; Region: UPF0126; pfam03458 529120012000 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 529120012001 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 529120012002 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 529120012003 Walker A motif; other site 529120012004 ATP binding site [chemical binding]; other site 529120012005 Walker B motif; other site 529120012006 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 529120012007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 529120012008 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 529120012009 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 529120012010 putative dimerization interface [polypeptide binding]; other site 529120012011 ketol-acid reductoisomerase; Validated; Region: PRK05225 529120012012 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 529120012013 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 529120012014 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 529120012015 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 529120012016 putative substrate translocation pore; other site 529120012017 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 529120012018 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 529120012019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120012020 H-loop/switch region; other site 529120012021 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 529120012022 Active site serine [active] 529120012023 Predicted membrane protein [Function unknown]; Region: COG2246 529120012024 GtrA-like protein; Region: GtrA; pfam04138 529120012025 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 529120012026 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 529120012027 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 529120012028 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 529120012029 Ligand binding site; other site 529120012030 Putative Catalytic site; other site 529120012031 DXD motif; other site 529120012032 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 529120012033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 529120012034 active site 529120012035 phosphorylation site [posttranslational modification] 529120012036 intermolecular recognition site; other site 529120012037 dimerization interface [polypeptide binding]; other site 529120012038 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 529120012039 DNA binding site [nucleotide binding] 529120012040 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 529120012041 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 529120012042 dimer interface [polypeptide binding]; other site 529120012043 phosphorylation site [posttranslational modification] 529120012044 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 529120012045 ATP binding site [chemical binding]; other site 529120012046 Mg2+ binding site [ion binding]; other site 529120012047 G-X-G motif; other site 529120012048 serine/threonine transporter SstT; Provisional; Region: PRK13628 529120012049 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 529120012050 formimidoylglutamase; Provisional; Region: PRK13775 529120012051 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 529120012052 putative active site [active] 529120012053 putative metal binding site [ion binding]; other site 529120012054 imidazolonepropionase; Validated; Region: PRK09356 529120012055 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 529120012056 active site 529120012057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 529120012058 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 529120012059 DNA-binding site [nucleotide binding]; DNA binding site 529120012060 UTRA domain; Region: UTRA; pfam07702 529120012061 potential frameshift: common BLAST hit: gi|332140307|ref|YP_004426045.1| urocanate hydratase 529120012062 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 529120012063 active sites [active] 529120012064 tetramer interface [polypeptide binding]; other site 529120012065 CreA protein; Region: CreA; pfam05981 529120012066 MltA-interacting protein MipA; Region: MipA; cl01504 529120012067 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 529120012068 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 529120012069 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 529120012070 active site 529120012071 dimer interface [polypeptide binding]; other site 529120012072 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 529120012073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 529120012074 Walker A/P-loop; other site 529120012075 ATP binding site [chemical binding]; other site 529120012076 Q-loop/lid; other site 529120012077 ABC transporter signature motif; other site 529120012078 Walker B; other site 529120012079 D-loop; other site 529120012080 H-loop/switch region; other site 529120012081 ABC transporter; Region: ABC_tran_2; pfam12848 529120012082 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 529120012083 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 529120012084 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 529120012085 putative active site [active] 529120012086 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 529120012087 binding surface 529120012088 TPR motif; other site 529120012089 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 529120012090 Zn binding site [ion binding]; other site 529120012091 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 529120012092 Surface antigen; Region: Bac_surface_Ag; pfam01103 529120012093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 529120012094 Family of unknown function (DUF490); Region: DUF490; pfam04357 529120012095 Family of unknown function (DUF490); Region: DUF490; pfam04357 529120012096 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 529120012097 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 529120012098 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 529120012099 DNA binding residues [nucleotide binding] 529120012100 Phage shock protein B; Region: PspB; cl05946 529120012101 EamA-like transporter family; Region: EamA; pfam00892 529120012102 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 529120012103 EamA-like transporter family; Region: EamA; pfam00892 529120012104 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 529120012105 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 529120012106 putative ligand binding site [chemical binding]; other site 529120012107 putative NAD binding site [chemical binding]; other site 529120012108 catalytic site [active] 529120012109 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 529120012110 active site 529120012111 gamma-glutamyl kinase; Provisional; Region: PRK05429 529120012112 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 529120012113 nucleotide binding site [chemical binding]; other site 529120012114 homotetrameric interface [polypeptide binding]; other site 529120012115 putative phosphate binding site [ion binding]; other site 529120012116 putative allosteric binding site; other site 529120012117 PUA domain; Region: PUA; pfam01472 529120012118 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 529120012119 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 529120012120 Zn binding site [ion binding]; other site 529120012121 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 529120012122 ABC1 family; Region: ABC1; cl17513 529120012123 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 529120012124 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 529120012125 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 529120012126 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 529120012127 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 529120012128 active site 529120012129 Predicted membrane protein [Function unknown]; Region: COG1238 529120012130 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 529120012131 CPxP motif; other site 529120012132 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 529120012133 active site 529120012134 ribonuclease PH; Reviewed; Region: rph; PRK00173 529120012135 Ribonuclease PH; Region: RNase_PH_bact; cd11362 529120012136 hexamer interface [polypeptide binding]; other site 529120012137 active site 529120012138 hypothetical protein; Provisional; Region: PRK11820 529120012139 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 529120012140 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 529120012141 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120012142 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 529120012143 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 529120012144 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 529120012145 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 529120012146 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 529120012147 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 529120012148 beta-galactosidase; Region: BGL; TIGR03356 529120012149 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 529120012150 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 529120012151 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 529120012152 Transcriptional regulators [Transcription]; Region: PurR; COG1609 529120012153 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 529120012154 DNA binding site [nucleotide binding] 529120012155 domain linker motif; other site 529120012156 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 529120012157 dimerization interface (closed form) [polypeptide binding]; other site 529120012158 ligand binding site [chemical binding]; other site 529120012159 Predicted membrane protein [Function unknown]; Region: COG3503 529120012160 SnoaL-like domain; Region: SnoaL_3; pfam13474 529120012161 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 529120012162 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 529120012163 ligand binding site [chemical binding]; other site 529120012164 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 529120012165 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 529120012166 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 529120012167 Zn2+ binding site [ion binding]; other site 529120012168 Mg2+ binding site [ion binding]; other site 529120012169 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 529120012170 DNA binding site [nucleotide binding] 529120012171 active site 529120012172 DTW domain; Region: DTW; cl01221 529120012173 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 529120012174 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 529120012175 putative C-terminal domain interface [polypeptide binding]; other site 529120012176 putative GSH binding site (G-site) [chemical binding]; other site 529120012177 putative dimer interface [polypeptide binding]; other site 529120012178 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 529120012179 N-terminal domain interface [polypeptide binding]; other site 529120012180 dimer interface [polypeptide binding]; other site 529120012181 substrate binding pocket (H-site) [chemical binding]; other site 529120012182 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 529120012183 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 529120012184 gamma subunit interface [polypeptide binding]; other site 529120012185 epsilon subunit interface [polypeptide binding]; other site 529120012186 LBP interface [polypeptide binding]; other site 529120012187 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 529120012188 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 529120012189 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 529120012190 alpha subunit interaction interface [polypeptide binding]; other site 529120012191 Walker A motif; other site 529120012192 ATP binding site [chemical binding]; other site 529120012193 Walker B motif; other site 529120012194 inhibitor binding site; inhibition site 529120012195 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 529120012196 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 529120012197 core domain interface [polypeptide binding]; other site 529120012198 delta subunit interface [polypeptide binding]; other site 529120012199 epsilon subunit interface [polypeptide binding]; other site 529120012200 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 529120012201 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 529120012202 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 529120012203 beta subunit interaction interface [polypeptide binding]; other site 529120012204 Walker A motif; other site 529120012205 ATP binding site [chemical binding]; other site 529120012206 Walker B motif; other site 529120012207 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 529120012208 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 529120012209 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 529120012210 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 529120012211 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 529120012212 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 529120012213 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 529120012214 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 529120012215 ATP synthase I chain; Region: ATP_synt_I; cl09170 529120012216 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 529120012217 ParB-like nuclease domain; Region: ParBc; pfam02195 529120012218 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 529120012219 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 529120012220 P-loop; other site 529120012221 Magnesium ion binding site [ion binding]; other site 529120012222 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 529120012223 Magnesium ion binding site [ion binding]; other site 529120012224 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 529120012225 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 529120012226 S-adenosylmethionine binding site [chemical binding]; other site 529120012227 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 529120012228 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 529120012229 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 529120012230 DNA replication protein DnaC; Validated; Region: PRK07952 529120012231 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 529120012232 Walker A motif; other site 529120012233 ATP binding site [chemical binding]; other site 529120012234 primosomal protein DnaI; Provisional; Region: PRK02854 529120012235 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 529120012236 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 529120012237 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 529120012238 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 529120012239 G4 box; other site 529120012240 GTP/Mg2+ binding site [chemical binding]; other site 529120012241 G5 box; other site 529120012242 trmE is a tRNA modification GTPase; Region: trmE; cd04164 529120012243 G1 box; other site 529120012244 G1 box; other site 529120012245 GTP/Mg2+ binding site [chemical binding]; other site 529120012246 Switch I region; other site 529120012247 Switch I region; other site 529120012248 G2 box; other site 529120012249 G2 box; other site 529120012250 Switch II region; other site 529120012251 G3 box; other site 529120012252 G3 box; other site 529120012253 Switch II region; other site 529120012254 G4 box; other site 529120012255 G5 box; other site 529120012256 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 529120012257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 529120012258 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 529120012259 membrane protein insertase; Provisional; Region: PRK01318 529120012260 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 529120012261 Haemolytic domain; Region: Haemolytic; pfam01809 529120012262 ribonuclease P; Reviewed; Region: rnpA; PRK01732 529120012263 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399