-- dump date 20140618_200412 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1004788000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1004788000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1004788000003 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 1004788000004 Walker A motif; other site 1004788000005 ATP binding site [chemical binding]; other site 1004788000006 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 1004788000007 Walker B motif; other site 1004788000008 arginine finger; other site 1004788000009 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 1004788000010 DnaA box-binding interface [nucleotide binding]; other site 1004788000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1004788000012 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 1004788000013 putative DNA binding surface [nucleotide binding]; other site 1004788000014 dimer interface [polypeptide binding]; other site 1004788000015 beta-clamp/clamp loader binding surface; other site 1004788000016 beta-clamp/translesion DNA polymerase binding surface; other site 1004788000017 recombination protein F; Reviewed; Region: recF; PRK00064 1004788000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788000019 Walker A/P-loop; other site 1004788000020 ATP binding site [chemical binding]; other site 1004788000021 Q-loop/lid; other site 1004788000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788000023 ABC transporter signature motif; other site 1004788000024 Walker B; other site 1004788000025 D-loop; other site 1004788000026 H-loop/switch region; other site 1004788000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1004788000028 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1004788000029 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 1004788000030 anchoring element; other site 1004788000031 dimer interface [polypeptide binding]; other site 1004788000032 ATP binding site [chemical binding]; other site 1004788000033 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 1004788000034 active site 1004788000035 putative metal-binding site [ion binding]; other site 1004788000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1004788000037 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 1004788000038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1004788000039 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1004788000040 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 1004788000041 dimer interface [polypeptide binding]; other site 1004788000042 motif 1; other site 1004788000043 active site 1004788000044 motif 2; other site 1004788000045 motif 3; other site 1004788000046 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1004788000047 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1004788000048 Der GTPase activator; Provisional; Region: PRK05244 1004788000049 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004788000050 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 1004788000051 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1004788000052 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1004788000053 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1004788000054 Cytochrome c; Region: Cytochrom_C; cl11414 1004788000055 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1004788000056 G1 box; other site 1004788000057 GTP/Mg2+ binding site [chemical binding]; other site 1004788000058 Switch I region; other site 1004788000059 G2 box; other site 1004788000060 G3 box; other site 1004788000061 Switch II region; other site 1004788000062 G4 box; other site 1004788000063 G5 box; other site 1004788000064 DNA polymerase I; Provisional; Region: PRK05755 1004788000065 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1004788000066 active site 1004788000067 metal binding site 1 [ion binding]; metal-binding site 1004788000068 putative 5' ssDNA interaction site; other site 1004788000069 metal binding site 3; metal-binding site 1004788000070 metal binding site 2 [ion binding]; metal-binding site 1004788000071 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1004788000072 putative DNA binding site [nucleotide binding]; other site 1004788000073 putative metal binding site [ion binding]; other site 1004788000074 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 1004788000075 active site 1004788000076 catalytic site [active] 1004788000077 substrate binding site [chemical binding]; other site 1004788000078 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1004788000079 active site 1004788000080 DNA binding site [nucleotide binding] 1004788000081 catalytic site [active] 1004788000082 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1004788000083 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1004788000084 conserved cys residue [active] 1004788000085 Cation transport protein; Region: TrkH; cl17365 1004788000086 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1004788000087 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1004788000088 TrkA-N domain; Region: TrkA_N; pfam02254 1004788000089 TrkA-C domain; Region: TrkA_C; pfam02080 1004788000090 TrkA-N domain; Region: TrkA_N; pfam02254 1004788000091 TrkA-C domain; Region: TrkA_C; pfam02080 1004788000092 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 1004788000093 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1004788000094 putative RNA binding site [nucleotide binding]; other site 1004788000095 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 1004788000096 S-adenosylmethionine binding site [chemical binding]; other site 1004788000097 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1004788000098 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1004788000099 putative active site [active] 1004788000100 substrate binding site [chemical binding]; other site 1004788000101 putative cosubstrate binding site; other site 1004788000102 catalytic site [active] 1004788000103 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1004788000104 substrate binding site [chemical binding]; other site 1004788000105 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 1004788000106 active site 1004788000107 catalytic residues [active] 1004788000108 metal binding site [ion binding]; metal-binding site 1004788000109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788000110 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1004788000111 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1004788000112 DNA protecting protein DprA; Region: dprA; TIGR00732 1004788000113 Protein of unknown function (DUF494); Region: DUF494; cl01103 1004788000114 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004788000115 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004788000116 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004788000117 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1004788000118 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1004788000119 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1004788000120 OmpW family; Region: OmpW; cl17427 1004788000121 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 1004788000122 apolar tunnel; other site 1004788000123 heme binding site [chemical binding]; other site 1004788000124 dimerization interface [polypeptide binding]; other site 1004788000125 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1004788000126 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1004788000127 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1004788000128 shikimate binding site; other site 1004788000129 NAD(P) binding site [chemical binding]; other site 1004788000130 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1004788000131 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 1004788000132 trimer interface [polypeptide binding]; other site 1004788000133 putative metal binding site [ion binding]; other site 1004788000134 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1004788000135 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1004788000136 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788000137 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1004788000138 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1004788000139 putative active site [active] 1004788000140 putative PHP Thumb interface [polypeptide binding]; other site 1004788000141 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 1004788000142 generic binding surface II; other site 1004788000143 generic binding surface I; other site 1004788000144 DNA Polymerase Y-family; Region: PolY_like; cd03468 1004788000145 active site 1004788000146 DNA binding site [nucleotide binding] 1004788000147 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1004788000148 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004788000149 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1004788000150 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788000151 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 1004788000152 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004788000153 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1004788000154 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004788000155 metal binding site [ion binding]; metal-binding site 1004788000156 division inhibitor protein; Provisional; Region: slmA; PRK09480 1004788000157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788000158 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1004788000159 Flavoprotein; Region: Flavoprotein; pfam02441 1004788000160 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1004788000161 hypothetical protein; Reviewed; Region: PRK00024 1004788000162 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1004788000163 MPN+ (JAMM) motif; other site 1004788000164 Zinc-binding site [ion binding]; other site 1004788000165 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1004788000166 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1004788000167 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1004788000168 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1004788000169 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1004788000170 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1004788000171 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1004788000172 DNA binding site [nucleotide binding] 1004788000173 catalytic residue [active] 1004788000174 H2TH interface [polypeptide binding]; other site 1004788000175 putative catalytic residues [active] 1004788000176 turnover-facilitating residue; other site 1004788000177 intercalation triad [nucleotide binding]; other site 1004788000178 8OG recognition residue [nucleotide binding]; other site 1004788000179 putative reading head residues; other site 1004788000180 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1004788000181 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004788000182 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1004788000183 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1004788000184 active site 1004788000185 (T/H)XGH motif; other site 1004788000186 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1004788000187 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 1004788000188 active site 1004788000189 ATP binding site [chemical binding]; other site 1004788000190 serine/threonine protein kinase; Provisional; Region: PRK14879 1004788000191 PBP superfamily domain; Region: PBP_like_2; cl17296 1004788000192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000194 metal binding site [ion binding]; metal-binding site 1004788000195 active site 1004788000196 I-site; other site 1004788000197 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 1004788000198 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1004788000199 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 1004788000200 substrate-cofactor binding pocket; other site 1004788000201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788000202 catalytic residue [active] 1004788000203 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1004788000204 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1004788000205 NAD(P) binding site [chemical binding]; other site 1004788000206 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 1004788000207 active site residue [active] 1004788000208 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1004788000209 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1004788000210 Rhomboid family; Region: Rhomboid; pfam01694 1004788000211 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1004788000212 Chorismate lyase; Region: Chor_lyase; cl01230 1004788000213 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1004788000214 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004788000215 Membrane fusogenic activity; Region: BMFP; pfam04380 1004788000216 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1004788000217 Part of AAA domain; Region: AAA_19; pfam13245 1004788000218 Family description; Region: UvrD_C_2; pfam13538 1004788000219 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004788000220 GAF domain; Region: GAF_2; pfam13185 1004788000221 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788000222 GAF domain; Region: GAF; pfam01590 1004788000223 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000225 metal binding site [ion binding]; metal-binding site 1004788000226 active site 1004788000227 I-site; other site 1004788000228 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 1004788000229 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1004788000230 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1004788000231 BCCT family transporter; Region: BCCT; pfam02028 1004788000232 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 1004788000233 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 1004788000234 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 1004788000235 dimerization interface [polypeptide binding]; other site 1004788000236 active site 1004788000237 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1004788000238 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1004788000239 Helix-turn-helix domain; Region: HTH_17; pfam12728 1004788000240 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 1004788000241 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 1004788000242 active site 1004788000243 DNA binding site [nucleotide binding] 1004788000244 Int/Topo IB signature motif; other site 1004788000245 Nuclease-related domain; Region: NERD; pfam08378 1004788000246 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1004788000247 PLD-like domain; Region: PLDc_2; pfam13091 1004788000248 putative active site [active] 1004788000249 catalytic site [active] 1004788000250 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1004788000251 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 1004788000252 ATP binding site [chemical binding]; other site 1004788000253 putative Mg++ binding site [ion binding]; other site 1004788000254 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1004788000255 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 1004788000256 nucleotide binding region [chemical binding]; other site 1004788000257 ATP-binding site [chemical binding]; other site 1004788000258 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 1004788000259 Catalytic site [active] 1004788000260 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004788000261 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 1004788000262 S-adenosylmethionine binding site [chemical binding]; other site 1004788000263 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1004788000264 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 1004788000265 N-terminal plug; other site 1004788000266 ligand-binding site [chemical binding]; other site 1004788000267 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004788000268 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788000269 active site 1004788000270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788000271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788000272 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 1004788000273 substrate binding pocket [chemical binding]; other site 1004788000274 dimerization interface [polypeptide binding]; other site 1004788000275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788000276 YcjX-like family, DUF463; Region: DUF463; cl01193 1004788000277 hypothetical protein; Provisional; Region: PRK05415 1004788000278 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1004788000279 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1004788000280 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1004788000281 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1004788000282 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1004788000283 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 1004788000284 FeS/SAM binding site; other site 1004788000285 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1004788000286 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 1004788000287 ThiS interaction site; other site 1004788000288 putative active site [active] 1004788000289 tetramer interface [polypeptide binding]; other site 1004788000290 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1004788000291 thiS-thiF/thiG interaction site; other site 1004788000292 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1004788000293 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 1004788000294 ATP binding site [chemical binding]; other site 1004788000295 substrate interface [chemical binding]; other site 1004788000296 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1004788000297 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 1004788000298 substrate binding site [chemical binding]; other site 1004788000299 ATP binding site [chemical binding]; other site 1004788000300 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 1004788000301 thiamine phosphate binding site [chemical binding]; other site 1004788000302 active site 1004788000303 pyrophosphate binding site [ion binding]; other site 1004788000304 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1004788000305 ThiC-associated domain; Region: ThiC-associated; pfam13667 1004788000306 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1004788000307 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1004788000308 HemY protein N-terminus; Region: HemY_N; pfam07219 1004788000309 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1004788000310 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1004788000311 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 1004788000312 active site 1004788000313 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1004788000314 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 1004788000315 domain interfaces; other site 1004788000316 active site 1004788000317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000319 metal binding site [ion binding]; metal-binding site 1004788000320 active site 1004788000321 I-site; other site 1004788000322 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1004788000323 putative hydrolase; Provisional; Region: PRK11460 1004788000324 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1004788000325 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 1004788000326 catalytic site [active] 1004788000327 G-X2-G-X-G-K; other site 1004788000328 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1004788000329 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1004788000330 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788000331 Zn2+ binding site [ion binding]; other site 1004788000332 Mg2+ binding site [ion binding]; other site 1004788000333 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1004788000334 synthetase active site [active] 1004788000335 NTP binding site [chemical binding]; other site 1004788000336 metal binding site [ion binding]; metal-binding site 1004788000337 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 1004788000338 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1004788000339 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 1004788000340 homotrimer interaction site [polypeptide binding]; other site 1004788000341 putative active site [active] 1004788000342 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1004788000343 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004788000344 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1004788000345 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1004788000346 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1004788000347 ssDNA binding site; other site 1004788000348 generic binding surface II; other site 1004788000349 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 1004788000350 ATP binding site [chemical binding]; other site 1004788000351 putative Mg++ binding site [ion binding]; other site 1004788000352 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 1004788000353 nucleotide binding region [chemical binding]; other site 1004788000354 ATP-binding site [chemical binding]; other site 1004788000355 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 1004788000356 S-adenosylmethionine binding site [chemical binding]; other site 1004788000357 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 1004788000358 catalytic triad [active] 1004788000359 dimer interface [polypeptide binding]; other site 1004788000360 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1004788000361 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1004788000362 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 1004788000363 dimer interface [polypeptide binding]; other site 1004788000364 conserved gate region; other site 1004788000365 putative PBP binding loops; other site 1004788000366 ABC-ATPase subunit interface; other site 1004788000367 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 1004788000368 dimer interface [polypeptide binding]; other site 1004788000369 conserved gate region; other site 1004788000370 putative PBP binding loops; other site 1004788000371 ABC-ATPase subunit interface; other site 1004788000372 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1004788000373 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1004788000374 Walker A/P-loop; other site 1004788000375 ATP binding site [chemical binding]; other site 1004788000376 Q-loop/lid; other site 1004788000377 ABC transporter signature motif; other site 1004788000378 Walker B; other site 1004788000379 D-loop; other site 1004788000380 H-loop/switch region; other site 1004788000381 TOBE domain; Region: TOBE_2; pfam08402 1004788000382 Predicted flavoproteins [General function prediction only]; Region: COG2081 1004788000383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788000384 OmpW family; Region: OmpW; cl17427 1004788000385 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1004788000386 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 1004788000387 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788000388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000390 metal binding site [ion binding]; metal-binding site 1004788000391 active site 1004788000392 I-site; other site 1004788000393 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1004788000394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788000395 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 1004788000396 dimerization interface [polypeptide binding]; other site 1004788000397 Lysine efflux permease [General function prediction only]; Region: COG1279 1004788000398 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1004788000399 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1004788000400 DNA-J related protein; Region: DNAJ_related; pfam12339 1004788000401 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 1004788000402 HSP70 interaction site [polypeptide binding]; other site 1004788000403 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1004788000404 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788000405 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788000406 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1004788000407 Protein export membrane protein; Region: SecD_SecF; cl14618 1004788000408 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004788000409 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788000410 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1004788000411 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1004788000412 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1004788000413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788000414 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004788000415 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1004788000416 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1004788000417 putative active site [active] 1004788000418 Zn binding site [ion binding]; other site 1004788000419 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1004788000420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788000421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000422 dimer interface [polypeptide binding]; other site 1004788000423 putative CheW interface [polypeptide binding]; other site 1004788000424 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788000425 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1004788000426 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 1004788000427 dimerization interface [polypeptide binding]; other site 1004788000428 active site 1004788000429 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788000430 PAS domain S-box; Region: sensory_box; TIGR00229 1004788000431 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 1004788000432 putative active site [active] 1004788000433 heme pocket [chemical binding]; other site 1004788000434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000436 metal binding site [ion binding]; metal-binding site 1004788000437 active site 1004788000438 I-site; other site 1004788000439 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 1004788000440 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788000441 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 1004788000442 putative C-terminal domain interface [polypeptide binding]; other site 1004788000443 putative GSH binding site (G-site) [chemical binding]; other site 1004788000444 putative dimer interface [polypeptide binding]; other site 1004788000445 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1004788000446 putative N-terminal domain interface [polypeptide binding]; other site 1004788000447 putative dimer interface [polypeptide binding]; other site 1004788000448 putative substrate binding pocket (H-site) [chemical binding]; other site 1004788000449 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1004788000450 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 1004788000451 ATP binding site [chemical binding]; other site 1004788000452 putative Mg++ binding site [ion binding]; other site 1004788000453 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 1004788000454 nucleotide binding region [chemical binding]; other site 1004788000455 ATP-binding site [chemical binding]; other site 1004788000456 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1004788000457 HRDC domain; Region: HRDC; pfam00570 1004788000458 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 1004788000459 CoenzymeA binding site [chemical binding]; other site 1004788000460 subunit interaction site [polypeptide binding]; other site 1004788000461 PHB binding site; other site 1004788000462 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1004788000463 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1004788000464 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 1004788000465 Divalent cation transporter; Region: MgtE; pfam01769 1004788000466 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1004788000467 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788000468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000469 active site 1004788000470 phosphorylation site [posttranslational modification] 1004788000471 intermolecular recognition site; other site 1004788000472 dimerization interface [polypeptide binding]; other site 1004788000473 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000475 metal binding site [ion binding]; metal-binding site 1004788000476 active site 1004788000477 I-site; other site 1004788000478 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1004788000479 Part of AAA domain; Region: AAA_19; pfam13245 1004788000480 Family description; Region: UvrD_C_2; pfam13538 1004788000481 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1004788000482 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1004788000483 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 1004788000484 trimer interface [polypeptide binding]; other site 1004788000485 active site 1004788000486 substrate binding site [chemical binding]; other site 1004788000487 CoA binding site [chemical binding]; other site 1004788000488 MASE1; Region: MASE1; cl17823 1004788000489 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000490 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000491 metal binding site [ion binding]; metal-binding site 1004788000492 active site 1004788000493 I-site; other site 1004788000494 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1004788000495 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 1004788000496 motif II; other site 1004788000497 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1004788000498 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 1004788000499 active site 1004788000500 DNA binding site [nucleotide binding] 1004788000501 Int/Topo IB signature motif; other site 1004788000502 Protein of unknown function, DUF484; Region: DUF484; cl17449 1004788000503 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1004788000504 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1004788000505 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1004788000506 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1004788000507 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1004788000508 active site 1004788000509 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004788000510 substrate binding site [chemical binding]; other site 1004788000511 catalytic residues [active] 1004788000512 dimer interface [polypeptide binding]; other site 1004788000513 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1004788000514 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1004788000515 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1004788000516 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 1004788000517 active site 1004788000518 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1004788000519 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1004788000520 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1004788000521 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1004788000522 active site 1004788000523 Zn binding site [ion binding]; other site 1004788000524 aromatic acid decarboxylase; Validated; Region: PRK05920 1004788000525 Flavoprotein; Region: Flavoprotein; pfam02441 1004788000526 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1004788000527 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004788000528 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788000529 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004788000530 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 1004788000531 AMP binding site [chemical binding]; other site 1004788000532 metal binding site [ion binding]; metal-binding site 1004788000533 active site 1004788000534 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 1004788000535 dimer interface [polypeptide binding]; other site 1004788000536 substrate binding site [chemical binding]; other site 1004788000537 metal binding sites [ion binding]; metal-binding site 1004788000538 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1004788000539 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1004788000540 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1004788000541 inhibitor site; inhibition site 1004788000542 active site 1004788000543 dimer interface [polypeptide binding]; other site 1004788000544 catalytic residue [active] 1004788000545 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1004788000546 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 1004788000547 active site 1004788000548 MarR family; Region: MarR_2; cl17246 1004788000549 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004788000550 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 1004788000551 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004788000552 Active site serine [active] 1004788000553 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004788000554 nucleotide binding site [chemical binding]; other site 1004788000555 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1004788000556 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1004788000557 nucleotide binding site [chemical binding]; other site 1004788000558 SBD interface [polypeptide binding]; other site 1004788000559 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1004788000560 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004788000561 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004788000562 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1004788000563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004788000564 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 1004788000565 putative substrate translocation pore; other site 1004788000566 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1004788000567 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 1004788000568 active site 1004788000569 motif I; other site 1004788000570 motif II; other site 1004788000571 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004788000572 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1004788000573 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1004788000574 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1004788000575 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788000576 DNA binding site [nucleotide binding] 1004788000577 domain linker motif; other site 1004788000578 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 1004788000579 dimerization interface (closed form) [polypeptide binding]; other site 1004788000580 ligand binding site [chemical binding]; other site 1004788000581 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1004788000582 active site 1004788000583 catalytic residues [active] 1004788000584 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1004788000585 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 1004788000586 dimer interface [polypeptide binding]; other site 1004788000587 active site 1004788000588 galactokinase; Provisional; Region: PRK05101 1004788000589 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1004788000590 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004788000591 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 1004788000592 Na binding site [ion binding]; other site 1004788000593 substrate binding site [chemical binding]; other site 1004788000594 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1004788000595 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 1004788000596 dimer interface [polypeptide binding]; other site 1004788000597 ssDNA binding site [nucleotide binding]; other site 1004788000598 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1004788000599 conserved hypothetical protein; Region: TIGR02285 1004788000600 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004788000601 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788000602 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1004788000603 Melibiase; Region: Melibiase; pfam02065 1004788000604 putative transporter; Provisional; Region: PRK10484 1004788000605 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1004788000606 Na binding site [ion binding]; other site 1004788000607 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788000608 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 1004788000609 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 1004788000610 glycerol kinase; Provisional; Region: glpK; PRK00047 1004788000611 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1004788000612 N- and C-terminal domain interface [polypeptide binding]; other site 1004788000613 active site 1004788000614 MgATP binding site [chemical binding]; other site 1004788000615 catalytic site [active] 1004788000616 metal binding site [ion binding]; metal-binding site 1004788000617 glycerol binding site [chemical binding]; other site 1004788000618 homotetramer interface [polypeptide binding]; other site 1004788000619 homodimer interface [polypeptide binding]; other site 1004788000620 FBP binding site [chemical binding]; other site 1004788000621 protein IIAGlc interface [polypeptide binding]; other site 1004788000622 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1004788000623 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1004788000624 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1004788000625 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1004788000626 Phosphoglycerate mutase family; Region: PGAM; smart00855 1004788000627 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1004788000628 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1004788000629 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1004788000630 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1004788000631 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1004788000632 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1004788000633 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 1004788000634 Walker A motif; other site 1004788000635 ATP binding site [chemical binding]; other site 1004788000636 Walker B motif; other site 1004788000637 arginine finger; other site 1004788000638 TPR repeat; Region: TPR_11; pfam13414 1004788000639 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 1004788000640 binding surface 1004788000641 TPR motif; other site 1004788000642 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 1004788000643 TPR motif; other site 1004788000644 binding surface 1004788000645 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1004788000646 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1004788000647 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 1004788000648 Walker A motif; other site 1004788000649 ATP binding site [chemical binding]; other site 1004788000650 Walker B motif; other site 1004788000651 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1004788000652 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788000653 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788000654 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1004788000655 H-type lectin domain; Region: H_lectin; pfam09458 1004788000656 rod shape-determining protein MreB; Provisional; Region: PRK13927 1004788000657 MreB and similar proteins; Region: MreB_like; cd10225 1004788000658 nucleotide binding site [chemical binding]; other site 1004788000659 Mg binding site [ion binding]; other site 1004788000660 putative protofilament interaction site [polypeptide binding]; other site 1004788000661 RodZ interaction site [polypeptide binding]; other site 1004788000662 rod shape-determining protein MreC; Provisional; Region: PRK13922 1004788000663 rod shape-determining protein MreC; Region: MreC; pfam04085 1004788000664 rod shape-determining protein MreD; Region: MreD; cl01087 1004788000665 Maf-like protein; Region: Maf; pfam02545 1004788000666 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 1004788000667 active site 1004788000668 dimer interface [polypeptide binding]; other site 1004788000669 ribonuclease G; Provisional; Region: PRK11712 1004788000670 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 1004788000671 homodimer interface [polypeptide binding]; other site 1004788000672 oligonucleotide binding site [chemical binding]; other site 1004788000673 TIGR02099 family protein; Region: TIGR02099 1004788000674 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1004788000675 nitrilase; Region: PLN02798 1004788000676 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1004788000677 putative active site [active] 1004788000678 catalytic triad [active] 1004788000679 dimer interface [polypeptide binding]; other site 1004788000680 protease TldD; Provisional; Region: tldD; PRK10735 1004788000681 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1004788000682 peptidase PmbA; Provisional; Region: PRK11040 1004788000683 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004788000684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788000685 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1004788000686 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1004788000687 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1004788000688 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1004788000689 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1004788000690 two-component response regulator; Provisional; Region: PRK11173 1004788000691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000692 active site 1004788000693 phosphorylation site [posttranslational modification] 1004788000694 intermolecular recognition site; other site 1004788000695 dimerization interface [polypeptide binding]; other site 1004788000696 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 1004788000697 DNA binding site [nucleotide binding] 1004788000698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788000699 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 1004788000700 dimer interface [polypeptide binding]; other site 1004788000701 phosphorylation site [posttranslational modification] 1004788000702 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 1004788000703 ATP binding site [chemical binding]; other site 1004788000704 Mg2+ binding site [ion binding]; other site 1004788000705 G-X-G motif; other site 1004788000706 glycogen synthase; Provisional; Region: glgA; PRK00654 1004788000707 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 1004788000708 ADP-binding pocket [chemical binding]; other site 1004788000709 homodimer interface [polypeptide binding]; other site 1004788000710 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1004788000711 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1004788000712 Methyltransferase small domain; Region: MTS; pfam05175 1004788000713 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1004788000714 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788000715 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1004788000716 adenine DNA glycosylase; Provisional; Region: PRK10880 1004788000717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1004788000718 minor groove reading motif; other site 1004788000719 helix-hairpin-helix signature motif; other site 1004788000720 substrate binding pocket [chemical binding]; other site 1004788000721 active site 1004788000722 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1004788000723 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 1004788000724 DNA binding and oxoG recognition site [nucleotide binding] 1004788000725 oxidative damage protection protein; Provisional; Region: PRK05408 1004788000726 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1004788000727 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 1004788000728 motif II; other site 1004788000729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000730 dimer interface [polypeptide binding]; other site 1004788000731 putative CheW interface [polypeptide binding]; other site 1004788000732 Initiator Replication protein; Region: Rep_3; pfam01051 1004788000733 Initiator Replication protein; Region: Rep_3; pfam01051 1004788000734 Initiator Replication protein; Region: Rep_3; pfam01051 1004788000735 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 1004788000736 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788000737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000738 active site 1004788000739 phosphorylation site [posttranslational modification] 1004788000740 intermolecular recognition site; other site 1004788000741 dimerization interface [polypeptide binding]; other site 1004788000742 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 1004788000743 putative binding surface; other site 1004788000744 active site 1004788000745 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004788000746 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 1004788000747 ATP binding site [chemical binding]; other site 1004788000748 Mg2+ binding site [ion binding]; other site 1004788000749 G-X-G motif; other site 1004788000750 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 1004788000751 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 1004788000752 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 1004788000753 PAS domain; Region: PAS_9; pfam13426 1004788000754 putative active site [active] 1004788000755 heme pocket [chemical binding]; other site 1004788000756 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 1004788000757 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000758 putative active site [active] 1004788000759 heme pocket [chemical binding]; other site 1004788000760 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 1004788000761 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000762 putative active site [active] 1004788000763 heme pocket [chemical binding]; other site 1004788000764 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 1004788000765 putative active site [active] 1004788000766 heme pocket [chemical binding]; other site 1004788000767 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788000768 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000769 dimer interface [polypeptide binding]; other site 1004788000770 putative CheW interface [polypeptide binding]; other site 1004788000771 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1004788000772 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004788000773 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004788000774 CheD chemotactic sensory transduction; Region: CheD; cl00810 1004788000775 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004788000776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000777 active site 1004788000778 phosphorylation site [posttranslational modification] 1004788000779 intermolecular recognition site; other site 1004788000780 dimerization interface [polypeptide binding]; other site 1004788000781 CheB methylesterase; Region: CheB_methylest; pfam01339 1004788000782 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788000783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000784 active site 1004788000785 phosphorylation site [posttranslational modification] 1004788000786 intermolecular recognition site; other site 1004788000787 dimerization interface [polypeptide binding]; other site 1004788000788 chemotaxis protein CheA; Provisional; Region: PRK10547 1004788000789 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 1004788000790 putative binding surface; other site 1004788000791 active site 1004788000792 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004788000793 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1004788000794 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 1004788000795 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 1004788000796 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000797 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000798 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 1004788000799 putative active site [active] 1004788000800 heme pocket [chemical binding]; other site 1004788000801 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 1004788000802 putative active site [active] 1004788000803 heme pocket [chemical binding]; other site 1004788000804 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1004788000805 dimerization interface [polypeptide binding]; other site 1004788000806 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1004788000807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000808 dimer interface [polypeptide binding]; other site 1004788000809 putative CheW interface [polypeptide binding]; other site 1004788000810 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 1004788000811 PAS domain; Region: PAS_9; pfam13426 1004788000812 putative active site [active] 1004788000813 heme pocket [chemical binding]; other site 1004788000814 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000815 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 1004788000816 putative active site [active] 1004788000817 heme pocket [chemical binding]; other site 1004788000818 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 1004788000819 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788000820 putative active site [active] 1004788000821 heme pocket [chemical binding]; other site 1004788000822 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 1004788000823 putative active site [active] 1004788000824 heme pocket [chemical binding]; other site 1004788000825 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 1004788000826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000828 dimer interface [polypeptide binding]; other site 1004788000829 putative CheW interface [polypeptide binding]; other site 1004788000830 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1004788000831 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004788000832 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004788000833 CheD chemotactic sensory transduction; Region: CheD; cl00810 1004788000834 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004788000835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000836 active site 1004788000837 phosphorylation site [posttranslational modification] 1004788000838 intermolecular recognition site; other site 1004788000839 dimerization interface [polypeptide binding]; other site 1004788000840 CheB methylesterase; Region: CheB_methylest; pfam01339 1004788000841 Class I aldolases; Region: Aldolase_Class_I; cl17187 1004788000842 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1004788000843 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 1004788000844 motif II; other site 1004788000845 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788000846 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 1004788000847 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 1004788000848 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788000849 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788000850 DNA binding site [nucleotide binding] 1004788000851 domain linker motif; other site 1004788000852 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 1004788000853 putative dimerization interface [polypeptide binding]; other site 1004788000854 putative ligand binding site [chemical binding]; other site 1004788000855 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788000856 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 1004788000857 putative substrate translocation pore; other site 1004788000858 Trehalase; Region: Trehalase; cl17346 1004788000859 Domain of unknown function (DUF371); Region: DUF371; cl00916 1004788000860 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788000861 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788000862 metal binding site [ion binding]; metal-binding site 1004788000863 active site 1004788000864 I-site; other site 1004788000865 EamA-like transporter family; Region: EamA; cl17759 1004788000866 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 1004788000867 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 1004788000868 active site 1004788000869 motif I; other site 1004788000870 motif II; other site 1004788000871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788000872 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 1004788000873 dimer interface [polypeptide binding]; other site 1004788000874 phosphorylation site [posttranslational modification] 1004788000875 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 1004788000876 ATP binding site [chemical binding]; other site 1004788000877 Mg2+ binding site [ion binding]; other site 1004788000878 G-X-G motif; other site 1004788000879 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788000880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788000881 active site 1004788000882 phosphorylation site [posttranslational modification] 1004788000883 intermolecular recognition site; other site 1004788000884 dimerization interface [polypeptide binding]; other site 1004788000885 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004788000886 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1004788000887 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1004788000888 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788000889 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788000890 DNA binding site [nucleotide binding] 1004788000891 domain linker motif; other site 1004788000892 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1004788000893 dimerization interface [polypeptide binding]; other site 1004788000894 ligand binding site [chemical binding]; other site 1004788000895 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004788000896 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004788000897 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004788000898 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1004788000899 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 1004788000900 Metal-binding active site; metal-binding site 1004788000901 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1004788000902 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1004788000903 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 1004788000904 putative substrate translocation pore; other site 1004788000905 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1004788000906 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1004788000907 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004788000908 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004788000909 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1004788000910 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1004788000911 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1004788000912 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1004788000913 active site 1004788000914 NAD binding site [chemical binding]; other site 1004788000915 metal binding site [ion binding]; metal-binding site 1004788000916 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1004788000917 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 1004788000918 homodimer interface [polypeptide binding]; other site 1004788000919 substrate-cofactor binding pocket; other site 1004788000920 catalytic residue [active] 1004788000921 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 1004788000922 catalytic core [active] 1004788000923 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 1004788000924 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 1004788000925 aconitate hydratase; Validated; Region: PRK09277 1004788000926 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1004788000927 substrate binding site [chemical binding]; other site 1004788000928 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1004788000929 ligand binding site [chemical binding]; other site 1004788000930 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 1004788000931 substrate binding site [chemical binding]; other site 1004788000932 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1004788000933 Sel1-like repeats; Region: SEL1; smart00671 1004788000934 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004788000935 GAF domain; Region: GAF_2; pfam13185 1004788000936 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1004788000937 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1004788000938 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 1004788000939 Walker A motif; other site 1004788000940 ATP binding site [chemical binding]; other site 1004788000941 Walker B motif; other site 1004788000942 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1004788000943 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1004788000944 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1004788000945 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1004788000946 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1004788000947 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1004788000948 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1004788000949 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1004788000950 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 1004788000951 putative translocon binding site; other site 1004788000952 protein-rRNA interface [nucleotide binding]; other site 1004788000953 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1004788000954 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 1004788000955 G-X-X-G motif; other site 1004788000956 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1004788000957 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 1004788000958 23S rRNA interface [nucleotide binding]; other site 1004788000959 5S rRNA interface [nucleotide binding]; other site 1004788000960 putative antibiotic binding site [chemical binding]; other site 1004788000961 L25 interface [polypeptide binding]; other site 1004788000962 L27 interface [polypeptide binding]; other site 1004788000963 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 1004788000964 23S rRNA interface [nucleotide binding]; other site 1004788000965 putative translocon interaction site; other site 1004788000966 signal recognition particle (SRP54) interaction site; other site 1004788000967 L23 interface [polypeptide binding]; other site 1004788000968 trigger factor interaction site; other site 1004788000969 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1004788000970 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788000971 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 1004788000972 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1004788000973 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1004788000974 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 1004788000975 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1004788000976 TrkA-N domain; Region: TrkA_N; pfam02254 1004788000977 Cache domain; Region: Cache_1; pfam02743 1004788000978 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 1004788000979 dimerization interface [polypeptide binding]; other site 1004788000980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788000981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788000982 dimer interface [polypeptide binding]; other site 1004788000983 putative CheW interface [polypeptide binding]; other site 1004788000984 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1004788000985 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1004788000986 active site 1004788000987 Zn binding site [ion binding]; other site 1004788000988 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004788000989 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1004788000990 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1004788000991 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1004788000992 putative active site [active] 1004788000993 putative substrate binding site [chemical binding]; other site 1004788000994 putative cosubstrate binding site; other site 1004788000995 catalytic site [active] 1004788000996 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1004788000997 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1004788000998 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1004788000999 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 1004788001000 ATP binding site [chemical binding]; other site 1004788001001 putative Mg++ binding site [ion binding]; other site 1004788001002 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 1004788001003 nucleotide binding region [chemical binding]; other site 1004788001004 ATP-binding site [chemical binding]; other site 1004788001005 Helicase associated domain (HA2); Region: HA2; cl04503 1004788001006 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1004788001007 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1004788001008 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1004788001009 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1004788001010 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 1004788001011 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788001012 catalytic residue [active] 1004788001013 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1004788001014 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1004788001015 Transglycosylase; Region: Transgly; pfam00912 1004788001016 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1004788001017 putative chaperone protein EcpD; Provisional; Region: PRK09926 1004788001018 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1004788001019 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 1004788001020 Endonuclease I; Region: Endonuclease_1; pfam04231 1004788001021 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004788001022 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1004788001023 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1004788001024 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1004788001025 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004788001026 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004788001027 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1004788001028 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1004788001029 cyclase homology domain; Region: CHD; cd07302 1004788001030 nucleotidyl binding site; other site 1004788001031 metal binding site [ion binding]; metal-binding site 1004788001032 dimer interface [polypeptide binding]; other site 1004788001033 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1004788001034 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 1004788001035 inhibitor-cofactor binding pocket; inhibition site 1004788001036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788001037 catalytic residue [active] 1004788001038 aspartate carbamoyltransferase; Provisional; Region: PRK08192 1004788001039 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1004788001040 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1004788001041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788001042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788001043 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1004788001044 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788001045 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788001046 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788001047 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788001048 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 1004788001049 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004788001050 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788001051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788001052 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 1004788001053 dimer interface [polypeptide binding]; other site 1004788001054 phosphorylation site [posttranslational modification] 1004788001055 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 1004788001056 ATP binding site [chemical binding]; other site 1004788001057 Mg2+ binding site [ion binding]; other site 1004788001058 G-X-G motif; other site 1004788001059 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788001060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001061 active site 1004788001062 phosphorylation site [posttranslational modification] 1004788001063 intermolecular recognition site; other site 1004788001064 dimerization interface [polypeptide binding]; other site 1004788001065 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 1004788001066 putative binding surface; other site 1004788001067 active site 1004788001068 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1004788001069 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 1004788001070 CAP-like domain; other site 1004788001071 active site 1004788001072 primary dimer interface [polypeptide binding]; other site 1004788001073 Heme NO binding; Region: HNOB; pfam07700 1004788001074 PAS fold; Region: PAS_3; pfam08447 1004788001075 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 1004788001076 PAS domain; Region: PAS_9; pfam13426 1004788001077 putative active site [active] 1004788001078 heme pocket [chemical binding]; other site 1004788001079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788001080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788001081 metal binding site [ion binding]; metal-binding site 1004788001082 active site 1004788001083 I-site; other site 1004788001084 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 1004788001085 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1004788001086 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1004788001087 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1004788001088 NAD(P) binding site [chemical binding]; other site 1004788001089 catalytic residues [active] 1004788001090 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1004788001091 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1004788001092 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1004788001093 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 1004788001094 inhibitor-cofactor binding pocket; inhibition site 1004788001095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788001096 catalytic residue [active] 1004788001097 HDOD domain; Region: HDOD; pfam08668 1004788001098 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1004788001099 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1004788001100 glutamine binding [chemical binding]; other site 1004788001101 catalytic triad [active] 1004788001102 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1004788001103 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1004788001104 active site 1004788001105 HIGH motif; other site 1004788001106 dimer interface [polypeptide binding]; other site 1004788001107 KMSKS motif; other site 1004788001108 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 1004788001109 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1004788001110 substrate binding site [chemical binding]; other site 1004788001111 hexamer interface [polypeptide binding]; other site 1004788001112 metal binding site [ion binding]; metal-binding site 1004788001113 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1004788001114 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1004788001115 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1004788001116 AAA domain; Region: AAA_22; pfam13401 1004788001117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1004788001118 Sporulation related domain; Region: SPOR; cl10051 1004788001119 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1004788001120 active site 1004788001121 dimer interface [polypeptide binding]; other site 1004788001122 metal binding site [ion binding]; metal-binding site 1004788001123 shikimate kinase; Reviewed; Region: aroK; PRK00131 1004788001124 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 1004788001125 ADP binding site [chemical binding]; other site 1004788001126 magnesium binding site [ion binding]; other site 1004788001127 putative shikimate binding site; other site 1004788001128 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1004788001129 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004788001130 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004788001131 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1004788001132 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1004788001133 Pilus assembly protein, PilP; Region: PilP; pfam04351 1004788001134 Pilus assembly protein, PilO; Region: PilO; pfam04350 1004788001135 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1004788001136 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1004788001137 Competence protein A; Region: Competence_A; pfam11104 1004788001138 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1004788001139 Transglycosylase; Region: Transgly; pfam00912 1004788001140 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1004788001141 malate dehydrogenase; Provisional; Region: PRK13529 1004788001142 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1004788001143 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1004788001144 NAD(P) binding site [chemical binding]; other site 1004788001145 putative S-transferase; Provisional; Region: PRK11752 1004788001146 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 1004788001147 C-terminal domain interface [polypeptide binding]; other site 1004788001148 GSH binding site (G-site) [chemical binding]; other site 1004788001149 dimer interface [polypeptide binding]; other site 1004788001150 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1004788001151 dimer interface [polypeptide binding]; other site 1004788001152 N-terminal domain interface [polypeptide binding]; other site 1004788001153 active site 1004788001154 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1004788001155 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1004788001156 tetramer interface [polypeptide binding]; other site 1004788001157 heme binding pocket [chemical binding]; other site 1004788001158 NADPH binding site [chemical binding]; other site 1004788001159 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788001160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788001161 WHG domain; Region: WHG; pfam13305 1004788001162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1004788001163 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1004788001164 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1004788001165 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788001166 PAS domain; Region: PAS; smart00091 1004788001167 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 1004788001168 N-acetylglutamate synthase; Validated; Region: PRK05279 1004788001169 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1004788001170 putative feedback inhibition sensing region; other site 1004788001171 putative nucleotide binding site [chemical binding]; other site 1004788001172 putative substrate binding site [chemical binding]; other site 1004788001173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788001174 Coenzyme A binding pocket [chemical binding]; other site 1004788001175 argininosuccinate lyase; Provisional; Region: PRK04833 1004788001176 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1004788001177 active sites [active] 1004788001178 tetramer interface [polypeptide binding]; other site 1004788001179 argininosuccinate synthase; Provisional; Region: PRK13820 1004788001180 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 1004788001181 ANP binding site [chemical binding]; other site 1004788001182 Substrate Binding Site II [chemical binding]; other site 1004788001183 Substrate Binding Site I [chemical binding]; other site 1004788001184 potential frameshift: common BLAST hit: gi|332139940|ref|YP_004425678.1| ornithine carbamoyltransferase 1004788001185 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 1004788001186 nucleotide binding site [chemical binding]; other site 1004788001187 substrate binding site [chemical binding]; other site 1004788001188 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1004788001189 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004788001190 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 1004788001191 active site 1004788001192 dimer interfaces [polypeptide binding]; other site 1004788001193 catalytic residues [active] 1004788001194 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1004788001195 Flagellar L-ring protein; Region: FlgH; pfam02107 1004788001196 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1004788001197 dimer interface [polypeptide binding]; other site 1004788001198 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1004788001199 dimer interface [polypeptide binding]; other site 1004788001200 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788001201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001202 active site 1004788001203 phosphorylation site [posttranslational modification] 1004788001204 intermolecular recognition site; other site 1004788001205 dimerization interface [polypeptide binding]; other site 1004788001206 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 1004788001207 DNA binding site [nucleotide binding] 1004788001208 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 1004788001209 dimerization interface [polypeptide binding]; other site 1004788001210 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 1004788001211 dimer interface [polypeptide binding]; other site 1004788001212 phosphorylation site [posttranslational modification] 1004788001213 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 1004788001214 ATP binding site [chemical binding]; other site 1004788001215 Mg2+ binding site [ion binding]; other site 1004788001216 G-X-G motif; other site 1004788001217 lysophospholipase L2; Provisional; Region: PRK10749 1004788001218 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788001219 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004788001220 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788001221 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788001222 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788001223 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1004788001224 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004788001225 Walker A/P-loop; other site 1004788001226 ATP binding site [chemical binding]; other site 1004788001227 Q-loop/lid; other site 1004788001228 ABC transporter signature motif; other site 1004788001229 Walker B; other site 1004788001230 D-loop; other site 1004788001231 H-loop/switch region; other site 1004788001232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004788001233 FtsX-like permease family; Region: FtsX; pfam02687 1004788001234 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1004788001235 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1004788001236 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1004788001237 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1004788001238 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 1004788001239 SecA binding site; other site 1004788001240 Preprotein binding site; other site 1004788001241 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 1004788001242 GSH binding site [chemical binding]; other site 1004788001243 catalytic residues [active] 1004788001244 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 1004788001245 active site residue [active] 1004788001246 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1004788001247 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788001248 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1004788001249 NodB motif; other site 1004788001250 putative active site [active] 1004788001251 putative catalytic site [active] 1004788001252 Zn binding site [ion binding]; other site 1004788001253 MerC mercury resistance protein; Region: MerC; pfam03203 1004788001254 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1004788001255 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1004788001256 active site 1004788001257 catalytic site [active] 1004788001258 metal binding site [ion binding]; metal-binding site 1004788001259 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004788001260 EamA-like transporter family; Region: EamA; pfam00892 1004788001261 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1004788001262 GTPase RsgA; Reviewed; Region: PRK12288 1004788001263 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 1004788001264 RNA binding site [nucleotide binding]; other site 1004788001265 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1004788001266 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1004788001267 GTP/Mg2+ binding site [chemical binding]; other site 1004788001268 G4 box; other site 1004788001269 G5 box; other site 1004788001270 G1 box; other site 1004788001271 Switch I region; other site 1004788001272 G2 box; other site 1004788001273 G3 box; other site 1004788001274 Switch II region; other site 1004788001275 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1004788001276 catalytic site [active] 1004788001277 putative active site [active] 1004788001278 putative substrate binding site [chemical binding]; other site 1004788001279 dimer interface [polypeptide binding]; other site 1004788001280 potential protein location (hypothetical protein AMEC673_02015 [Alteromonas macleodii str. 'English Channel 673']) that overlaps RNA (tRNA-G) 1004788001281 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788001282 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 1004788001283 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788001284 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 1004788001285 CoenzymeA binding site [chemical binding]; other site 1004788001286 subunit interaction site [polypeptide binding]; other site 1004788001287 PHB binding site; other site 1004788001288 hypothetical protein; Provisional; Region: PRK11027 1004788001289 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1004788001290 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1004788001291 PYR/PP interface [polypeptide binding]; other site 1004788001292 dimer interface [polypeptide binding]; other site 1004788001293 TPP binding site [chemical binding]; other site 1004788001294 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1004788001295 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 1004788001296 TPP-binding site [chemical binding]; other site 1004788001297 dimer interface [polypeptide binding]; other site 1004788001298 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1004788001299 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1004788001300 putative valine binding site [chemical binding]; other site 1004788001301 dimer interface [polypeptide binding]; other site 1004788001302 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1004788001303 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1004788001304 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 1004788001305 active site 1004788001306 hypothetical protein; Provisional; Region: PRK11588 1004788001307 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1004788001308 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 1004788001309 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 1004788001310 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 1004788001311 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1004788001312 proposed catalytic triad [active] 1004788001313 active site nucleophile [active] 1004788001314 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1004788001315 sec-independent translocase; Provisional; Region: PRK01770 1004788001316 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1004788001317 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004788001318 active site 1004788001319 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004788001320 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788001321 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788001322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788001323 metal binding site [ion binding]; metal-binding site 1004788001324 active site 1004788001325 I-site; other site 1004788001326 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 1004788001327 dimer interface [polypeptide binding]; other site 1004788001328 allosteric magnesium binding site [ion binding]; other site 1004788001329 active site 1004788001330 aspartate-rich active site metal binding site; other site 1004788001331 Schiff base residues; other site 1004788001332 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1004788001333 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1004788001334 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1004788001335 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 1004788001336 ATP binding site [chemical binding]; other site 1004788001337 Mg++ binding site [ion binding]; other site 1004788001338 motif III; other site 1004788001339 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 1004788001340 nucleotide binding region [chemical binding]; other site 1004788001341 ATP-binding site [chemical binding]; other site 1004788001342 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 1004788001343 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788001344 catalytic residues [active] 1004788001345 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1004788001346 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1004788001347 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 1004788001348 RNA binding site [nucleotide binding]; other site 1004788001349 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 1004788001350 multimer interface [polypeptide binding]; other site 1004788001351 Walker A motif; other site 1004788001352 ATP binding site [chemical binding]; other site 1004788001353 Walker B motif; other site 1004788001354 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1004788001355 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1004788001356 metal binding site [ion binding]; metal-binding site 1004788001357 putative dimer interface [polypeptide binding]; other site 1004788001358 Cache domain; Region: Cache_1; pfam02743 1004788001359 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 1004788001360 dimer interface [polypeptide binding]; other site 1004788001361 phosphorylation site [posttranslational modification] 1004788001362 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 1004788001363 ATP binding site [chemical binding]; other site 1004788001364 Mg2+ binding site [ion binding]; other site 1004788001365 G-X-G motif; other site 1004788001366 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788001367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001368 active site 1004788001369 phosphorylation site [posttranslational modification] 1004788001370 intermolecular recognition site; other site 1004788001371 dimerization interface [polypeptide binding]; other site 1004788001372 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1004788001373 AIR carboxylase; Region: AIRC; pfam00731 1004788001374 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1004788001375 ATP-grasp domain; Region: ATP-grasp; pfam02222 1004788001376 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1004788001377 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1004788001378 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1004788001379 dimerization interface [polypeptide binding]; other site 1004788001380 DPS ferroxidase diiron center [ion binding]; other site 1004788001381 ion pore; other site 1004788001382 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004788001383 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004788001384 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004788001385 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788001386 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788001387 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1004788001388 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1004788001389 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 1004788001390 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 1004788001391 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1004788001392 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1004788001393 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 1004788001394 GDP-binding site [chemical binding]; other site 1004788001395 ACT binding site; other site 1004788001396 IMP binding site; other site 1004788001397 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1004788001398 NAD(P) binding site [chemical binding]; other site 1004788001399 catalytic residues [active] 1004788001400 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 1004788001401 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788001402 putative metal binding site [ion binding]; other site 1004788001403 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004788001404 LabA_like proteins; Region: LabA; cd10911 1004788001405 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1004788001406 putative metal binding site [ion binding]; other site 1004788001407 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004788001408 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004788001409 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1004788001410 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1004788001411 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004788001412 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788001413 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788001414 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 1004788001415 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1004788001416 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 1004788001417 putative active site [active] 1004788001418 alanine racemase; Reviewed; Region: alr; PRK00053 1004788001419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1004788001420 active site 1004788001421 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004788001422 substrate binding site [chemical binding]; other site 1004788001423 catalytic residues [active] 1004788001424 dimer interface [polypeptide binding]; other site 1004788001425 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1004788001426 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1004788001427 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1004788001428 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 1004788001429 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788001430 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 1004788001431 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1004788001432 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 1004788001433 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788001434 substrate binding pocket [chemical binding]; other site 1004788001435 membrane-bound complex binding site; other site 1004788001436 hinge residues; other site 1004788001437 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1004788001438 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1004788001439 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1004788001440 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 1004788001441 dimer interface [polypeptide binding]; other site 1004788001442 active site 1004788001443 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1004788001444 folate binding site [chemical binding]; other site 1004788001445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788001446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788001447 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 1004788001448 dimerization interface [polypeptide binding]; other site 1004788001449 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1004788001450 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1004788001451 PhnA protein; Region: PhnA; pfam03831 1004788001452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788001453 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788001454 Coenzyme A binding pocket [chemical binding]; other site 1004788001455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788001456 Coenzyme A binding pocket [chemical binding]; other site 1004788001457 hypothetical protein; Provisional; Region: PRK02237 1004788001458 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1004788001459 potential frameshift: common BLAST hit: gi|333894552|ref|YP_004468427.1| integrase 1004788001460 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1004788001461 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 1004788001462 dimer interface [polypeptide binding]; other site 1004788001463 active site 1004788001464 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1004788001465 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 1004788001466 substrate binding site [chemical binding]; other site 1004788001467 oxyanion hole (OAH) forming residues; other site 1004788001468 trimer interface [polypeptide binding]; other site 1004788001469 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004788001470 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004788001471 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004788001472 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004788001473 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 1004788001474 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788001475 catalytic residue [active] 1004788001476 proline dipeptidase; Provisional; Region: PRK13607 1004788001477 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 1004788001478 active site 1004788001479 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1004788001480 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1004788001481 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1004788001482 substrate binding pocket [chemical binding]; other site 1004788001483 chain length determination region; other site 1004788001484 substrate-Mg2+ binding site; other site 1004788001485 catalytic residues [active] 1004788001486 aspartate-rich region 1; other site 1004788001487 active site lid residues [active] 1004788001488 aspartate-rich region 2; other site 1004788001489 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1004788001490 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1004788001491 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1004788001492 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1004788001493 GTP1/OBG; Region: GTP1_OBG; pfam01018 1004788001494 Obg GTPase; Region: Obg; cd01898 1004788001495 G1 box; other site 1004788001496 GTP/Mg2+ binding site [chemical binding]; other site 1004788001497 Switch I region; other site 1004788001498 G2 box; other site 1004788001499 G3 box; other site 1004788001500 Switch II region; other site 1004788001501 G4 box; other site 1004788001502 G5 box; other site 1004788001503 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 1004788001504 active site 1004788001505 catalytic residues [active] 1004788001506 DNA binding site [nucleotide binding] 1004788001507 Int/Topo IB signature motif; other site 1004788001508 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 1004788001509 AAA domain; Region: AAA_18; pfam13238 1004788001510 AAA domain; Region: AAA_17; pfam13207 1004788001511 SIR2-like domain; Region: SIR2_2; pfam13289 1004788001512 Abortive infection C-terminus; Region: Abi_C; pfam14355 1004788001513 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1004788001514 hypothetical protein; Provisional; Region: PRK09272 1004788001515 Penicillinase repressor; Region: Pencillinase_R; cl17580 1004788001516 Peptidase family M48; Region: Peptidase_M48; cl12018 1004788001517 Outer membrane efflux protein; Region: OEP; pfam02321 1004788001518 Outer membrane efflux protein; Region: OEP; pfam02321 1004788001519 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 1004788001520 E3 interaction surface; other site 1004788001521 lipoyl attachment site [posttranslational modification]; other site 1004788001522 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788001523 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1004788001524 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1004788001525 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 1004788001526 active site 1004788001527 substrate binding sites [chemical binding]; other site 1004788001528 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 1004788001529 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1004788001530 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1004788001531 Beta protein; Region: Beta_protein; pfam14350 1004788001532 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 1004788001533 Catalytic site [active] 1004788001534 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 1004788001535 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1004788001536 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 1004788001537 folate binding site [chemical binding]; other site 1004788001538 NADP+ binding site [chemical binding]; other site 1004788001539 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1004788001540 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1004788001541 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788001542 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1004788001543 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 1004788001544 DNA binding residues [nucleotide binding] 1004788001545 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1004788001546 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788001547 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788001548 Predicted membrane protein [Function unknown]; Region: COG1238 1004788001549 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1004788001550 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 1004788001551 S-adenosylmethionine binding site [chemical binding]; other site 1004788001552 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 1004788001553 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1004788001554 Permutation of conserved domain; other site 1004788001555 active site 1004788001556 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1004788001557 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 1004788001558 homotrimer interaction site [polypeptide binding]; other site 1004788001559 zinc binding site [ion binding]; other site 1004788001560 CDP-binding sites; other site 1004788001561 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1004788001562 substrate binding site; other site 1004788001563 dimer interface; other site 1004788001564 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1004788001565 Septum formation initiator; Region: DivIC; cl17659 1004788001566 TIGR03545 family protein; Region: TIGR03545 1004788001567 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 1004788001568 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 1004788001569 dimerization interface [polypeptide binding]; other site 1004788001570 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788001571 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788001572 dimer interface [polypeptide binding]; other site 1004788001573 putative CheW interface [polypeptide binding]; other site 1004788001574 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1004788001575 Proline dehydrogenase; Region: Pro_dh; pfam01619 1004788001576 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1004788001577 Glutamate binding site [chemical binding]; other site 1004788001578 NAD binding site [chemical binding]; other site 1004788001579 catalytic residues [active] 1004788001580 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1004788001581 Outer membrane efflux protein; Region: OEP; pfam02321 1004788001582 HlyD family secretion protein; Region: HlyD_2; pfam12700 1004788001583 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788001584 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788001585 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788001586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001587 active site 1004788001588 phosphorylation site [posttranslational modification] 1004788001589 intermolecular recognition site; other site 1004788001590 dimerization interface [polypeptide binding]; other site 1004788001591 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 1004788001592 DNA binding site [nucleotide binding] 1004788001593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788001594 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 1004788001595 dimer interface [polypeptide binding]; other site 1004788001596 phosphorylation site [posttranslational modification] 1004788001597 VirK protein; Region: VirK; pfam06903 1004788001598 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1004788001599 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1004788001600 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1004788001601 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1004788001602 putative active site [active] 1004788001603 putative metal binding residues [ion binding]; other site 1004788001604 signature motif; other site 1004788001605 putative triphosphate binding site [ion binding]; other site 1004788001606 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004788001607 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 1004788001608 putative DNA-binding cleft [nucleotide binding]; other site 1004788001609 putative DNA clevage site; other site 1004788001610 molecular lever; other site 1004788001611 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 1004788001612 putative active site [active] 1004788001613 Ap4A binding site [chemical binding]; other site 1004788001614 nudix motif; other site 1004788001615 putative metal binding site [ion binding]; other site 1004788001616 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1004788001617 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004788001618 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1004788001619 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1004788001620 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1004788001621 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004788001622 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1004788001623 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1004788001624 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 1004788001625 dimerization interface [polypeptide binding]; other site 1004788001626 active site 1004788001627 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788001628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001629 active site 1004788001630 phosphorylation site [posttranslational modification] 1004788001631 intermolecular recognition site; other site 1004788001632 dimerization interface [polypeptide binding]; other site 1004788001633 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1004788001634 PAS domain; Region: PAS_9; pfam13426 1004788001635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788001636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788001637 metal binding site [ion binding]; metal-binding site 1004788001638 active site 1004788001639 I-site; other site 1004788001640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788001641 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 1004788001642 dimer interface [polypeptide binding]; other site 1004788001643 phosphorylation site [posttranslational modification] 1004788001644 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 1004788001645 ATP binding site [chemical binding]; other site 1004788001646 Mg2+ binding site [ion binding]; other site 1004788001647 G-X-G motif; other site 1004788001648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001649 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788001650 active site 1004788001651 phosphorylation site [posttranslational modification] 1004788001652 intermolecular recognition site; other site 1004788001653 dimerization interface [polypeptide binding]; other site 1004788001654 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788001655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001656 active site 1004788001657 phosphorylation site [posttranslational modification] 1004788001658 intermolecular recognition site; other site 1004788001659 dimerization interface [polypeptide binding]; other site 1004788001660 muropeptide transporter; Validated; Region: ampG; cl17669 1004788001661 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1004788001662 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1004788001663 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004788001664 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004788001665 active site 1004788001666 ATP-dependent helicase HepA; Validated; Region: PRK04914 1004788001667 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 1004788001668 ATP binding site [chemical binding]; other site 1004788001669 putative Mg++ binding site [ion binding]; other site 1004788001670 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 1004788001671 nucleotide binding region [chemical binding]; other site 1004788001672 ATP-binding site [chemical binding]; other site 1004788001673 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1004788001674 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 1004788001675 non-specific DNA binding site [nucleotide binding]; other site 1004788001676 salt bridge; other site 1004788001677 sequence-specific DNA binding site [nucleotide binding]; other site 1004788001678 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1004788001679 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004788001680 Zn binding site [ion binding]; other site 1004788001681 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1004788001682 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1004788001683 putative active site [active] 1004788001684 PhoH-like protein; Region: PhoH; pfam02562 1004788001685 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 1004788001686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788001687 DNA-binding site [nucleotide binding]; DNA binding site 1004788001688 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 1004788001689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788001690 homodimer interface [polypeptide binding]; other site 1004788001691 catalytic residue [active] 1004788001692 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1004788001693 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 1004788001694 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1004788001695 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788001696 siroheme synthase; Provisional; Region: cysG; PRK10637 1004788001697 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1004788001698 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1004788001699 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1004788001700 active site 1004788001701 SAM binding site [chemical binding]; other site 1004788001702 homodimer interface [polypeptide binding]; other site 1004788001703 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1004788001704 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 1004788001705 ATP binding site [chemical binding]; other site 1004788001706 Mg++ binding site [ion binding]; other site 1004788001707 motif III; other site 1004788001708 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 1004788001709 nucleotide binding region [chemical binding]; other site 1004788001710 ATP-binding site [chemical binding]; other site 1004788001711 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1004788001712 putative RNA binding site [nucleotide binding]; other site 1004788001713 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1004788001714 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 1004788001715 binding surface 1004788001716 TPR motif; other site 1004788001717 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 1004788001718 TPR motif; other site 1004788001719 binding surface 1004788001720 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 1004788001721 binding surface 1004788001722 TPR motif; other site 1004788001723 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 1004788001724 binding surface 1004788001725 TPR motif; other site 1004788001726 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 1004788001727 TPR motif; other site 1004788001728 binding surface 1004788001729 Ion transport protein; Region: Ion_trans; pfam00520 1004788001730 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1004788001731 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1004788001732 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 1004788001733 dimer interface [polypeptide binding]; other site 1004788001734 ADP-ribose binding site [chemical binding]; other site 1004788001735 active site 1004788001736 nudix motif; other site 1004788001737 metal binding site [ion binding]; metal-binding site 1004788001738 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1004788001739 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1004788001740 active site 1004788001741 metal binding site [ion binding]; metal-binding site 1004788001742 hexamer interface [polypeptide binding]; other site 1004788001743 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004788001744 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1004788001745 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788001746 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1004788001747 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 1004788001748 ATP binding site [chemical binding]; other site 1004788001749 Mg2+ binding site [ion binding]; other site 1004788001750 G-X-G motif; other site 1004788001751 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 1004788001752 anchoring element; other site 1004788001753 dimer interface [polypeptide binding]; other site 1004788001754 ATP binding site [chemical binding]; other site 1004788001755 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 1004788001756 active site 1004788001757 metal binding site [ion binding]; metal-binding site 1004788001758 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1004788001759 Predicted ATPase [General function prediction only]; Region: COG5293 1004788001760 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1004788001761 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1004788001762 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 1004788001763 motif II; other site 1004788001764 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 1004788001765 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1004788001766 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 1004788001767 FeS/SAM binding site; other site 1004788001768 elongation factor P; Validated; Region: PRK00529 1004788001769 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1004788001770 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 1004788001771 RNA binding site [nucleotide binding]; other site 1004788001772 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 1004788001773 RNA binding site [nucleotide binding]; other site 1004788001774 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 1004788001775 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1004788001776 motif 1; other site 1004788001777 dimer interface [polypeptide binding]; other site 1004788001778 active site 1004788001779 motif 2; other site 1004788001780 motif 3; other site 1004788001781 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004788001782 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788001783 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 1004788001784 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788001785 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788001786 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004788001787 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1004788001788 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 1004788001789 active site 1004788001790 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1004788001791 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 1004788001792 S-adenosylmethionine binding site [chemical binding]; other site 1004788001793 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 1004788001794 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1004788001795 BolA-like protein; Region: BolA; cl00386 1004788001796 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 1004788001797 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1004788001798 active site 1004788001799 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1004788001800 Nitrate and nitrite sensing; Region: NIT; pfam08376 1004788001801 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1004788001802 ANTAR domain; Region: ANTAR; pfam03861 1004788001803 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1004788001804 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1004788001805 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 1004788001806 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1004788001807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788001808 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788001809 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1004788001810 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1004788001811 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004788001812 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 1004788001813 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1004788001814 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 1004788001815 [4Fe-4S] binding site [ion binding]; other site 1004788001816 molybdopterin cofactor binding site; other site 1004788001817 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 1004788001818 molybdopterin cofactor binding site; other site 1004788001819 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1004788001820 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1004788001821 active site 1004788001822 SAM binding site [chemical binding]; other site 1004788001823 homodimer interface [polypeptide binding]; other site 1004788001824 hypothetical protein; Validated; Region: PRK09071 1004788001825 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1004788001826 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1004788001827 active site 1004788001828 metal binding site [ion binding]; metal-binding site 1004788001829 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1004788001830 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788001831 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788001832 metal binding site [ion binding]; metal-binding site 1004788001833 active site 1004788001834 I-site; other site 1004788001835 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 1004788001836 PAS domain; Region: PAS_9; pfam13426 1004788001837 putative active site [active] 1004788001838 heme pocket [chemical binding]; other site 1004788001839 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 1004788001840 PAS domain; Region: PAS_9; pfam13426 1004788001841 putative active site [active] 1004788001842 heme pocket [chemical binding]; other site 1004788001843 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788001844 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788001845 dimer interface [polypeptide binding]; other site 1004788001846 putative CheW interface [polypeptide binding]; other site 1004788001847 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1004788001848 NMT1-like family; Region: NMT1_2; pfam13379 1004788001849 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1004788001850 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 1004788001851 dimer interface [polypeptide binding]; other site 1004788001852 conserved gate region; other site 1004788001853 putative PBP binding loops; other site 1004788001854 ABC-ATPase subunit interface; other site 1004788001855 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1004788001856 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1004788001857 Walker A/P-loop; other site 1004788001858 ATP binding site [chemical binding]; other site 1004788001859 Q-loop/lid; other site 1004788001860 ABC transporter signature motif; other site 1004788001861 Walker B; other site 1004788001862 D-loop; other site 1004788001863 H-loop/switch region; other site 1004788001864 HD domain; Region: HD_3; pfam13023 1004788001865 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 1004788001866 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1004788001867 catalytic residues [active] 1004788001868 hinge region; other site 1004788001869 alpha helical domain; other site 1004788001870 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1004788001871 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 1004788001872 N-terminal plug; other site 1004788001873 ligand-binding site [chemical binding]; other site 1004788001874 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1004788001875 serine/threonine protein kinase; Provisional; Region: PRK11768 1004788001876 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1004788001877 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1004788001878 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 1004788001879 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1004788001880 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1004788001881 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004788001882 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004788001883 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788001884 active site 1004788001885 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004788001886 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1004788001887 classical (c) SDRs; Region: SDR_c; cd05233 1004788001888 NAD(P) binding site [chemical binding]; other site 1004788001889 active site 1004788001890 Amidohydrolase; Region: Amidohydro_2; pfam04909 1004788001891 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1004788001892 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1004788001893 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 1004788001894 active site pocket [active] 1004788001895 aldolase II superfamily protein; Provisional; Region: PRK07044 1004788001896 active site 1004788001897 intersubunit interface [polypeptide binding]; other site 1004788001898 Zn2+ binding site [ion binding]; other site 1004788001899 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 1004788001900 nudix motif; other site 1004788001901 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788001902 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788001903 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788001904 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788001905 Protein export membrane protein; Region: SecD_SecF; cl14618 1004788001906 Protein export membrane protein; Region: SecD_SecF; cl14618 1004788001907 PBP superfamily domain; Region: PBP_like_2; cl17296 1004788001908 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1004788001909 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 1004788001910 dimerization interface [polypeptide binding]; other site 1004788001911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788001912 dimer interface [polypeptide binding]; other site 1004788001913 putative CheW interface [polypeptide binding]; other site 1004788001914 potential frameshift: common BLAST hit: gi|333894440|ref|YP_004468315.1| RNA polymerase sigma factor 1004788001915 DNA primase; Validated; Region: dnaG; PRK05667 1004788001916 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1004788001917 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1004788001918 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 1004788001919 active site 1004788001920 metal binding site [ion binding]; metal-binding site 1004788001921 interdomain interaction site; other site 1004788001922 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1004788001923 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1004788001924 Yqey-like protein; Region: YqeY; pfam09424 1004788001925 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1004788001926 UGMP family protein; Validated; Region: PRK09604 1004788001927 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1004788001928 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1004788001929 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1004788001930 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1004788001931 Dihydroneopterin aldolase; Region: FolB; pfam02152 1004788001932 active site 1004788001933 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 1004788001934 catalytic center binding site [active] 1004788001935 ATP binding site [chemical binding]; other site 1004788001936 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1004788001937 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 1004788001938 nucleotide binding site/active site [active] 1004788001939 HIT family signature motif; other site 1004788001940 catalytic residue [active] 1004788001941 Nudix hydrolase homolog; Region: PLN02791 1004788001942 HDOD domain; Region: HDOD; pfam08668 1004788001943 Benzoate membrane transport protein; Region: BenE; pfam03594 1004788001944 benzoate transporter; Region: benE; TIGR00843 1004788001945 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1004788001946 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 1004788001947 non-specific DNA binding site [nucleotide binding]; other site 1004788001948 salt bridge; other site 1004788001949 sequence-specific DNA binding site [nucleotide binding]; other site 1004788001950 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1004788001951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788001952 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 1004788001953 ATP binding site [chemical binding]; other site 1004788001954 Mg2+ binding site [ion binding]; other site 1004788001955 G-X-G motif; other site 1004788001956 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1004788001957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001958 active site 1004788001959 phosphorylation site [posttranslational modification] 1004788001960 intermolecular recognition site; other site 1004788001961 dimerization interface [polypeptide binding]; other site 1004788001962 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 1004788001963 DNA binding site [nucleotide binding] 1004788001964 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1004788001965 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1004788001966 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 1004788001967 dimer interface [polypeptide binding]; other site 1004788001968 phosphorylation site [posttranslational modification] 1004788001969 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 1004788001970 ATP binding site [chemical binding]; other site 1004788001971 Mg2+ binding site [ion binding]; other site 1004788001972 G-X-G motif; other site 1004788001973 PBP superfamily domain; Region: PBP_like_2; cl17296 1004788001974 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1004788001975 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 1004788001976 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 1004788001977 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004788001978 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004788001979 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004788001980 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004788001981 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004788001982 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004788001983 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788001984 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 1004788001985 TPR motif; other site 1004788001986 binding surface 1004788001987 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004788001988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788001989 active site 1004788001990 phosphorylation site [posttranslational modification] 1004788001991 intermolecular recognition site; other site 1004788001992 dimerization interface [polypeptide binding]; other site 1004788001993 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788001994 Zn2+ binding site [ion binding]; other site 1004788001995 Mg2+ binding site [ion binding]; other site 1004788001996 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 1004788001997 PAS domain; Region: PAS_9; pfam13426 1004788001998 putative active site [active] 1004788001999 heme pocket [chemical binding]; other site 1004788002000 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1004788002001 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 1004788002002 putative active site [active] 1004788002003 heme pocket [chemical binding]; other site 1004788002004 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 1004788002005 dimer interface [polypeptide binding]; other site 1004788002006 phosphorylation site [posttranslational modification] 1004788002007 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 1004788002008 ATP binding site [chemical binding]; other site 1004788002009 Mg2+ binding site [ion binding]; other site 1004788002010 G-X-G motif; other site 1004788002011 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788002012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002013 active site 1004788002014 phosphorylation site [posttranslational modification] 1004788002015 intermolecular recognition site; other site 1004788002016 dimerization interface [polypeptide binding]; other site 1004788002017 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1004788002018 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1004788002019 acyl-activating enzyme (AAE) consensus motif; other site 1004788002020 putative AMP binding site [chemical binding]; other site 1004788002021 putative active site [active] 1004788002022 putative CoA binding site [chemical binding]; other site 1004788002023 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004788002024 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004788002025 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1004788002026 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 1004788002027 substrate binding site [chemical binding]; other site 1004788002028 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1004788002029 substrate binding site [chemical binding]; other site 1004788002030 ligand binding site [chemical binding]; other site 1004788002031 Carbon starvation protein CstA; Region: CstA; pfam02554 1004788002032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788002033 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 1004788002034 dimer interface [polypeptide binding]; other site 1004788002035 phosphorylation site [posttranslational modification] 1004788002036 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 1004788002037 ATP binding site [chemical binding]; other site 1004788002038 Mg2+ binding site [ion binding]; other site 1004788002039 G-X-G motif; other site 1004788002040 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788002041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002042 active site 1004788002043 phosphorylation site [posttranslational modification] 1004788002044 intermolecular recognition site; other site 1004788002045 dimerization interface [polypeptide binding]; other site 1004788002046 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1004788002047 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 1004788002048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004788002049 binding surface 1004788002050 TPR motif; other site 1004788002051 DNA ligase; Provisional; Region: PRK09125 1004788002052 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1004788002053 DNA binding site [nucleotide binding] 1004788002054 active site 1004788002055 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 1004788002056 DNA binding site [nucleotide binding] 1004788002057 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1004788002058 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 1004788002059 substrate binding site [chemical binding]; other site 1004788002060 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1004788002061 substrate binding site [chemical binding]; other site 1004788002062 ligand binding site [chemical binding]; other site 1004788002063 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1004788002064 aspartate kinase III; Validated; Region: PRK09084 1004788002065 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 1004788002066 nucleotide binding site [chemical binding]; other site 1004788002067 substrate binding site [chemical binding]; other site 1004788002068 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1004788002069 lysine allosteric regulatory site; other site 1004788002070 dimer interface [polypeptide binding]; other site 1004788002071 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1004788002072 dimer interface [polypeptide binding]; other site 1004788002073 SOUL heme-binding protein; Region: SOUL; pfam04832 1004788002074 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1004788002075 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 1004788002076 dimerization interface [polypeptide binding]; other site 1004788002077 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788002078 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788002079 dimer interface [polypeptide binding]; other site 1004788002080 putative CheW interface [polypeptide binding]; other site 1004788002081 potential frameshift: common BLAST hit: gi|332140202|ref|YP_004425940.1| diadenosine tetraphosphatase 1004788002082 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1004788002083 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1004788002084 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1004788002085 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1004788002086 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1004788002087 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1004788002088 SurA N-terminal domain; Region: SurA_N; pfam09312 1004788002089 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1004788002090 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1004788002091 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1004788002092 OstA-like protein; Region: OstA; cl00844 1004788002093 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1004788002094 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1004788002095 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1004788002096 putative metal binding site [ion binding]; other site 1004788002097 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 1004788002098 HSP70 interaction site [polypeptide binding]; other site 1004788002099 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1004788002100 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1004788002101 active site 1004788002102 Int/Topo IB signature motif; other site 1004788002103 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 1004788002104 dimerization domain [polypeptide binding]; other site 1004788002105 dimer interface [polypeptide binding]; other site 1004788002106 catalytic residues [active] 1004788002107 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1004788002108 DHH family; Region: DHH; pfam01368 1004788002109 DHHA1 domain; Region: DHHA1; pfam02272 1004788002110 Recombination protein O N terminal; Region: RecO_N; pfam11967 1004788002111 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1004788002112 Recombination protein O C terminal; Region: RecO_C; pfam02565 1004788002113 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 1004788002114 active site 1004788002115 hydrophilic channel; other site 1004788002116 dimerization interface [polypeptide binding]; other site 1004788002117 catalytic residues [active] 1004788002118 active site lid [active] 1004788002119 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1004788002120 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1004788002121 TRAM domain; Region: TRAM; cl01282 1004788002122 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 1004788002123 S-adenosylmethionine binding site [chemical binding]; other site 1004788002124 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1004788002125 HD domain; Region: HD_4; pfam13328 1004788002126 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1004788002127 synthetase active site [active] 1004788002128 NTP binding site [chemical binding]; other site 1004788002129 metal binding site [ion binding]; metal-binding site 1004788002130 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 1004788002131 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1004788002132 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1004788002133 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 1004788002134 homodimer interface [polypeptide binding]; other site 1004788002135 metal binding site [ion binding]; metal-binding site 1004788002136 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 1004788002137 homodimer interface [polypeptide binding]; other site 1004788002138 active site 1004788002139 putative chemical substrate binding site [chemical binding]; other site 1004788002140 metal binding site [ion binding]; metal-binding site 1004788002141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1004788002142 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1004788002143 tetramerization interface [polypeptide binding]; other site 1004788002144 substrate binding pocket [chemical binding]; other site 1004788002145 catalytic residues [active] 1004788002146 inhibitor binding sites; inhibition site 1004788002147 NADP(H) binding site [chemical binding]; other site 1004788002148 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1004788002149 short chain dehydrogenase; Provisional; Region: PRK09072 1004788002150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788002151 NAD(P) binding site [chemical binding]; other site 1004788002152 active site 1004788002153 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1004788002154 heme binding pocket [chemical binding]; other site 1004788002155 heme ligand [chemical binding]; other site 1004788002156 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1004788002157 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1004788002158 acyl-activating enzyme (AAE) consensus motif; other site 1004788002159 putative AMP binding site [chemical binding]; other site 1004788002160 putative active site [active] 1004788002161 putative CoA binding site [chemical binding]; other site 1004788002162 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1004788002163 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1004788002164 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1004788002165 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004788002166 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1004788002167 Ligand binding site; other site 1004788002168 Putative Catalytic site; other site 1004788002169 DXD motif; other site 1004788002170 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1004788002171 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788002172 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 1004788002173 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 1004788002174 dimer interface [polypeptide binding]; other site 1004788002175 phosphorylation site [posttranslational modification] 1004788002176 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 1004788002177 ATP binding site [chemical binding]; other site 1004788002178 Mg2+ binding site [ion binding]; other site 1004788002179 G-X-G motif; other site 1004788002180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788002181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002182 active site 1004788002183 phosphorylation site [posttranslational modification] 1004788002184 intermolecular recognition site; other site 1004788002185 dimerization interface [polypeptide binding]; other site 1004788002186 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 1004788002187 DNA binding site [nucleotide binding] 1004788002188 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 1004788002189 23S rRNA interface [nucleotide binding]; other site 1004788002190 L3 interface [polypeptide binding]; other site 1004788002191 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1004788002192 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1004788002193 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1004788002194 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 1004788002195 [2Fe-2S] cluster binding site [ion binding]; other site 1004788002196 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1004788002197 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 1004788002198 Qi binding site; other site 1004788002199 intrachain domain interface; other site 1004788002200 interchain domain interface [polypeptide binding]; other site 1004788002201 heme bH binding site [chemical binding]; other site 1004788002202 heme bL binding site [chemical binding]; other site 1004788002203 Qo binding site; other site 1004788002204 interchain domain interface [polypeptide binding]; other site 1004788002205 intrachain domain interface; other site 1004788002206 Qi binding site; other site 1004788002207 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1004788002208 Qo binding site; other site 1004788002209 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1004788002210 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1004788002211 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 1004788002212 C-terminal domain interface [polypeptide binding]; other site 1004788002213 putative GSH binding site (G-site) [chemical binding]; other site 1004788002214 dimer interface [polypeptide binding]; other site 1004788002215 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1004788002216 dimer interface [polypeptide binding]; other site 1004788002217 N-terminal domain interface [polypeptide binding]; other site 1004788002218 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1004788002219 Spondin_N; Region: Spond_N; pfam06468 1004788002220 Spondin_N; Region: Spond_N; pfam06468 1004788002221 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788002222 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 1004788002223 DNA binding site [nucleotide binding] 1004788002224 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1004788002225 MgtE intracellular N domain; Region: MgtE_N; smart00924 1004788002226 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 1004788002227 Divalent cation transporter; Region: MgtE; pfam01769 1004788002228 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 1004788002229 dimerization domain swap beta strand [polypeptide binding]; other site 1004788002230 regulatory protein interface [polypeptide binding]; other site 1004788002231 active site 1004788002232 regulatory phosphorylation site [posttranslational modification]; other site 1004788002233 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1004788002234 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 1004788002235 active site 1004788002236 phosphorylation site [posttranslational modification] 1004788002237 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 1004788002238 30S subunit binding site; other site 1004788002239 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1004788002240 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1004788002241 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1004788002242 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1004788002243 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1004788002244 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1004788002245 Walker A/P-loop; other site 1004788002246 ATP binding site [chemical binding]; other site 1004788002247 Q-loop/lid; other site 1004788002248 ABC transporter signature motif; other site 1004788002249 Walker B; other site 1004788002250 D-loop; other site 1004788002251 H-loop/switch region; other site 1004788002252 OstA-like protein; Region: OstA; cl00844 1004788002253 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1004788002254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1004788002255 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1004788002256 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1004788002257 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1004788002258 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 1004788002259 putative active site [active] 1004788002260 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 1004788002261 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1004788002262 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004788002263 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004788002264 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1004788002265 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1004788002266 Walker A/P-loop; other site 1004788002267 ATP binding site [chemical binding]; other site 1004788002268 Q-loop/lid; other site 1004788002269 ABC transporter signature motif; other site 1004788002270 Walker B; other site 1004788002271 D-loop; other site 1004788002272 H-loop/switch region; other site 1004788002273 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1004788002274 conserved hypothetical integral membrane protein; Region: TIGR00056 1004788002275 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1004788002276 mce related protein; Region: MCE; pfam02470 1004788002277 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1004788002278 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 1004788002279 anti sigma factor interaction site; other site 1004788002280 regulatory phosphorylation site [posttranslational modification]; other site 1004788002281 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1004788002282 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1004788002283 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 1004788002284 hinge; other site 1004788002285 active site 1004788002286 serine endoprotease; Provisional; Region: PRK10898 1004788002287 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1004788002288 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 1004788002289 protein binding site [polypeptide binding]; other site 1004788002290 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1004788002291 Trypsin; Region: Trypsin; pfam00089 1004788002292 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 1004788002293 protein binding site [polypeptide binding]; other site 1004788002294 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 1004788002295 protein binding site [polypeptide binding]; other site 1004788002296 Predicted ATPase [General function prediction only]; Region: COG1485 1004788002297 hypothetical protein; Provisional; Region: PRK12378 1004788002298 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1004788002299 heme-binding site [chemical binding]; other site 1004788002300 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 1004788002301 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 1004788002302 dimer interface [polypeptide binding]; other site 1004788002303 FMN binding site [chemical binding]; other site 1004788002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1004788002305 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1004788002306 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1004788002307 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004788002308 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1004788002309 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004788002310 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1004788002311 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1004788002312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1004788002313 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004788002314 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1004788002315 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004788002316 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1004788002317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1004788002318 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004788002319 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1004788002320 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1004788002321 Protein export membrane protein; Region: SecD_SecF; pfam02355 1004788002322 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1004788002323 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1004788002324 TrkA-C domain; Region: TrkA_C; pfam02080 1004788002325 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788002326 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 1004788002327 EamA-like transporter family; Region: EamA; pfam00892 1004788002328 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004788002329 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 1004788002330 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788002331 substrate binding pocket [chemical binding]; other site 1004788002332 membrane-bound complex binding site; other site 1004788002333 hinge residues; other site 1004788002334 PAS fold; Region: PAS; pfam00989 1004788002335 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 1004788002336 putative active site [active] 1004788002337 heme pocket [chemical binding]; other site 1004788002338 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788002339 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 1004788002340 dimer interface [polypeptide binding]; other site 1004788002341 phosphorylation site [posttranslational modification] 1004788002342 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 1004788002343 ATP binding site [chemical binding]; other site 1004788002344 Mg2+ binding site [ion binding]; other site 1004788002345 G-X-G motif; other site 1004788002346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002347 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788002348 active site 1004788002349 phosphorylation site [posttranslational modification] 1004788002350 intermolecular recognition site; other site 1004788002351 dimerization interface [polypeptide binding]; other site 1004788002352 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1004788002353 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 1004788002354 putative ligand binding site [chemical binding]; other site 1004788002355 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1004788002356 active site 1004788002357 catalytic site [active] 1004788002358 substrate binding site [chemical binding]; other site 1004788002359 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1004788002360 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1004788002361 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1004788002362 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1004788002363 transketolase; Reviewed; Region: PRK12753 1004788002364 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 1004788002365 TPP-binding site [chemical binding]; other site 1004788002366 dimer interface [polypeptide binding]; other site 1004788002367 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 1004788002368 PYR/PP interface [polypeptide binding]; other site 1004788002369 dimer interface [polypeptide binding]; other site 1004788002370 TPP binding site [chemical binding]; other site 1004788002371 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004788002372 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1004788002373 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004788002374 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004788002375 Phosphoglycerate kinase; Region: PGK; pfam00162 1004788002376 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 1004788002377 substrate binding site [chemical binding]; other site 1004788002378 hinge regions; other site 1004788002379 ADP binding site [chemical binding]; other site 1004788002380 catalytic site [active] 1004788002381 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1004788002382 catalytic residue [active] 1004788002383 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1004788002384 putative metal dependent hydrolase; Provisional; Region: PRK11598 1004788002385 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1004788002386 Sulfatase; Region: Sulfatase; pfam00884 1004788002387 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788002388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002389 active site 1004788002390 phosphorylation site [posttranslational modification] 1004788002391 intermolecular recognition site; other site 1004788002392 dimerization interface [polypeptide binding]; other site 1004788002393 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 1004788002394 DNA binding site [nucleotide binding] 1004788002395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788002396 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 1004788002397 dimer interface [polypeptide binding]; other site 1004788002398 phosphorylation site [posttranslational modification] 1004788002399 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 1004788002400 ATP binding site [chemical binding]; other site 1004788002401 Mg2+ binding site [ion binding]; other site 1004788002402 G-X-G motif; other site 1004788002403 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788002404 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788002405 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788002406 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1004788002407 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004788002408 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788002409 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788002410 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788002411 exopolyphosphatase; Provisional; Region: PRK10854 1004788002412 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1004788002413 nucleotide binding site [chemical binding]; other site 1004788002414 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1004788002415 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1004788002416 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1004788002417 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1004788002418 domain interface [polypeptide binding]; other site 1004788002419 active site 1004788002420 catalytic site [active] 1004788002421 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1004788002422 domain interface [polypeptide binding]; other site 1004788002423 active site 1004788002424 catalytic site [active] 1004788002425 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1004788002426 ACT domain; Region: ACT_6; pfam13740 1004788002427 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1004788002428 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1004788002429 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 1004788002430 dimer interface [polypeptide binding]; other site 1004788002431 conserved gate region; other site 1004788002432 putative PBP binding loops; other site 1004788002433 ABC-ATPase subunit interface; other site 1004788002434 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1004788002435 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 1004788002436 dimer interface [polypeptide binding]; other site 1004788002437 conserved gate region; other site 1004788002438 putative PBP binding loops; other site 1004788002439 ABC-ATPase subunit interface; other site 1004788002440 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1004788002441 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1004788002442 Walker A/P-loop; other site 1004788002443 ATP binding site [chemical binding]; other site 1004788002444 Q-loop/lid; other site 1004788002445 ABC transporter signature motif; other site 1004788002446 Walker B; other site 1004788002447 D-loop; other site 1004788002448 H-loop/switch region; other site 1004788002449 transcriptional regulator PhoU; Provisional; Region: PRK11115 1004788002450 PhoU domain; Region: PhoU; pfam01895 1004788002451 PhoU domain; Region: PhoU; pfam01895 1004788002452 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1004788002453 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1004788002454 universal stress protein UspE; Provisional; Region: PRK11175 1004788002455 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 1004788002456 Ligand Binding Site [chemical binding]; other site 1004788002457 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 1004788002458 Ligand Binding Site [chemical binding]; other site 1004788002459 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1004788002460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788002461 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 1004788002462 dimerization interface [polypeptide binding]; other site 1004788002463 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004788002464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788002465 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 1004788002466 DNA binding residues [nucleotide binding] 1004788002467 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 1004788002468 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 1004788002469 catalytic residues [active] 1004788002470 active site 1004788002471 Haemolysin-III related; Region: HlyIII; cl03831 1004788002472 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1004788002473 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004788002474 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1004788002475 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1004788002476 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 1004788002477 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 1004788002478 active site 1004788002479 Zn binding site [ion binding]; other site 1004788002480 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 1004788002481 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 1004788002482 putative catalytic residues [active] 1004788002483 hypothetical protein; Provisional; Region: PRK11568 1004788002484 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1004788002485 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1004788002486 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788002487 PAS domain; Region: PAS_9; pfam13426 1004788002488 PAS domain; Region: PAS_9; pfam13426 1004788002489 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 1004788002490 putative active site [active] 1004788002491 heme pocket [chemical binding]; other site 1004788002492 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788002493 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788002494 dimer interface [polypeptide binding]; other site 1004788002495 putative CheW interface [polypeptide binding]; other site 1004788002496 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 1004788002497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788002498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788002499 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 1004788002500 putative effector binding pocket; other site 1004788002501 dimerization interface [polypeptide binding]; other site 1004788002502 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 1004788002503 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788002504 active site 1004788002505 catalytic tetrad [active] 1004788002506 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1004788002507 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1004788002508 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788002509 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1004788002510 active site 1004788002511 catalytic site [active] 1004788002512 exonuclease subunit SbcD; Provisional; Region: PRK10966 1004788002513 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1004788002514 active site 1004788002515 metal binding site [ion binding]; metal-binding site 1004788002516 DNA binding site [nucleotide binding] 1004788002517 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1004788002518 exonuclease subunit SbcC; Provisional; Region: PRK10246 1004788002519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788002520 Walker A/P-loop; other site 1004788002521 ATP binding site [chemical binding]; other site 1004788002522 Q-loop/lid; other site 1004788002523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788002524 ABC transporter signature motif; other site 1004788002525 Walker B; other site 1004788002526 D-loop; other site 1004788002527 H-loop/switch region; other site 1004788002528 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004788002529 Active site serine [active] 1004788002530 Predicted membrane protein [Function unknown]; Region: COG2246 1004788002531 GtrA-like protein; Region: GtrA; pfam04138 1004788002532 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1004788002533 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1004788002534 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1004788002535 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1004788002536 Ligand binding site; other site 1004788002537 Putative Catalytic site; other site 1004788002538 DXD motif; other site 1004788002539 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788002540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002541 active site 1004788002542 phosphorylation site [posttranslational modification] 1004788002543 intermolecular recognition site; other site 1004788002544 dimerization interface [polypeptide binding]; other site 1004788002545 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 1004788002546 DNA binding site [nucleotide binding] 1004788002547 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788002548 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 1004788002549 dimer interface [polypeptide binding]; other site 1004788002550 phosphorylation site [posttranslational modification] 1004788002551 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 1004788002552 ATP binding site [chemical binding]; other site 1004788002553 Mg2+ binding site [ion binding]; other site 1004788002554 G-X-G motif; other site 1004788002555 serine/threonine transporter SstT; Provisional; Region: PRK13628 1004788002556 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004788002557 formimidoylglutamase; Provisional; Region: PRK13775 1004788002558 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1004788002559 putative active site [active] 1004788002560 putative metal binding site [ion binding]; other site 1004788002561 imidazolonepropionase; Validated; Region: PRK09356 1004788002562 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 1004788002563 active site 1004788002564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788002565 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1004788002566 DNA-binding site [nucleotide binding]; DNA binding site 1004788002567 UTRA domain; Region: UTRA; pfam07702 1004788002568 urocanate hydratase; Provisional; Region: PRK05414 1004788002569 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1004788002570 active sites [active] 1004788002571 tetramer interface [polypeptide binding]; other site 1004788002572 CreA protein; Region: CreA; pfam05981 1004788002573 MltA-interacting protein MipA; Region: MipA; cl01504 1004788002574 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1004788002575 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 1004788002576 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1004788002577 active site 1004788002578 dimer interface [polypeptide binding]; other site 1004788002579 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1004788002580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788002581 Walker A/P-loop; other site 1004788002582 ATP binding site [chemical binding]; other site 1004788002583 Q-loop/lid; other site 1004788002584 ABC transporter signature motif; other site 1004788002585 Walker B; other site 1004788002586 D-loop; other site 1004788002587 H-loop/switch region; other site 1004788002588 ABC transporter; Region: ABC_tran_2; pfam12848 1004788002589 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788002590 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004788002591 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 1004788002592 putative active site [active] 1004788002593 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 1004788002594 binding surface 1004788002595 TPR motif; other site 1004788002596 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004788002597 Zn binding site [ion binding]; other site 1004788002598 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788002599 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788002600 Amb_all domain; Region: Amb_all; smart00656 1004788002601 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004788002602 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1004788002603 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 1004788002604 LVIVD repeat; Region: LVIVD; pfam08309 1004788002605 Calx-beta domain; Region: Calx-beta; cl02522 1004788002606 Calx-beta domain; Region: Calx-beta; pfam03160 1004788002607 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1004788002608 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1004788002609 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1004788002610 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1004788002611 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788002612 LytTr DNA-binding domain; Region: LytTR; smart00850 1004788002613 LrgA family; Region: LrgA; pfam03788 1004788002614 LrgB-like family; Region: LrgB; pfam04172 1004788002615 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788002616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002617 active site 1004788002618 phosphorylation site [posttranslational modification] 1004788002619 intermolecular recognition site; other site 1004788002620 dimerization interface [polypeptide binding]; other site 1004788002621 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1004788002622 PAS domain; Region: PAS; smart00091 1004788002623 PAS fold; Region: PAS_4; pfam08448 1004788002624 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 1004788002625 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1004788002626 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1004788002627 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1004788002628 HemN family oxidoreductase; Provisional; Region: PRK05660 1004788002629 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 1004788002630 FeS/SAM binding site; other site 1004788002631 HemN C-terminal domain; Region: HemN_C; pfam06969 1004788002632 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 1004788002633 active site 1004788002634 dimerization interface [polypeptide binding]; other site 1004788002635 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 1004788002636 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1004788002637 ATP binding site [chemical binding]; other site 1004788002638 Mg++ binding site [ion binding]; other site 1004788002639 motif III; other site 1004788002640 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 1004788002641 nucleotide binding region [chemical binding]; other site 1004788002642 ATP-binding site [chemical binding]; other site 1004788002643 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1004788002644 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 1004788002645 structural tetrad; other site 1004788002646 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1004788002647 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1004788002648 active site 1004788002649 NTP binding site [chemical binding]; other site 1004788002650 metal binding triad [ion binding]; metal-binding site 1004788002651 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1004788002652 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1004788002653 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 1004788002654 Walker A motif; other site 1004788002655 ATP binding site [chemical binding]; other site 1004788002656 Walker B motif; other site 1004788002657 arginine finger; other site 1004788002658 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004788002659 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004788002660 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1004788002661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788002662 Zn2+ binding site [ion binding]; other site 1004788002663 Mg2+ binding site [ion binding]; other site 1004788002664 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1004788002665 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 1004788002666 substrate binding site [chemical binding]; other site 1004788002667 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1004788002668 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1004788002669 substrate binding site [chemical binding]; other site 1004788002670 ligand binding site [chemical binding]; other site 1004788002671 tartrate dehydrogenase; Region: TTC; TIGR02089 1004788002672 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1004788002673 2-isopropylmalate synthase; Validated; Region: PRK00915 1004788002674 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1004788002675 active site 1004788002676 catalytic residues [active] 1004788002677 metal binding site [ion binding]; metal-binding site 1004788002678 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1004788002679 enolase; Provisional; Region: eno; PRK00077 1004788002680 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 1004788002681 dimer interface [polypeptide binding]; other site 1004788002682 metal binding site [ion binding]; metal-binding site 1004788002683 substrate binding pocket [chemical binding]; other site 1004788002684 CTP synthetase; Validated; Region: pyrG; PRK05380 1004788002685 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 1004788002686 Catalytic site [active] 1004788002687 active site 1004788002688 UTP binding site [chemical binding]; other site 1004788002689 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1004788002690 active site 1004788002691 putative oxyanion hole; other site 1004788002692 catalytic triad [active] 1004788002693 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1004788002694 MutS domain I; Region: MutS_I; pfam01624 1004788002695 MutS domain II; Region: MutS_II; pfam05188 1004788002696 MutS domain III; Region: MutS_III; pfam05192 1004788002697 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1004788002698 Walker A/P-loop; other site 1004788002699 ATP binding site [chemical binding]; other site 1004788002700 Q-loop/lid; other site 1004788002701 ABC transporter signature motif; other site 1004788002702 Walker B; other site 1004788002703 D-loop; other site 1004788002704 H-loop/switch region; other site 1004788002705 Competence-damaged protein; Region: CinA; pfam02464 1004788002706 recombinase A; Provisional; Region: recA; PRK09354 1004788002707 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 1004788002708 hexamer interface [polypeptide binding]; other site 1004788002709 Walker A motif; other site 1004788002710 ATP binding site [chemical binding]; other site 1004788002711 Walker B motif; other site 1004788002712 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1004788002713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788002714 Walker A/P-loop; other site 1004788002715 ATP binding site [chemical binding]; other site 1004788002716 Q-loop/lid; other site 1004788002717 ABC transporter signature motif; other site 1004788002718 Walker B; other site 1004788002719 D-loop; other site 1004788002720 H-loop/switch region; other site 1004788002721 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1004788002722 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1004788002723 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1004788002724 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1004788002725 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1004788002726 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1004788002727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788002728 Walker A/P-loop; other site 1004788002729 ATP binding site [chemical binding]; other site 1004788002730 Q-loop/lid; other site 1004788002731 ABC transporter signature motif; other site 1004788002732 Walker B; other site 1004788002733 D-loop; other site 1004788002734 H-loop/switch region; other site 1004788002735 heme exporter protein CcmB; Region: ccmB; TIGR01190 1004788002736 heme exporter protein CcmC; Region: ccmC; TIGR01191 1004788002737 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1004788002738 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1004788002739 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1004788002740 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004788002741 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788002742 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1004788002743 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1004788002744 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1004788002745 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 1004788002746 binding surface 1004788002747 TPR motif; other site 1004788002748 VacJ like lipoprotein; Region: VacJ; cl01073 1004788002749 UDP-glucose 4-epimerase; Region: PLN02240 1004788002750 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1004788002751 NAD binding site [chemical binding]; other site 1004788002752 homodimer interface [polypeptide binding]; other site 1004788002753 active site 1004788002754 substrate binding site [chemical binding]; other site 1004788002755 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1004788002756 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 1004788002757 putative substrate translocation pore; other site 1004788002758 POT family; Region: PTR2; cl17359 1004788002759 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1004788002760 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1004788002761 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 1004788002762 Walker A/P-loop; other site 1004788002763 ATP binding site [chemical binding]; other site 1004788002764 Q-loop/lid; other site 1004788002765 ABC transporter signature motif; other site 1004788002766 Walker B; other site 1004788002767 D-loop; other site 1004788002768 H-loop/switch region; other site 1004788002769 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1004788002770 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1004788002771 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1004788002772 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004788002773 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1004788002774 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 1004788002775 Mg++ binding site [ion binding]; other site 1004788002776 putative catalytic motif [active] 1004788002777 substrate binding site [chemical binding]; other site 1004788002778 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 1004788002779 active site 1004788002780 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004788002781 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1004788002782 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1004788002783 Ligand binding site; other site 1004788002784 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1004788002785 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1004788002786 active site 1004788002787 tetramer interface; other site 1004788002788 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1004788002789 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1004788002790 tartrate dehydrogenase; Region: TTC; TIGR02089 1004788002791 isocitrate dehydrogenase; Provisional; Region: PRK08997 1004788002792 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1004788002793 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1004788002794 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1004788002795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788002796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788002797 metal binding site [ion binding]; metal-binding site 1004788002798 active site 1004788002799 I-site; other site 1004788002800 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1004788002801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1004788002802 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1004788002803 SecY interacting protein Syd; Provisional; Region: PRK04968 1004788002804 hypothetical protein; Provisional; Region: PRK11239 1004788002805 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1004788002806 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1004788002807 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1004788002808 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 1004788002809 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1004788002810 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004788002811 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1004788002812 probable active site [active] 1004788002813 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788002814 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1004788002815 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 1004788002816 trimer interface [polypeptide binding]; other site 1004788002817 active site 1004788002818 substrate binding site [chemical binding]; other site 1004788002819 CoA binding site [chemical binding]; other site 1004788002820 PII uridylyl-transferase; Provisional; Region: PRK05007 1004788002821 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004788002822 metal binding triad; other site 1004788002823 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1004788002824 HD domain; Region: HD; pfam01966 1004788002825 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 1004788002826 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 1004788002827 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 1004788002828 active site 1004788002829 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 1004788002830 rRNA interaction site [nucleotide binding]; other site 1004788002831 S8 interaction site; other site 1004788002832 putative laminin-1 binding site; other site 1004788002833 elongation factor Ts; Provisional; Region: tsf; PRK09377 1004788002834 UBA/TS-N domain; Region: UBA; pfam00627 1004788002835 Elongation factor TS; Region: EF_TS; pfam00889 1004788002836 Elongation factor TS; Region: EF_TS; pfam00889 1004788002837 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 1004788002838 putative nucleotide binding site [chemical binding]; other site 1004788002839 uridine monophosphate binding site [chemical binding]; other site 1004788002840 homohexameric interface [polypeptide binding]; other site 1004788002841 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1004788002842 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 1004788002843 hinge region; other site 1004788002844 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1004788002845 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 1004788002846 catalytic residue [active] 1004788002847 putative FPP diphosphate binding site; other site 1004788002848 putative FPP binding hydrophobic cleft; other site 1004788002849 dimer interface [polypeptide binding]; other site 1004788002850 putative IPP diphosphate binding site; other site 1004788002851 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1004788002852 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1004788002853 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1004788002854 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1004788002855 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1004788002856 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1004788002857 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1004788002858 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 1004788002859 active site 1004788002860 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 1004788002861 protein binding site [polypeptide binding]; other site 1004788002862 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 1004788002863 protein binding site [polypeptide binding]; other site 1004788002864 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 1004788002865 putative substrate binding region [chemical binding]; other site 1004788002866 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1004788002867 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004788002868 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004788002869 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004788002870 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1004788002871 Surface antigen; Region: Bac_surface_Ag; pfam01103 1004788002872 periplasmic chaperone; Provisional; Region: PRK10780 1004788002873 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1004788002874 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 1004788002875 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1004788002876 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 1004788002877 active site 1004788002878 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1004788002879 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1004788002880 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1004788002881 RNA/DNA hybrid binding site [nucleotide binding]; other site 1004788002882 active site 1004788002883 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1004788002884 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1004788002885 putative active site [active] 1004788002886 putative PHP Thumb interface [polypeptide binding]; other site 1004788002887 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 1004788002888 generic binding surface I; other site 1004788002889 generic binding surface II; other site 1004788002890 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1004788002891 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1004788002892 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 1004788002893 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1004788002894 Ligand Binding Site [chemical binding]; other site 1004788002895 TilS substrate binding domain; Region: TilS; pfam09179 1004788002896 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1004788002897 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788002898 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788002899 metal binding site [ion binding]; metal-binding site 1004788002900 active site 1004788002901 I-site; other site 1004788002902 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1004788002903 putative cation:proton antiport protein; Provisional; Region: PRK10669 1004788002904 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1004788002905 TrkA-N domain; Region: TrkA_N; pfam02254 1004788002906 TrkA-C domain; Region: TrkA_C; pfam02080 1004788002907 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 1004788002908 nucleoside/Zn binding site; other site 1004788002909 dimer interface [polypeptide binding]; other site 1004788002910 catalytic motif [active] 1004788002911 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788002912 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 1004788002913 substrate binding pocket [chemical binding]; other site 1004788002914 membrane-bound complex binding site; other site 1004788002915 hinge residues; other site 1004788002916 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004788002917 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 1004788002918 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788002919 catalytic residue [active] 1004788002920 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1004788002921 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 1004788002922 dimerization interface [polypeptide binding]; other site 1004788002923 ATP binding site [chemical binding]; other site 1004788002924 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 1004788002925 dimerization interface [polypeptide binding]; other site 1004788002926 ATP binding site [chemical binding]; other site 1004788002927 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1004788002928 putative active site [active] 1004788002929 catalytic triad [active] 1004788002930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1004788002931 Smr domain; Region: Smr; pfam01713 1004788002932 ribonuclease PH; Reviewed; Region: rph; PRK00173 1004788002933 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 1004788002934 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 1004788002935 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002936 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002937 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 1004788002938 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002939 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002940 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002941 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 1004788002942 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002943 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002944 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 1004788002945 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002946 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002947 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002948 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1004788002949 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1004788002950 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004788002951 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788002952 ligand binding site [chemical binding]; other site 1004788002953 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1004788002954 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 1004788002955 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788002956 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1004788002957 Walker A/P-loop; other site 1004788002958 ATP binding site [chemical binding]; other site 1004788002959 Q-loop/lid; other site 1004788002960 ABC transporter signature motif; other site 1004788002961 Walker B; other site 1004788002962 D-loop; other site 1004788002963 H-loop/switch region; other site 1004788002964 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1004788002965 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788002966 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788002967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788002968 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 1004788002969 DNA binding residues [nucleotide binding] 1004788002970 dimerization interface [polypeptide binding]; other site 1004788002971 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 1004788002972 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 1004788002973 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1004788002974 LPP20 lipoprotein; Region: LPP20; cl15824 1004788002975 FlgN protein; Region: FlgN; pfam05130 1004788002976 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1004788002977 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1004788002978 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1004788002979 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1004788002980 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788002981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788002982 active site 1004788002983 phosphorylation site [posttranslational modification] 1004788002984 intermolecular recognition site; other site 1004788002985 dimerization interface [polypeptide binding]; other site 1004788002986 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004788002987 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1004788002988 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004788002989 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1004788002990 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1004788002991 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 1004788002992 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004788002993 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1004788002994 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1004788002995 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1004788002996 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1004788002997 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1004788002998 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004788002999 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1004788003000 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1004788003001 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1004788003002 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1004788003003 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004788003004 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1004788003005 Flagellar L-ring protein; Region: FlgH; pfam02107 1004788003006 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1004788003007 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1004788003008 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1004788003009 Rod binding protein; Region: Rod-binding; cl01626 1004788003010 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1004788003011 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1004788003012 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1004788003013 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1004788003014 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004788003015 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004788003016 flagellin; Provisional; Region: PRK12802 1004788003017 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004788003018 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004788003019 flagellin; Provisional; Region: PRK12802 1004788003020 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004788003021 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004788003022 flagellin; Provisional; Region: PRK12802 1004788003023 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004788003024 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004788003025 FlaG protein; Region: FlaG; pfam03646 1004788003026 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1004788003027 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1004788003028 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1004788003029 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1004788003030 flagellar protein FliS; Validated; Region: fliS; PRK05685 1004788003031 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 1004788003032 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1004788003033 ligand binding site; other site 1004788003034 tetramer interface; other site 1004788003035 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1004788003036 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 1004788003037 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1004788003038 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1004788003039 putative trimer interface [polypeptide binding]; other site 1004788003040 putative CoA binding site [chemical binding]; other site 1004788003041 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 1004788003042 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1004788003043 dimer interface [polypeptide binding]; other site 1004788003044 active site 1004788003045 CoA binding pocket [chemical binding]; other site 1004788003046 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1004788003047 pseudaminic acid synthase; Region: PseI; TIGR03586 1004788003048 NeuB family; Region: NeuB; pfam03102 1004788003049 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1004788003050 NeuB binding interface [polypeptide binding]; other site 1004788003051 putative substrate binding site [chemical binding]; other site 1004788003052 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1004788003053 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 1004788003054 inhibitor-cofactor binding pocket; inhibition site 1004788003055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788003056 catalytic residue [active] 1004788003057 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1004788003058 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1004788003059 NAD(P) binding site [chemical binding]; other site 1004788003060 homodimer interface [polypeptide binding]; other site 1004788003061 substrate binding site [chemical binding]; other site 1004788003062 active site 1004788003063 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1004788003064 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1004788003065 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004788003066 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1004788003067 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 1004788003068 Walker A motif; other site 1004788003069 ATP binding site [chemical binding]; other site 1004788003070 Walker B motif; other site 1004788003071 arginine finger; other site 1004788003072 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004788003073 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1004788003074 PAS domain; Region: PAS_8; pfam13188 1004788003075 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 1004788003076 dimer interface [polypeptide binding]; other site 1004788003077 phosphorylation site [posttranslational modification] 1004788003078 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 1004788003079 ATP binding site [chemical binding]; other site 1004788003080 Mg2+ binding site [ion binding]; other site 1004788003081 G-X-G motif; other site 1004788003082 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004788003083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003084 active site 1004788003085 phosphorylation site [posttranslational modification] 1004788003086 intermolecular recognition site; other site 1004788003087 dimerization interface [polypeptide binding]; other site 1004788003088 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 1004788003089 Walker A motif; other site 1004788003090 ATP binding site [chemical binding]; other site 1004788003091 Walker B motif; other site 1004788003092 arginine finger; other site 1004788003093 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004788003094 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1004788003095 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1004788003096 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1004788003097 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1004788003098 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1004788003099 MgtE intracellular N domain; Region: MgtE_N; smart00924 1004788003100 FliG C-terminal domain; Region: FliG_C; pfam01706 1004788003101 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1004788003102 Flagellar assembly protein FliH; Region: FliH; pfam02108 1004788003103 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 1004788003104 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 1004788003105 Walker A motif/ATP binding site; other site 1004788003106 Walker B motif; other site 1004788003107 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1004788003108 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1004788003109 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1004788003110 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1004788003111 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1004788003112 flagellar motor switch protein; Validated; Region: fliN; PRK08983 1004788003113 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1004788003114 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1004788003115 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1004788003116 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1004788003117 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1004788003118 Phosphate transporter family; Region: PHO4; cl00396 1004788003119 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1004788003120 Peptidase M15; Region: Peptidase_M15_3; cl01194 1004788003121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1004788003122 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1004788003123 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1004788003124 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1004788003125 FHIPEP family; Region: FHIPEP; pfam00771 1004788003126 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1004788003127 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 1004788003128 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1004788003129 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 1004788003130 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 1004788003131 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1004788003132 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788003133 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1004788003134 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 1004788003135 DNA binding residues [nucleotide binding] 1004788003136 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1004788003137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003138 active site 1004788003139 phosphorylation site [posttranslational modification] 1004788003140 intermolecular recognition site; other site 1004788003141 dimerization interface [polypeptide binding]; other site 1004788003142 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1004788003143 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 1004788003144 putative binding surface; other site 1004788003145 active site 1004788003146 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1004788003147 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004788003148 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 1004788003149 ATP binding site [chemical binding]; other site 1004788003150 Mg2+ binding site [ion binding]; other site 1004788003151 G-X-G motif; other site 1004788003152 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 1004788003153 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1004788003154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003155 active site 1004788003156 phosphorylation site [posttranslational modification] 1004788003157 intermolecular recognition site; other site 1004788003158 dimerization interface [polypeptide binding]; other site 1004788003159 CheB methylesterase; Region: CheB_methylest; pfam01339 1004788003160 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1004788003161 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 1004788003162 Magnesium ion binding site [ion binding]; other site 1004788003163 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 1004788003164 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 1004788003165 putative CheA interaction surface; other site 1004788003166 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1004788003167 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1004788003168 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1004788003169 proposed active site lysine [active] 1004788003170 conserved cys residue [active] 1004788003171 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1004788003172 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1004788003173 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1004788003174 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 1004788003175 substrate binding pocket [chemical binding]; other site 1004788003176 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 1004788003177 B12 binding site [chemical binding]; other site 1004788003178 cobalt ligand [ion binding]; other site 1004788003179 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1004788003180 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1004788003181 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1004788003182 Cache domain; Region: Cache_1; pfam02743 1004788003183 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 1004788003184 dimerization interface [polypeptide binding]; other site 1004788003185 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788003186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788003187 dimer interface [polypeptide binding]; other site 1004788003188 putative CheW interface [polypeptide binding]; other site 1004788003189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788003190 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 1004788003191 putative dimerization interface [polypeptide binding]; other site 1004788003192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788003193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788003194 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 1004788003195 dimerization interface [polypeptide binding]; other site 1004788003196 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 1004788003197 active site clefts [active] 1004788003198 zinc binding site [ion binding]; other site 1004788003199 dimer interface [polypeptide binding]; other site 1004788003200 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1004788003201 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1004788003202 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1004788003203 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 1004788003204 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788003205 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 1004788003206 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 1004788003207 transcriptional regulator BetI; Validated; Region: PRK00767 1004788003208 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788003209 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1004788003210 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1004788003211 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1004788003212 active site 1004788003213 Zn binding site [ion binding]; other site 1004788003214 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1004788003215 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1004788003216 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1004788003217 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1004788003218 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 1004788003219 motif 1; other site 1004788003220 active site 1004788003221 motif 2; other site 1004788003222 motif 3; other site 1004788003223 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1004788003224 DHHA1 domain; Region: DHHA1; pfam02272 1004788003225 carbon storage regulator; Provisional; Region: PRK01712 1004788003226 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 1004788003227 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK03814 1004788003228 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1004788003229 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1004788003230 active site 1004788003231 catalytic residues [active] 1004788003232 metal binding site [ion binding]; metal-binding site 1004788003233 homodimer binding site [polypeptide binding]; other site 1004788003234 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 1004788003235 carboxyltransferase (CT) interaction site; other site 1004788003236 biotinylation site [posttranslational modification]; other site 1004788003237 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1004788003238 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1004788003239 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1004788003240 Walker A/P-loop; other site 1004788003241 ATP binding site [chemical binding]; other site 1004788003242 Q-loop/lid; other site 1004788003243 ABC transporter signature motif; other site 1004788003244 Walker B; other site 1004788003245 D-loop; other site 1004788003246 H-loop/switch region; other site 1004788003247 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1004788003248 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1004788003249 Walker A/P-loop; other site 1004788003250 ATP binding site [chemical binding]; other site 1004788003251 Q-loop/lid; other site 1004788003252 ABC transporter signature motif; other site 1004788003253 Walker B; other site 1004788003254 D-loop; other site 1004788003255 H-loop/switch region; other site 1004788003256 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1004788003257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1004788003258 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1004788003259 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 1004788003260 dimer interface [polypeptide binding]; other site 1004788003261 conserved gate region; other site 1004788003262 putative PBP binding loops; other site 1004788003263 ABC-ATPase subunit interface; other site 1004788003264 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1004788003265 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 1004788003266 dimer interface [polypeptide binding]; other site 1004788003267 conserved gate region; other site 1004788003268 putative PBP binding loops; other site 1004788003269 ABC-ATPase subunit interface; other site 1004788003270 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1004788003271 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1004788003272 peptide binding site [polypeptide binding]; other site 1004788003273 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1004788003274 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 1004788003275 Walker A motif; other site 1004788003276 ATP binding site [chemical binding]; other site 1004788003277 Walker B motif; other site 1004788003278 arginine finger; other site 1004788003279 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004788003280 phage shock protein A; Region: phageshock_pspA; TIGR02977 1004788003281 phage shock protein B; Provisional; Region: pspB; PRK09458 1004788003282 phage shock protein C; Region: phageshock_pspC; TIGR02978 1004788003283 PspC domain; Region: PspC; pfam04024 1004788003284 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 1004788003285 cofactor binding site; other site 1004788003286 metal binding site [ion binding]; metal-binding site 1004788003287 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1004788003288 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1004788003289 putative aromatic amino acid binding site; other site 1004788003290 PAS domain; Region: PAS; smart00091 1004788003291 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 1004788003292 Walker A motif; other site 1004788003293 ATP binding site [chemical binding]; other site 1004788003294 Walker B motif; other site 1004788003295 arginine finger; other site 1004788003296 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 1004788003297 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1004788003298 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 1004788003299 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1004788003300 C-terminal domain interface [polypeptide binding]; other site 1004788003301 GSH binding site (G-site) [chemical binding]; other site 1004788003302 putative dimer interface [polypeptide binding]; other site 1004788003303 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1004788003304 dimer interface [polypeptide binding]; other site 1004788003305 N-terminal domain interface [polypeptide binding]; other site 1004788003306 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1004788003307 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1004788003308 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1004788003309 putative DNA binding site [nucleotide binding]; other site 1004788003310 putative Zn2+ binding site [ion binding]; other site 1004788003311 AsnC family; Region: AsnC_trans_reg; pfam01037 1004788003312 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1004788003313 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1004788003314 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1004788003315 NAD binding site [chemical binding]; other site 1004788003316 Phe binding site; other site 1004788003317 Late competence development protein ComFB; Region: ComFB; pfam10719 1004788003318 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1004788003319 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004788003320 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788003321 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 1004788003322 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1004788003323 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 1004788003324 N-terminal plug; other site 1004788003325 ligand-binding site [chemical binding]; other site 1004788003326 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788003327 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1004788003328 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1004788003329 TPR repeat; Region: TPR_11; pfam13414 1004788003330 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 1004788003331 binding surface 1004788003332 TPR motif; other site 1004788003333 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004788003334 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 1004788003335 TPR motif; other site 1004788003336 binding surface 1004788003337 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788003338 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 1004788003339 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1004788003340 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004788003341 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004788003342 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004788003343 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004788003344 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004788003345 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788003346 TPR repeat; Region: TPR_11; pfam13414 1004788003347 TPR repeat; Region: TPR_11; pfam13414 1004788003348 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 1004788003349 binding surface 1004788003350 TPR motif; other site 1004788003351 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1004788003352 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1004788003353 Helicase; Region: Helicase_RecD; pfam05127 1004788003354 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1004788003355 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 1004788003356 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788003357 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 1004788003358 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1004788003359 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 1004788003360 active site 1004788003361 ATP binding site [chemical binding]; other site 1004788003362 substrate binding site [chemical binding]; other site 1004788003363 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1004788003364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788003365 Coenzyme A binding pocket [chemical binding]; other site 1004788003366 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1004788003367 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004788003368 EamA-like transporter family; Region: EamA; pfam00892 1004788003369 EamA-like transporter family; Region: EamA; pfam00892 1004788003370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788003371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788003372 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 1004788003373 dimerization interface [polypeptide binding]; other site 1004788003374 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1004788003375 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 1004788003376 putative substrate translocation pore; other site 1004788003377 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1004788003378 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1004788003379 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 1004788003380 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788003381 active site 1004788003382 catalytic tetrad [active] 1004788003383 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1004788003384 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788003385 NAD(P) binding site [chemical binding]; other site 1004788003386 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1004788003387 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1004788003388 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788003389 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788003390 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004788003391 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1004788003392 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1004788003393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003394 active site 1004788003395 phosphorylation site [posttranslational modification] 1004788003396 intermolecular recognition site; other site 1004788003397 dimerization interface [polypeptide binding]; other site 1004788003398 LytTr DNA-binding domain; Region: LytTR; pfam04397 1004788003399 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1004788003400 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1004788003401 GAF domain; Region: GAF; pfam01590 1004788003402 Histidine kinase; Region: His_kinase; pfam06580 1004788003403 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 1004788003404 ATP binding site [chemical binding]; other site 1004788003405 Mg2+ binding site [ion binding]; other site 1004788003406 G-X-G motif; other site 1004788003407 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1004788003408 Carbon starvation protein CstA; Region: CstA; pfam02554 1004788003409 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1004788003410 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1004788003411 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1004788003412 G1 box; other site 1004788003413 putative GEF interaction site [polypeptide binding]; other site 1004788003414 GTP/Mg2+ binding site [chemical binding]; other site 1004788003415 Switch I region; other site 1004788003416 G2 box; other site 1004788003417 G3 box; other site 1004788003418 Switch II region; other site 1004788003419 G4 box; other site 1004788003420 G5 box; other site 1004788003421 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 1004788003422 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1004788003423 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1004788003424 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1004788003425 active site 1004788003426 HIGH motif; other site 1004788003427 KMSK motif region; other site 1004788003428 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1004788003429 tRNA binding surface [nucleotide binding]; other site 1004788003430 anticodon binding site; other site 1004788003431 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004788003432 Predicted flavoprotein [General function prediction only]; Region: COG0431 1004788003433 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1004788003434 TPR repeat; Region: TPR_11; pfam13414 1004788003435 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 1004788003436 binding surface 1004788003437 TPR motif; other site 1004788003438 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1004788003439 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788003440 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1004788003441 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788003442 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788003443 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1004788003444 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788003445 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788003446 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1004788003447 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1004788003448 dimer interface [polypeptide binding]; other site 1004788003449 Trp docking motif [polypeptide binding]; other site 1004788003450 active site 1004788003451 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788003452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003453 active site 1004788003454 phosphorylation site [posttranslational modification] 1004788003455 intermolecular recognition site; other site 1004788003456 dimerization interface [polypeptide binding]; other site 1004788003457 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 1004788003458 DNA binding residues [nucleotide binding] 1004788003459 dimerization interface [polypeptide binding]; other site 1004788003460 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1004788003461 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1004788003462 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 1004788003463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788003464 catalytic residue [active] 1004788003465 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 1004788003466 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004788003467 Two component regulator propeller; Region: Reg_prop; pfam07494 1004788003468 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004788003469 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003471 metal binding site [ion binding]; metal-binding site 1004788003472 active site 1004788003473 I-site; other site 1004788003474 Protein of unknown function, DUF417; Region: DUF417; cl01162 1004788003475 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788003476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788003477 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 1004788003478 putative effector binding pocket; other site 1004788003479 dimerization interface [polypeptide binding]; other site 1004788003480 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1004788003481 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1004788003482 NADP binding site [chemical binding]; other site 1004788003483 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 1004788003484 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1004788003485 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 1004788003486 putative di-iron ligands [ion binding]; other site 1004788003487 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 1004788003488 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1004788003489 FAD binding pocket [chemical binding]; other site 1004788003490 conserved FAD binding motif [chemical binding]; other site 1004788003491 phosphate binding motif [ion binding]; other site 1004788003492 beta-alpha-beta structure motif; other site 1004788003493 NAD binding pocket [chemical binding]; other site 1004788003494 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 1004788003495 catalytic loop [active] 1004788003496 iron binding site [ion binding]; other site 1004788003497 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788003498 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 1004788003499 FMN binding site [chemical binding]; other site 1004788003500 active site 1004788003501 substrate binding site [chemical binding]; other site 1004788003502 catalytic residue [active] 1004788003503 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1004788003504 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1004788003505 RF-1 domain; Region: RF-1; pfam00472 1004788003506 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1004788003507 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 1004788003508 dimer interface [polypeptide binding]; other site 1004788003509 putative anticodon binding site; other site 1004788003510 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 1004788003511 motif 1; other site 1004788003512 active site 1004788003513 motif 2; other site 1004788003514 motif 3; other site 1004788003515 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1004788003516 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1004788003517 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1004788003518 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1004788003519 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004788003520 active site 1004788003521 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 1004788003522 putative binding surface; other site 1004788003523 active site 1004788003524 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788003525 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788003526 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788003527 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788003528 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788003529 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788003530 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1004788003531 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 1004788003532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788003533 catalytic residue [active] 1004788003534 hypothetical protein; Provisional; Region: PRK04946 1004788003535 Smr domain; Region: Smr; pfam01713 1004788003536 HemK family putative methylases; Region: hemK_fam; TIGR00536 1004788003537 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 1004788003538 S-adenosylmethionine binding site [chemical binding]; other site 1004788003539 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1004788003540 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1004788003541 Tetramer interface [polypeptide binding]; other site 1004788003542 active site 1004788003543 FMN-binding site [chemical binding]; other site 1004788003544 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 1004788003545 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1004788003546 putative substrate translocation pore; other site 1004788003547 SpoVR family protein; Provisional; Region: PRK11767 1004788003548 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1004788003549 hypothetical protein; Provisional; Region: PRK05325 1004788003550 PrkA family serine protein kinase; Provisional; Region: PRK15455 1004788003551 AAA ATPase domain; Region: AAA_16; pfam13191 1004788003552 Walker A motif; other site 1004788003553 ATP binding site [chemical binding]; other site 1004788003554 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1004788003555 superoxide dismutase; Provisional; Region: PRK10543 1004788003556 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1004788003557 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1004788003558 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 1004788003559 putative GSH binding site [chemical binding]; other site 1004788003560 catalytic residues [active] 1004788003561 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 1004788003562 N-terminal plug; other site 1004788003563 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788003564 ligand-binding site [chemical binding]; other site 1004788003565 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004788003566 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788003567 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 1004788003568 DNA binding residues [nucleotide binding] 1004788003569 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1004788003570 FecR protein; Region: FecR; pfam04773 1004788003571 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004788003572 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788003573 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 1004788003574 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 1004788003575 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1004788003576 peroxidase; Provisional; Region: PRK15000 1004788003577 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 1004788003578 dimer interface [polypeptide binding]; other site 1004788003579 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1004788003580 catalytic triad [active] 1004788003581 peroxidatic and resolving cysteines [active] 1004788003582 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1004788003583 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1004788003584 dimer interface [polypeptide binding]; other site 1004788003585 catalytic site [active] 1004788003586 putative active site [active] 1004788003587 putative substrate binding site [chemical binding]; other site 1004788003588 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004788003589 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788003590 ligand binding site [chemical binding]; other site 1004788003591 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1004788003592 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1004788003593 active site 1004788003594 catalytic site [active] 1004788003595 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788003596 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1004788003597 dimer interface [polypeptide binding]; other site 1004788003598 active site 1004788003599 metal binding site [ion binding]; metal-binding site 1004788003600 glutathione binding site [chemical binding]; other site 1004788003601 short chain dehydrogenase; Provisional; Region: PRK07326 1004788003602 classical (c) SDRs; Region: SDR_c; cd05233 1004788003603 NAD(P) binding site [chemical binding]; other site 1004788003604 active site 1004788003605 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 1004788003606 DNA-binding site [nucleotide binding]; DNA binding site 1004788003607 RNA-binding motif; other site 1004788003608 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788003609 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1004788003610 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 1004788003611 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004788003612 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1004788003613 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004788003614 metal binding site [ion binding]; metal-binding site 1004788003615 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1004788003616 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1004788003617 minor groove reading motif; other site 1004788003618 helix-hairpin-helix signature motif; other site 1004788003619 substrate binding pocket [chemical binding]; other site 1004788003620 active site 1004788003621 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1004788003622 FMN-binding domain; Region: FMN_bind; cl01081 1004788003623 FMN-binding domain; Region: FMN_bind; cl01081 1004788003624 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1004788003625 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1004788003626 SLBB domain; Region: SLBB; pfam10531 1004788003627 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 1004788003628 electron transport complex protein RnfB; Provisional; Region: PRK05113 1004788003629 Putative Fe-S cluster; Region: FeS; pfam04060 1004788003630 4Fe-4S binding domain; Region: Fer4; pfam00037 1004788003631 electron transport complex protein RsxA; Provisional; Region: PRK05151 1004788003632 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1004788003633 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1004788003634 excinuclease ABC subunit B; Provisional; Region: PRK05298 1004788003635 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 1004788003636 ATP binding site [chemical binding]; other site 1004788003637 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 1004788003638 nucleotide binding region [chemical binding]; other site 1004788003639 ATP-binding site [chemical binding]; other site 1004788003640 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1004788003641 UvrB/uvrC motif; Region: UVR; pfam02151 1004788003642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788003643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788003644 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 1004788003645 dimerization interface [polypeptide binding]; other site 1004788003646 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 1004788003647 Ligand Binding Site [chemical binding]; other site 1004788003648 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1004788003649 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1004788003650 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1004788003651 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 1004788003652 active site 1004788003653 dimer interface [polypeptide binding]; other site 1004788003654 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 1004788003655 Ligand Binding Site [chemical binding]; other site 1004788003656 Molecular Tunnel; other site 1004788003657 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788003658 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 1004788003659 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004788003660 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1004788003661 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004788003662 metal binding site [ion binding]; metal-binding site 1004788003663 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1004788003664 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 1004788003665 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1004788003666 TrkA-C domain; Region: TrkA_C; pfam02080 1004788003667 TrkA-C domain; Region: TrkA_C; pfam02080 1004788003668 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 1004788003669 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1004788003670 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1004788003671 CysD dimerization site [polypeptide binding]; other site 1004788003672 G1 box; other site 1004788003673 putative GEF interaction site [polypeptide binding]; other site 1004788003674 GTP/Mg2+ binding site [chemical binding]; other site 1004788003675 Switch I region; other site 1004788003676 G2 box; other site 1004788003677 G3 box; other site 1004788003678 Switch II region; other site 1004788003679 G4 box; other site 1004788003680 G5 box; other site 1004788003681 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 1004788003682 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 1004788003683 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 1004788003684 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004788003685 active site 1004788003686 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 1004788003687 AAA domain; Region: AAA_18; pfam13238 1004788003688 ligand-binding site [chemical binding]; other site 1004788003689 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1004788003690 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 1004788003691 Active Sites [active] 1004788003692 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1004788003693 Na binding site [ion binding]; other site 1004788003694 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003696 metal binding site [ion binding]; metal-binding site 1004788003697 active site 1004788003698 I-site; other site 1004788003699 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 1004788003700 RNA polymerase sigma factor; Provisional; Region: PRK12517 1004788003701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788003702 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 1004788003703 DNA binding residues [nucleotide binding] 1004788003704 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004788003705 Oxygen tolerance; Region: BatD; pfam13584 1004788003706 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1004788003707 metal ion-dependent adhesion site (MIDAS); other site 1004788003708 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1004788003709 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 1004788003710 TPR motif; other site 1004788003711 binding surface 1004788003712 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 1004788003713 metal ion-dependent adhesion site (MIDAS); other site 1004788003714 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1004788003715 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1004788003716 Protein of unknown function DUF58; Region: DUF58; pfam01882 1004788003717 MoxR-like ATPases [General function prediction only]; Region: COG0714 1004788003718 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 1004788003719 Walker A motif; other site 1004788003720 ATP binding site [chemical binding]; other site 1004788003721 Walker B motif; other site 1004788003722 arginine finger; other site 1004788003723 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1004788003724 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 1004788003725 dimer interface [polypeptide binding]; other site 1004788003726 active site 1004788003727 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1004788003728 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 1004788003729 substrate binding site [chemical binding]; other site 1004788003730 oxyanion hole (OAH) forming residues; other site 1004788003731 trimer interface [polypeptide binding]; other site 1004788003732 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004788003733 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004788003734 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004788003735 PAS fold; Region: PAS_3; pfam08447 1004788003736 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 1004788003737 PAS domain; Region: PAS_9; pfam13426 1004788003738 putative active site [active] 1004788003739 heme pocket [chemical binding]; other site 1004788003740 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003742 metal binding site [ion binding]; metal-binding site 1004788003743 active site 1004788003744 I-site; other site 1004788003745 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 1004788003746 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1004788003747 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788003748 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788003749 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788003750 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 1004788003751 catalytic core [active] 1004788003752 Domain of unknown function DUF21; Region: DUF21; pfam01595 1004788003753 hypothetical protein; Provisional; Region: PRK11573 1004788003754 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 1004788003755 Transporter associated domain; Region: CorC_HlyC; smart01091 1004788003756 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1004788003757 signal recognition particle protein; Provisional; Region: PRK10867 1004788003758 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1004788003759 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 1004788003760 P loop; other site 1004788003761 GTP binding site [chemical binding]; other site 1004788003762 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1004788003763 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1004788003764 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1004788003765 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788003766 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788003767 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788003768 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788003769 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1004788003770 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788003771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788003772 Walker A/P-loop; other site 1004788003773 ATP binding site [chemical binding]; other site 1004788003774 Q-loop/lid; other site 1004788003775 ABC transporter signature motif; other site 1004788003776 Walker B; other site 1004788003777 D-loop; other site 1004788003778 H-loop/switch region; other site 1004788003779 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 1004788003780 catalytic residues [active] 1004788003781 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1004788003782 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1004788003783 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1004788003784 RimM N-terminal domain; Region: RimM; pfam01782 1004788003785 PRC-barrel domain; Region: PRC; pfam05239 1004788003786 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1004788003787 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1004788003788 Predicted membrane protein [Function unknown]; Region: COG2860 1004788003789 UPF0126 domain; Region: UPF0126; pfam03458 1004788003790 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1004788003791 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 1004788003792 substrate binding site [chemical binding]; other site 1004788003793 oxyanion hole (OAH) forming residues; other site 1004788003794 trimer interface [polypeptide binding]; other site 1004788003795 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1004788003796 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1004788003797 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1004788003798 Chorismate mutase type II; Region: CM_2; cl00693 1004788003799 prephenate dehydrogenase; Validated; Region: PRK08507 1004788003800 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 1004788003801 Eukaryotic aspartyl protease; Region: Asp; pfam00026 1004788003802 inhibitor binding site; inhibition site 1004788003803 catalytic motif [active] 1004788003804 catalytic residue [active] 1004788003805 Active site flap [active] 1004788003806 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1004788003807 active site 1004788003808 SAM binding site [chemical binding]; other site 1004788003809 homodimer interface [polypeptide binding]; other site 1004788003810 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788003811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003813 metal binding site [ion binding]; metal-binding site 1004788003814 active site 1004788003815 I-site; other site 1004788003816 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1004788003817 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1004788003818 Prephenate dehydratase; Region: PDT; pfam00800 1004788003819 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 1004788003820 putative L-Phe binding site [chemical binding]; other site 1004788003821 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788003822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003823 active site 1004788003824 phosphorylation site [posttranslational modification] 1004788003825 intermolecular recognition site; other site 1004788003826 dimerization interface [polypeptide binding]; other site 1004788003827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003828 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788003829 active site 1004788003830 phosphorylation site [posttranslational modification] 1004788003831 intermolecular recognition site; other site 1004788003832 dimerization interface [polypeptide binding]; other site 1004788003833 translation initiation factor Sui1; Validated; Region: PRK06824 1004788003834 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1004788003835 putative rRNA binding site [nucleotide binding]; other site 1004788003836 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 1004788003837 anti sigma factor interaction site; other site 1004788003838 regulatory phosphorylation site [posttranslational modification]; other site 1004788003839 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788003840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003841 active site 1004788003842 phosphorylation site [posttranslational modification] 1004788003843 intermolecular recognition site; other site 1004788003844 dimerization interface [polypeptide binding]; other site 1004788003845 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1004788003846 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1004788003847 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1004788003848 ATP binding site [chemical binding]; other site 1004788003849 Mg2+ binding site [ion binding]; other site 1004788003850 G-X-G motif; other site 1004788003851 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1004788003852 putative metal binding site [ion binding]; other site 1004788003853 HAMP domain; Region: HAMP; pfam00672 1004788003854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003856 metal binding site [ion binding]; metal-binding site 1004788003857 active site 1004788003858 I-site; other site 1004788003859 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 1004788003860 EF-hand domain pair; Region: EF_hand_5; pfam13499 1004788003861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788003862 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 1004788003863 dimer interface [polypeptide binding]; other site 1004788003864 phosphorylation site [posttranslational modification] 1004788003865 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 1004788003866 ATP binding site [chemical binding]; other site 1004788003867 Mg2+ binding site [ion binding]; other site 1004788003868 G-X-G motif; other site 1004788003869 response regulator GlrR; Provisional; Region: PRK15115 1004788003870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003871 active site 1004788003872 phosphorylation site [posttranslational modification] 1004788003873 intermolecular recognition site; other site 1004788003874 dimerization interface [polypeptide binding]; other site 1004788003875 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 1004788003876 Walker A motif; other site 1004788003877 ATP binding site [chemical binding]; other site 1004788003878 Walker B motif; other site 1004788003879 arginine finger; other site 1004788003880 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004788003881 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788003882 GAF domain; Region: GAF; pfam01590 1004788003883 Protein of unknown function DUF72; Region: DUF72; cl00777 1004788003884 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1004788003885 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 1004788003886 dimer interface [polypeptide binding]; other site 1004788003887 anticodon binding site; other site 1004788003888 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 1004788003889 homodimer interface [polypeptide binding]; other site 1004788003890 motif 1; other site 1004788003891 active site 1004788003892 motif 2; other site 1004788003893 GAD domain; Region: GAD; pfam02938 1004788003894 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 1004788003895 active site 1004788003896 motif 3; other site 1004788003897 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 1004788003898 nudix motif; other site 1004788003899 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 1004788003900 active site 1004788003901 putative DNA-binding cleft [nucleotide binding]; other site 1004788003902 dimer interface [polypeptide binding]; other site 1004788003903 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1004788003904 RuvA N terminal domain; Region: RuvA_N; pfam01330 1004788003905 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1004788003906 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1004788003907 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 1004788003908 Walker A motif; other site 1004788003909 ATP binding site [chemical binding]; other site 1004788003910 Walker B motif; other site 1004788003911 arginine finger; other site 1004788003912 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1004788003913 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 1004788003914 active site 1004788003915 TolQ protein; Region: tolQ; TIGR02796 1004788003916 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004788003917 TolR protein; Region: tolR; TIGR02801 1004788003918 TolA C-terminal; Region: TolA; pfam06519 1004788003919 TolA protein; Region: tolA_full; TIGR02794 1004788003920 translocation protein TolB; Provisional; Region: tolB; PRK04792 1004788003921 TolB amino-terminal domain; Region: TolB_N; pfam04052 1004788003922 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788003923 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788003924 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788003925 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1004788003926 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788003927 ligand binding site [chemical binding]; other site 1004788003928 tol-pal system protein YbgF; Provisional; Region: PRK10803 1004788003929 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 1004788003930 binding surface 1004788003931 TPR motif; other site 1004788003932 quinolinate synthetase; Provisional; Region: PRK09375 1004788003933 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1004788003934 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1004788003935 active site 1004788003936 nucleophile elbow; other site 1004788003937 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1004788003938 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1004788003939 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1004788003940 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1004788003941 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 1004788003942 binding surface 1004788003943 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788003944 TPR motif; other site 1004788003945 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 1004788003946 binding surface 1004788003947 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788003948 TPR motif; other site 1004788003949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788003950 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 1004788003951 dimer interface [polypeptide binding]; other site 1004788003952 phosphorylation site [posttranslational modification] 1004788003953 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 1004788003954 ATP binding site [chemical binding]; other site 1004788003955 Mg2+ binding site [ion binding]; other site 1004788003956 G-X-G motif; other site 1004788003957 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788003958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788003959 active site 1004788003960 phosphorylation site [posttranslational modification] 1004788003961 intermolecular recognition site; other site 1004788003962 dimerization interface [polypeptide binding]; other site 1004788003963 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788003964 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 1004788003965 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1004788003966 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004788003967 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1004788003968 PAS domain S-box; Region: sensory_box; TIGR00229 1004788003969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003971 metal binding site [ion binding]; metal-binding site 1004788003972 active site 1004788003973 I-site; other site 1004788003974 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1004788003975 FOG: CBS domain [General function prediction only]; Region: COG0517 1004788003976 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 1004788003977 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788003978 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788003979 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788003980 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788003981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788003982 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1004788003983 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1004788003984 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 1004788003985 N-terminal plug; other site 1004788003986 ligand-binding site [chemical binding]; other site 1004788003987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788003988 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788003989 Coenzyme A binding pocket [chemical binding]; other site 1004788003990 potential frameshift: common BLAST hit: gi|333893829|ref|YP_004467704.1| putative multidrug resistance protein 1004788003991 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788003992 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788003993 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788003994 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788003995 metal binding site [ion binding]; metal-binding site 1004788003996 active site 1004788003997 I-site; other site 1004788003998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1004788003999 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1004788004000 paraquat-inducible protein B; Provisional; Region: PRK10807 1004788004001 mce related protein; Region: MCE; pfam02470 1004788004002 mce related protein; Region: MCE; pfam02470 1004788004003 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 1004788004004 Paraquat-inducible protein A; Region: PqiA; pfam04403 1004788004005 Paraquat-inducible protein A; Region: PqiA; pfam04403 1004788004006 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1004788004007 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 1004788004008 putative dimer interface [polypeptide binding]; other site 1004788004009 putative anticodon binding site; other site 1004788004010 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 1004788004011 homodimer interface [polypeptide binding]; other site 1004788004012 motif 1; other site 1004788004013 motif 2; other site 1004788004014 active site 1004788004015 motif 3; other site 1004788004016 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1004788004017 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004788004018 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1004788004019 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1004788004020 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1004788004021 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788004022 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788004023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788004024 Coenzyme A binding pocket [chemical binding]; other site 1004788004025 Peptidase_C39 like family; Region: DUF3335; pfam11814 1004788004026 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1004788004027 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1004788004028 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 1004788004029 inhibitor-cofactor binding pocket; inhibition site 1004788004030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788004031 catalytic residue [active] 1004788004032 biotin synthase; Provisional; Region: PRK15108 1004788004033 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 1004788004034 FeS/SAM binding site; other site 1004788004035 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1004788004036 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1004788004037 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 1004788004038 substrate-cofactor binding pocket; other site 1004788004039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788004040 catalytic residue [active] 1004788004041 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1004788004042 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 1004788004043 S-adenosylmethionine binding site [chemical binding]; other site 1004788004044 AAA domain; Region: AAA_26; pfam13500 1004788004045 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1004788004046 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1004788004047 active site pocket [active] 1004788004048 oxyanion hole [active] 1004788004049 catalytic triad [active] 1004788004050 active site nucleophile [active] 1004788004051 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1004788004052 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1004788004053 active site 1004788004054 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1004788004055 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 1004788004056 ABC-ATPase subunit interface; other site 1004788004057 dimer interface [polypeptide binding]; other site 1004788004058 putative PBP binding regions; other site 1004788004059 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1004788004060 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1004788004061 Walker A/P-loop; other site 1004788004062 ATP binding site [chemical binding]; other site 1004788004063 Q-loop/lid; other site 1004788004064 ABC transporter signature motif; other site 1004788004065 Walker B; other site 1004788004066 D-loop; other site 1004788004067 H-loop/switch region; other site 1004788004068 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1004788004069 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1004788004070 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 1004788004071 dimer interface [polypeptide binding]; other site 1004788004072 phosphorylation site [posttranslational modification] 1004788004073 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 1004788004074 ATP binding site [chemical binding]; other site 1004788004075 Mg2+ binding site [ion binding]; other site 1004788004076 G-X-G motif; other site 1004788004077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788004078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004079 active site 1004788004080 phosphorylation site [posttranslational modification] 1004788004081 intermolecular recognition site; other site 1004788004082 dimerization interface [polypeptide binding]; other site 1004788004083 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 1004788004084 DNA binding site [nucleotide binding] 1004788004085 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1004788004086 TrkA-N domain; Region: TrkA_N; pfam02254 1004788004087 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1004788004088 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1004788004089 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1004788004090 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788004091 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1004788004092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788004093 Walker A/P-loop; other site 1004788004094 ATP binding site [chemical binding]; other site 1004788004095 Q-loop/lid; other site 1004788004096 ABC transporter signature motif; other site 1004788004097 Walker B; other site 1004788004098 D-loop; other site 1004788004099 H-loop/switch region; other site 1004788004100 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1004788004101 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 1004788004102 FeS/SAM binding site; other site 1004788004103 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1004788004104 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788004105 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004788004106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788004107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004108 active site 1004788004109 phosphorylation site [posttranslational modification] 1004788004110 intermolecular recognition site; other site 1004788004111 dimerization interface [polypeptide binding]; other site 1004788004112 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1004788004113 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1004788004114 HIGH motif; other site 1004788004115 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1004788004116 active site 1004788004117 KMSKS motif; other site 1004788004118 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1004788004119 putative active site [active] 1004788004120 Zn binding site [ion binding]; other site 1004788004121 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1004788004122 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1004788004123 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 1004788004124 FMN binding site [chemical binding]; other site 1004788004125 active site 1004788004126 catalytic residues [active] 1004788004127 substrate binding site [chemical binding]; other site 1004788004128 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 1004788004129 active site 1004788004130 catalytic triad [active] 1004788004131 oxyanion hole [active] 1004788004132 switch loop; other site 1004788004133 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1004788004134 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004788004135 Walker A/P-loop; other site 1004788004136 ATP binding site [chemical binding]; other site 1004788004137 Q-loop/lid; other site 1004788004138 ABC transporter signature motif; other site 1004788004139 Walker B; other site 1004788004140 D-loop; other site 1004788004141 H-loop/switch region; other site 1004788004142 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1004788004143 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004788004144 FtsX-like permease family; Region: FtsX; pfam02687 1004788004145 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1004788004146 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1004788004147 putative NAD(P) binding site [chemical binding]; other site 1004788004148 putative active site [active] 1004788004149 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 1004788004150 homooctamer interface [polypeptide binding]; other site 1004788004151 active site 1004788004152 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1004788004153 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1004788004154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788004155 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 1004788004156 ATP binding site [chemical binding]; other site 1004788004157 Mg2+ binding site [ion binding]; other site 1004788004158 G-X-G motif; other site 1004788004159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788004160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004161 active site 1004788004162 phosphorylation site [posttranslational modification] 1004788004163 intermolecular recognition site; other site 1004788004164 dimerization interface [polypeptide binding]; other site 1004788004165 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 1004788004166 DNA binding site [nucleotide binding] 1004788004167 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1004788004168 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1004788004169 YciI-like protein; Reviewed; Region: PRK11370 1004788004170 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1004788004171 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 1004788004172 substrate binding site [chemical binding]; other site 1004788004173 active site 1004788004174 catalytic residues [active] 1004788004175 heterodimer interface [polypeptide binding]; other site 1004788004176 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1004788004177 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 1004788004178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788004179 catalytic residue [active] 1004788004180 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1004788004181 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 1004788004182 active site 1004788004183 ribulose/triose binding site [chemical binding]; other site 1004788004184 phosphate binding site [ion binding]; other site 1004788004185 substrate (anthranilate) binding pocket [chemical binding]; other site 1004788004186 product (indole) binding pocket [chemical binding]; other site 1004788004187 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 1004788004188 active site 1004788004189 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1004788004190 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1004788004191 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1004788004192 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1004788004193 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1004788004194 glutamine binding [chemical binding]; other site 1004788004195 catalytic triad [active] 1004788004196 anthranilate synthase component I; Provisional; Region: PRK13564 1004788004197 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1004788004198 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1004788004199 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1004788004200 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1004788004201 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1004788004202 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1004788004203 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1004788004204 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1004788004205 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1004788004206 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 1004788004207 RNA binding surface [nucleotide binding]; other site 1004788004208 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1004788004209 probable active site [active] 1004788004210 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 1004788004211 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788004212 active site 1004788004213 catalytic tetrad [active] 1004788004214 maltose O-acetyltransferase; Provisional; Region: PRK10092 1004788004215 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 1004788004216 active site 1004788004217 substrate binding site [chemical binding]; other site 1004788004218 trimer interface [polypeptide binding]; other site 1004788004219 CoA binding site [chemical binding]; other site 1004788004220 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004788004221 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1004788004222 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1004788004223 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1004788004224 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1004788004225 recombination and repair protein; Provisional; Region: PRK10869 1004788004226 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1004788004227 Walker A/P-loop; other site 1004788004228 ATP binding site [chemical binding]; other site 1004788004229 Q-loop/lid; other site 1004788004230 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1004788004231 ABC transporter signature motif; other site 1004788004232 Walker B; other site 1004788004233 D-loop; other site 1004788004234 H-loop/switch region; other site 1004788004235 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1004788004236 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1004788004237 dimerization interface [polypeptide binding]; other site 1004788004238 DPS ferroxidase diiron center [ion binding]; other site 1004788004239 ion pore; other site 1004788004240 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1004788004241 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1004788004242 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1004788004243 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1004788004244 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1004788004245 putative active site [active] 1004788004246 metal binding site [ion binding]; metal-binding site 1004788004247 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1004788004248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788004249 NAD(P) binding site [chemical binding]; other site 1004788004250 active site 1004788004251 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1004788004252 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1004788004253 homoserine O-acetyltransferase; Provisional; Region: PRK06765 1004788004254 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1004788004255 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1004788004256 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788004257 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 1004788004258 N-terminal plug; other site 1004788004259 ligand-binding site [chemical binding]; other site 1004788004260 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788004261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004262 active site 1004788004263 phosphorylation site [posttranslational modification] 1004788004264 intermolecular recognition site; other site 1004788004265 dimerization interface [polypeptide binding]; other site 1004788004266 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 1004788004267 DNA binding residues [nucleotide binding] 1004788004268 dimerization interface [polypeptide binding]; other site 1004788004269 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 1004788004270 inhibitor binding site; inhibition site 1004788004271 catalytic motif [active] 1004788004272 Catalytic residue [active] 1004788004273 Active site flap [active] 1004788004274 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004788004275 catalytic motif [active] 1004788004276 Catalytic residue [active] 1004788004277 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1004788004278 Na binding site [ion binding]; other site 1004788004279 PAS fold; Region: PAS_7; pfam12860 1004788004280 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1004788004281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788004282 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 1004788004283 dimer interface [polypeptide binding]; other site 1004788004284 phosphorylation site [posttranslational modification] 1004788004285 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 1004788004286 ATP binding site [chemical binding]; other site 1004788004287 Mg2+ binding site [ion binding]; other site 1004788004288 G-X-G motif; other site 1004788004289 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788004290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1004788004291 active site 1004788004292 phosphorylation site [posttranslational modification] 1004788004293 intermolecular recognition site; other site 1004788004294 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1004788004295 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1004788004296 GrpE; Region: GrpE; pfam01025 1004788004297 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 1004788004298 dimer interface [polypeptide binding]; other site 1004788004299 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1004788004300 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1004788004301 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004788004302 nucleotide binding site [chemical binding]; other site 1004788004303 chaperone protein DnaJ; Provisional; Region: PRK10767 1004788004304 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 1004788004305 HSP70 interaction site [polypeptide binding]; other site 1004788004306 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1004788004307 substrate binding site [polypeptide binding]; other site 1004788004308 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1004788004309 Zn binding sites [ion binding]; other site 1004788004310 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1004788004311 dimer interface [polypeptide binding]; other site 1004788004312 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1004788004313 PAS domain; Region: PAS_9; pfam13426 1004788004314 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 1004788004315 putative active site [active] 1004788004316 heme pocket [chemical binding]; other site 1004788004317 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1004788004318 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 1004788004319 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1004788004320 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1004788004321 acyl-activating enzyme (AAE) consensus motif; other site 1004788004322 putative AMP binding site [chemical binding]; other site 1004788004323 putative active site [active] 1004788004324 putative CoA binding site [chemical binding]; other site 1004788004325 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 1004788004326 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1004788004327 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1004788004328 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1004788004329 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1004788004330 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1004788004331 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1004788004332 catalytic site [active] 1004788004333 subunit interface [polypeptide binding]; other site 1004788004334 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1004788004335 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004788004336 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1004788004337 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1004788004338 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004788004339 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788004340 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 1004788004341 IMP binding site; other site 1004788004342 dimer interface [polypeptide binding]; other site 1004788004343 interdomain contacts; other site 1004788004344 partial ornithine binding site; other site 1004788004345 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1004788004346 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1004788004347 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1004788004348 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788004349 dimer interface [polypeptide binding]; other site 1004788004350 putative CheW interface [polypeptide binding]; other site 1004788004351 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1004788004352 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 1004788004353 dimer interface [polypeptide binding]; other site 1004788004354 ADP-ribose binding site [chemical binding]; other site 1004788004355 active site 1004788004356 nudix motif; other site 1004788004357 metal binding site [ion binding]; metal-binding site 1004788004358 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 1004788004359 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1004788004360 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1004788004361 putative dimer interface [polypeptide binding]; other site 1004788004362 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1004788004363 propionate/acetate kinase; Provisional; Region: PRK12379 1004788004364 phosphate acetyltransferase; Reviewed; Region: PRK05632 1004788004365 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 1004788004366 DRTGG domain; Region: DRTGG; pfam07085 1004788004367 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1004788004368 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004788004369 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 1004788004370 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 1004788004371 active site 1004788004372 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1004788004373 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1004788004374 putative active site [active] 1004788004375 catalytic triad [active] 1004788004376 putative dimer interface [polypeptide binding]; other site 1004788004377 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1004788004378 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 1004788004379 Transporter associated domain; Region: CorC_HlyC; smart01091 1004788004380 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1004788004381 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1004788004382 PhoH-like protein; Region: PhoH; pfam02562 1004788004383 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1004788004384 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1004788004385 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 1004788004386 FeS/SAM binding site; other site 1004788004387 TRAM domain; Region: TRAM; pfam01938 1004788004388 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1004788004389 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004788004390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788004391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788004392 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1004788004393 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1004788004394 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 1004788004395 N-terminal plug; other site 1004788004396 ligand-binding site [chemical binding]; other site 1004788004397 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 1004788004398 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1004788004399 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004788004400 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1004788004401 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1004788004402 classical (c) SDRs; Region: SDR_c; cd05233 1004788004403 NAD(P) binding site [chemical binding]; other site 1004788004404 active site 1004788004405 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1004788004406 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004788004407 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004788004408 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004788004409 amino acid carrier protein; Region: agcS; TIGR00835 1004788004410 potential protein location (hypothetical protein AMEC673_06885 [Alteromonas macleodii str. 'English Channel 673']) that overlaps RNA (tRNA-Q) 1004788004411 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 1004788004412 active site 1004788004413 GTP-binding protein YchF; Reviewed; Region: PRK09601 1004788004414 YchF GTPase; Region: YchF; cd01900 1004788004415 G1 box; other site 1004788004416 GTP/Mg2+ binding site [chemical binding]; other site 1004788004417 Switch I region; other site 1004788004418 G2 box; other site 1004788004419 Switch II region; other site 1004788004420 G3 box; other site 1004788004421 G4 box; other site 1004788004422 G5 box; other site 1004788004423 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 1004788004424 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 1004788004425 putative active site [active] 1004788004426 catalytic residue [active] 1004788004427 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1004788004428 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1004788004429 5S rRNA interface [nucleotide binding]; other site 1004788004430 CTC domain interface [polypeptide binding]; other site 1004788004431 L16 interface [polypeptide binding]; other site 1004788004432 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1004788004433 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1004788004434 putative NAD(P) binding site [chemical binding]; other site 1004788004435 putative substrate binding site [chemical binding]; other site 1004788004436 catalytic Zn binding site [ion binding]; other site 1004788004437 structural Zn binding site [ion binding]; other site 1004788004438 dimer interface [polypeptide binding]; other site 1004788004439 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1004788004440 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1004788004441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788004442 active site 1004788004443 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1004788004444 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004788004445 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1004788004446 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1004788004447 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1004788004448 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1004788004449 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1004788004450 tRNA; other site 1004788004451 putative tRNA binding site [nucleotide binding]; other site 1004788004452 putative NADP binding site [chemical binding]; other site 1004788004453 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1004788004454 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1004788004455 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1004788004456 RF-1 domain; Region: RF-1; pfam00472 1004788004457 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1004788004458 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 1004788004459 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788004460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004461 active site 1004788004462 phosphorylation site [posttranslational modification] 1004788004463 intermolecular recognition site; other site 1004788004464 dimerization interface [polypeptide binding]; other site 1004788004465 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004788004466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788004467 Zn2+ binding site [ion binding]; other site 1004788004468 Mg2+ binding site [ion binding]; other site 1004788004469 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1004788004470 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1004788004471 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1004788004472 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1004788004473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788004474 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 1004788004475 dimerization interface [polypeptide binding]; other site 1004788004476 substrate binding pocket [chemical binding]; other site 1004788004477 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1004788004478 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1004788004479 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1004788004480 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1004788004481 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1004788004482 elongation factor G; Reviewed; Region: PRK00007 1004788004483 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1004788004484 G1 box; other site 1004788004485 putative GEF interaction site [polypeptide binding]; other site 1004788004486 GTP/Mg2+ binding site [chemical binding]; other site 1004788004487 Switch I region; other site 1004788004488 G2 box; other site 1004788004489 G3 box; other site 1004788004490 Switch II region; other site 1004788004491 G4 box; other site 1004788004492 G5 box; other site 1004788004493 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 1004788004494 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 1004788004495 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 1004788004496 cyanate hydratase; Validated; Region: PRK02866 1004788004497 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 1004788004498 oligomer interface [polypeptide binding]; other site 1004788004499 active site 1004788004500 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1004788004501 active site 1004788004502 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1004788004503 active site 1004788004504 ATP binding site [chemical binding]; other site 1004788004505 substrate binding site [chemical binding]; other site 1004788004506 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1004788004507 substrate binding site [chemical binding]; other site 1004788004508 activation loop (A-loop); other site 1004788004509 activation loop (A-loop); other site 1004788004510 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1004788004511 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1004788004512 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1004788004513 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1004788004514 Protein of unknown function DUF58; Region: DUF58; pfam01882 1004788004515 MoxR-like ATPases [General function prediction only]; Region: COG0714 1004788004516 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 1004788004517 Walker A motif; other site 1004788004518 ATP binding site [chemical binding]; other site 1004788004519 Walker B motif; other site 1004788004520 arginine finger; other site 1004788004521 SeqA protein; Region: SeqA; cl11470 1004788004522 SeqA protein; Region: SeqA; cl11470 1004788004523 phosphoglucomutase; Validated; Region: PRK07564 1004788004524 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 1004788004525 active site 1004788004526 substrate binding site [chemical binding]; other site 1004788004527 metal binding site [ion binding]; metal-binding site 1004788004528 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 1004788004529 homodimer interface [polypeptide binding]; other site 1004788004530 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1004788004531 active site pocket [active] 1004788004532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004533 metal binding site [ion binding]; metal-binding site 1004788004534 active site 1004788004535 I-site; other site 1004788004536 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 1004788004537 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1004788004538 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004788004539 putative active site [active] 1004788004540 Zn binding site [ion binding]; other site 1004788004541 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 1004788004542 nucleotide binding site/active site [active] 1004788004543 HIT family signature motif; other site 1004788004544 catalytic residue [active] 1004788004545 hypothetical protein; Provisional; Region: PRK02877 1004788004546 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004788004547 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1004788004548 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1004788004549 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1004788004550 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1004788004551 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1004788004552 metal binding site [ion binding]; metal-binding site 1004788004553 dimer interface [polypeptide binding]; other site 1004788004554 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 1004788004555 ArsC family; Region: ArsC; pfam03960 1004788004556 putative catalytic residues [active] 1004788004557 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 1004788004558 HPr interaction site; other site 1004788004559 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1004788004560 active site 1004788004561 phosphorylation site [posttranslational modification] 1004788004562 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1004788004563 Family description; Region: ACT_7; pfam13840 1004788004564 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 1004788004565 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788004566 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1004788004567 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1004788004568 dimer interface [polypeptide binding]; other site 1004788004569 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1004788004570 active site 1004788004571 Fe binding site [ion binding]; other site 1004788004572 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1004788004573 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004788004574 MarR family; Region: MarR_2; pfam12802 1004788004575 PAS domain; Region: PAS_9; pfam13426 1004788004576 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 1004788004577 putative active site [active] 1004788004578 heme pocket [chemical binding]; other site 1004788004579 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004581 metal binding site [ion binding]; metal-binding site 1004788004582 active site 1004788004583 I-site; other site 1004788004584 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 1004788004585 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004587 metal binding site [ion binding]; metal-binding site 1004788004588 active site 1004788004589 I-site; other site 1004788004590 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 1004788004591 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1004788004592 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1004788004593 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788004594 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788004595 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788004596 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788004597 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1004788004598 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1004788004599 TrkA-N domain; Region: TrkA_N; pfam02254 1004788004600 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788004601 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1004788004602 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788004603 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1004788004604 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004788004605 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788004606 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788004607 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1004788004608 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 1004788004609 catalytic loop [active] 1004788004610 iron binding site [ion binding]; other site 1004788004611 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004788004612 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004788004613 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1004788004614 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1004788004615 PAS domain S-box; Region: sensory_box; TIGR00229 1004788004616 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 1004788004617 putative active site [active] 1004788004618 heme pocket [chemical binding]; other site 1004788004619 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 1004788004620 PAS fold; Region: PAS_3; pfam08447 1004788004621 putative active site [active] 1004788004622 heme pocket [chemical binding]; other site 1004788004623 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004625 metal binding site [ion binding]; metal-binding site 1004788004626 active site 1004788004627 I-site; other site 1004788004628 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1004788004629 Predicted membrane protein [Function unknown]; Region: COG3748 1004788004630 Cytochrome c; Region: Cytochrom_C; pfam00034 1004788004631 guanine deaminase; Provisional; Region: PRK09228 1004788004632 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 1004788004633 active site 1004788004634 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 1004788004635 active site 1004788004636 homotetramer interface [polypeptide binding]; other site 1004788004637 putative OHCU decarboxylase; Provisional; Region: PRK13798 1004788004638 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1004788004639 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1004788004640 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1004788004641 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1004788004642 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004788004643 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788004644 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1004788004645 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 1004788004646 catalytic loop [active] 1004788004647 iron binding site [ion binding]; other site 1004788004648 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004788004649 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1004788004650 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1004788004651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788004652 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1004788004653 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1004788004654 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1004788004655 active site 1004788004656 catalytic site [active] 1004788004657 tetramer interface [polypeptide binding]; other site 1004788004658 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1004788004659 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1004788004660 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1004788004661 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 1004788004662 active site 1004788004663 purine riboside binding site [chemical binding]; other site 1004788004664 Hpt domain; Region: Hpt; pfam01627 1004788004665 putative binding surface; other site 1004788004666 active site 1004788004667 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788004668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004669 active site 1004788004670 phosphorylation site [posttranslational modification] 1004788004671 intermolecular recognition site; other site 1004788004672 dimerization interface [polypeptide binding]; other site 1004788004673 PAS fold; Region: PAS; pfam00989 1004788004674 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 1004788004675 putative active site [active] 1004788004676 heme pocket [chemical binding]; other site 1004788004677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004679 metal binding site [ion binding]; metal-binding site 1004788004680 active site 1004788004681 I-site; other site 1004788004682 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 1004788004683 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788004684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004685 active site 1004788004686 phosphorylation site [posttranslational modification] 1004788004687 intermolecular recognition site; other site 1004788004688 dimerization interface [polypeptide binding]; other site 1004788004689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004691 metal binding site [ion binding]; metal-binding site 1004788004692 active site 1004788004693 I-site; other site 1004788004694 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788004695 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 1004788004696 dimer interface [polypeptide binding]; other site 1004788004697 phosphorylation site [posttranslational modification] 1004788004698 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 1004788004699 ATP binding site [chemical binding]; other site 1004788004700 Mg2+ binding site [ion binding]; other site 1004788004701 G-X-G motif; other site 1004788004702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004703 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788004704 active site 1004788004705 phosphorylation site [posttranslational modification] 1004788004706 intermolecular recognition site; other site 1004788004707 dimerization interface [polypeptide binding]; other site 1004788004708 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1004788004709 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788004710 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 1004788004711 xanthine permease; Region: pbuX; TIGR03173 1004788004712 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 1004788004713 active site 1004788004714 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1004788004715 allantoate amidohydrolase; Reviewed; Region: PRK09290 1004788004716 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1004788004717 active site 1004788004718 metal binding site [ion binding]; metal-binding site 1004788004719 dimer interface [polypeptide binding]; other site 1004788004720 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1004788004721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788004722 catalytic residue [active] 1004788004723 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004788004724 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1004788004725 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004788004726 Amidase; Region: Amidase; cl11426 1004788004727 indole-3-acetamide amidohydrolase; Region: PLN02722 1004788004728 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1004788004729 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1004788004730 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1004788004731 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 1004788004732 putative active site [active] 1004788004733 CAAX protease self-immunity; Region: Abi; pfam02517 1004788004734 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788004735 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788004736 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1004788004737 pteridine reductase; Provisional; Region: PRK09135 1004788004738 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1004788004739 NADP binding site [chemical binding]; other site 1004788004740 substrate binding pocket [chemical binding]; other site 1004788004741 active site 1004788004742 Phosphotransferase enzyme family; Region: APH; pfam01636 1004788004743 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 1004788004744 active site 1004788004745 ATP binding site [chemical binding]; other site 1004788004746 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1004788004747 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 1004788004748 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1004788004749 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 1004788004750 active site 1004788004751 dimer interface [polypeptide binding]; other site 1004788004752 motif 1; other site 1004788004753 motif 2; other site 1004788004754 motif 3; other site 1004788004755 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 1004788004756 anticodon binding site; other site 1004788004757 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1004788004758 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1004788004759 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1004788004760 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1004788004761 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1004788004762 23S rRNA binding site [nucleotide binding]; other site 1004788004763 L21 binding site [polypeptide binding]; other site 1004788004764 L13 binding site [polypeptide binding]; other site 1004788004765 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1004788004766 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1004788004767 Substrate binding site; other site 1004788004768 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1004788004769 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1004788004770 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 1004788004771 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1004788004772 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1004788004773 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004788004774 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1004788004775 SLBB domain; Region: SLBB; pfam10531 1004788004776 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1004788004777 Chain length determinant protein; Region: Wzz; pfam02706 1004788004778 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1004788004779 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1004788004780 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 1004788004781 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1004788004782 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 1004788004783 TPR motif; other site 1004788004784 binding surface 1004788004785 O-Antigen ligase; Region: Wzy_C; pfam04932 1004788004786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004788 metal binding site [ion binding]; metal-binding site 1004788004789 active site 1004788004790 I-site; other site 1004788004791 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 1004788004792 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1004788004793 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788004794 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 1004788004795 putative ADP-binding pocket [chemical binding]; other site 1004788004796 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788004797 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1004788004798 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 1004788004799 active site 1004788004800 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 1004788004801 colanic acid exporter; Provisional; Region: PRK10459 1004788004802 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1004788004803 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1004788004804 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1004788004805 Right handed beta helix region; Region: Beta_helix; pfam13229 1004788004806 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 1004788004807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788004808 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788004809 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 1004788004810 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 1004788004811 putative ADP-binding pocket [chemical binding]; other site 1004788004812 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004788004813 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 1004788004814 active site 1004788004815 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1004788004816 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1004788004817 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1004788004818 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 1004788004819 dimer interface [polypeptide binding]; other site 1004788004820 motif 1; other site 1004788004821 active site 1004788004822 motif 2; other site 1004788004823 motif 3; other site 1004788004824 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1004788004825 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 1004788004826 putative tRNA-binding site [nucleotide binding]; other site 1004788004827 B3/4 domain; Region: B3_4; pfam03483 1004788004828 tRNA synthetase B5 domain; Region: B5; smart00874 1004788004829 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 1004788004830 dimer interface [polypeptide binding]; other site 1004788004831 motif 1; other site 1004788004832 motif 3; other site 1004788004833 motif 2; other site 1004788004834 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1004788004835 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 1004788004836 IHF dimer interface [polypeptide binding]; other site 1004788004837 IHF - DNA interface [nucleotide binding]; other site 1004788004838 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 1004788004839 putative deacylase active site [active] 1004788004840 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1004788004841 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 1004788004842 active site 1004788004843 beta-hexosaminidase; Provisional; Region: PRK05337 1004788004844 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004788004845 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1004788004846 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004788004847 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004788004848 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1004788004849 transcription-repair coupling factor; Provisional; Region: PRK10689 1004788004850 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1004788004851 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 1004788004852 ATP binding site [chemical binding]; other site 1004788004853 putative Mg++ binding site [ion binding]; other site 1004788004854 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 1004788004855 nucleotide binding region [chemical binding]; other site 1004788004856 ATP-binding site [chemical binding]; other site 1004788004857 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1004788004858 PilZ domain; Region: PilZ; pfam07238 1004788004859 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1004788004860 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004788004861 FtsX-like permease family; Region: FtsX; pfam02687 1004788004862 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788004863 active site 1004788004864 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 1004788004865 dimer interface [polypeptide binding]; other site 1004788004866 phosphorylation site [posttranslational modification] 1004788004867 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 1004788004868 ATP binding site [chemical binding]; other site 1004788004869 Mg2+ binding site [ion binding]; other site 1004788004870 G-X-G motif; other site 1004788004871 FIST N domain; Region: FIST; pfam08495 1004788004872 FIST C domain; Region: FIST_C; pfam10442 1004788004873 Predicted membrane protein [Function unknown]; Region: COG3235 1004788004874 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1004788004875 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 1004788004876 putative catalytic site [active] 1004788004877 putative phosphate binding site [ion binding]; other site 1004788004878 active site 1004788004879 metal binding site A [ion binding]; metal-binding site 1004788004880 DNA binding site [nucleotide binding] 1004788004881 putative AP binding site [nucleotide binding]; other site 1004788004882 putative metal binding site B [ion binding]; other site 1004788004883 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1004788004884 Fe-S metabolism associated domain; Region: SufE; cl00951 1004788004885 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788004886 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1004788004887 HDOD domain; Region: HDOD; pfam08668 1004788004888 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1004788004889 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 1004788004890 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1004788004891 active site 1004788004892 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 1004788004893 active site 2 [active] 1004788004894 active site 1 [active] 1004788004895 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 1004788004896 D-galactonate transporter; Region: 2A0114; TIGR00893 1004788004897 putative substrate translocation pore; other site 1004788004898 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1004788004899 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1004788004900 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1004788004901 ligand binding site; other site 1004788004902 oligomer interface; other site 1004788004903 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 1004788004904 dimer interface [polypeptide binding]; other site 1004788004905 N-terminal domain interface [polypeptide binding]; other site 1004788004906 sulfate 1 binding site; other site 1004788004907 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1004788004908 putative hydrophobic ligand binding site [chemical binding]; other site 1004788004909 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1004788004910 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1004788004911 active site 1004788004912 catalytic residues [active] 1004788004913 metal binding site [ion binding]; metal-binding site 1004788004914 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1004788004915 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004788004916 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788004917 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1004788004918 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 1004788004919 carboxyltransferase (CT) interaction site; other site 1004788004920 biotinylation site [posttranslational modification]; other site 1004788004921 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 1004788004922 enoyl-CoA hydratase; Provisional; Region: PRK05995 1004788004923 substrate binding site [chemical binding]; other site 1004788004924 oxyanion hole (OAH) forming residues; other site 1004788004925 trimer interface [polypeptide binding]; other site 1004788004926 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1004788004927 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1004788004928 isovaleryl-CoA dehydrogenase; Region: PLN02519 1004788004929 substrate binding site [chemical binding]; other site 1004788004930 FAD binding site [chemical binding]; other site 1004788004931 catalytic base [active] 1004788004932 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1004788004933 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1004788004934 DNA binding residues [nucleotide binding] 1004788004935 putative dimer interface [polypeptide binding]; other site 1004788004936 putative acyltransferase; Provisional; Region: PRK05790 1004788004937 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 1004788004938 dimer interface [polypeptide binding]; other site 1004788004939 active site 1004788004940 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1004788004941 kynureninase; Region: kynureninase; TIGR01814 1004788004942 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 1004788004943 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788004944 catalytic residue [active] 1004788004945 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788004946 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 1004788004947 substrate binding pocket [chemical binding]; other site 1004788004948 membrane-bound complex binding site; other site 1004788004949 hinge residues; other site 1004788004950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788004951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788004952 metal binding site [ion binding]; metal-binding site 1004788004953 active site 1004788004954 I-site; other site 1004788004955 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1004788004956 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1004788004957 exonuclease I; Provisional; Region: sbcB; PRK11779 1004788004958 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1004788004959 active site 1004788004960 catalytic site [active] 1004788004961 substrate binding site [chemical binding]; other site 1004788004962 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1004788004963 PAS domain; Region: PAS_9; pfam13426 1004788004964 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 1004788004965 phosphorylation site [posttranslational modification] 1004788004966 dimer interface [polypeptide binding]; other site 1004788004967 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 1004788004968 ATP binding site [chemical binding]; other site 1004788004969 Mg2+ binding site [ion binding]; other site 1004788004970 G-X-G motif; other site 1004788004971 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788004972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788004973 active site 1004788004974 phosphorylation site [posttranslational modification] 1004788004975 intermolecular recognition site; other site 1004788004976 dimerization interface [polypeptide binding]; other site 1004788004977 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 1004788004978 catalytic nucleophile [active] 1004788004979 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1004788004980 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1004788004981 catalytic residues [active] 1004788004982 catalytic nucleophile [active] 1004788004983 Recombinase; Region: Recombinase; pfam07508 1004788004984 Helix-turn-helix; Region: HTH_3; pfam01381 1004788004985 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1004788004986 cyclase homology domain; Region: CHD; cd07302 1004788004987 nucleotidyl binding site; other site 1004788004988 metal binding site [ion binding]; metal-binding site 1004788004989 dimer interface [polypeptide binding]; other site 1004788004990 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1004788004991 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1004788004992 catalytic residues [active] 1004788004993 catalytic nucleophile [active] 1004788004994 Presynaptic Site I dimer interface [polypeptide binding]; other site 1004788004995 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1004788004996 Synaptic Flat tetramer interface [polypeptide binding]; other site 1004788004997 Synaptic Site I dimer interface [polypeptide binding]; other site 1004788004998 DNA binding site [nucleotide binding] 1004788004999 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1004788005000 DNA-binding interface [nucleotide binding]; DNA binding site 1004788005001 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 1004788005002 active site 1004788005003 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1004788005004 active site 1004788005005 dimer interface [polypeptide binding]; other site 1004788005006 FOG: CBS domain [General function prediction only]; Region: COG0517 1004788005007 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 1004788005008 Phytase; Region: Phytase; cl17685 1004788005009 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004788005010 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788005011 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 1004788005012 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 1004788005013 ligand-binding site [chemical binding]; other site 1004788005014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788005015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788005016 metal binding site [ion binding]; metal-binding site 1004788005017 active site 1004788005018 I-site; other site 1004788005019 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1004788005020 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004788005021 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1004788005022 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1004788005023 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 1004788005024 ATP binding site [chemical binding]; other site 1004788005025 putative Mg++ binding site [ion binding]; other site 1004788005026 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 1004788005027 nucleotide binding region [chemical binding]; other site 1004788005028 ATP-binding site [chemical binding]; other site 1004788005029 Helicase associated domain (HA2); Region: HA2; pfam04408 1004788005030 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1004788005031 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1004788005032 PilZ domain; Region: PilZ; pfam07238 1004788005033 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 1004788005034 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1004788005035 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1004788005036 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1004788005037 putative RNA binding site [nucleotide binding]; other site 1004788005038 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 1004788005039 S-adenosylmethionine binding site [chemical binding]; other site 1004788005040 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1004788005041 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1004788005042 NAD(P) binding site [chemical binding]; other site 1004788005043 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1004788005044 RNA/DNA hybrid binding site [nucleotide binding]; other site 1004788005045 active site 1004788005046 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1004788005047 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 1004788005048 active site 1004788005049 catalytic site [active] 1004788005050 substrate binding site [chemical binding]; other site 1004788005051 TIGR03503 family protein; Region: TIGR03503 1004788005052 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1004788005053 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1004788005054 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 1004788005055 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1004788005056 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004788005057 Walker A/P-loop; other site 1004788005058 ATP binding site [chemical binding]; other site 1004788005059 Q-loop/lid; other site 1004788005060 ABC transporter signature motif; other site 1004788005061 Walker B; other site 1004788005062 D-loop; other site 1004788005063 H-loop/switch region; other site 1004788005064 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1004788005065 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004788005066 FtsX-like permease family; Region: FtsX; pfam02687 1004788005067 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1004788005068 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1004788005069 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1004788005070 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1004788005071 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1004788005072 succinylarginine dihydrolase; Provisional; Region: PRK13281 1004788005073 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1004788005074 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 1004788005075 active site 1004788005076 interdomain interaction site; other site 1004788005077 putative metal-binding site [ion binding]; other site 1004788005078 nucleotide binding site [chemical binding]; other site 1004788005079 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 1004788005080 domain I; other site 1004788005081 DNA binding groove [nucleotide binding] 1004788005082 phosphate binding site [ion binding]; other site 1004788005083 domain II; other site 1004788005084 domain III; other site 1004788005085 nucleotide binding site [chemical binding]; other site 1004788005086 catalytic site [active] 1004788005087 domain IV; other site 1004788005088 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004788005089 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1004788005090 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1004788005091 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1004788005092 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1004788005093 Leishmanolysin; Region: Peptidase_M8; pfam01457 1004788005094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788005095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788005096 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 1004788005097 dimerization interface [polypeptide binding]; other site 1004788005098 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1004788005099 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1004788005100 GTP binding site; other site 1004788005101 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1004788005102 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1004788005103 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 1004788005104 putative molybdopterin cofactor binding site [chemical binding]; other site 1004788005105 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 1004788005106 putative molybdopterin cofactor binding site; other site 1004788005107 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1004788005108 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1004788005109 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788005110 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004788005111 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1004788005112 putative N-terminal domain interface [polypeptide binding]; other site 1004788005113 putative dimer interface [polypeptide binding]; other site 1004788005114 putative substrate binding pocket (H-site) [chemical binding]; other site 1004788005115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1004788005116 SnoaL-like domain; Region: SnoaL_2; pfam12680 1004788005117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788005118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788005119 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 1004788005120 dimerization interface [polypeptide binding]; other site 1004788005121 Autoinducer synthetase; Region: Autoind_synth; cl17404 1004788005122 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788005123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788005124 Coenzyme A binding pocket [chemical binding]; other site 1004788005125 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1004788005126 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 1004788005127 motif II; other site 1004788005128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788005129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788005130 active site 1004788005131 phosphorylation site [posttranslational modification] 1004788005132 intermolecular recognition site; other site 1004788005133 dimerization interface [polypeptide binding]; other site 1004788005134 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 1004788005135 DNA binding site [nucleotide binding] 1004788005136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788005137 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 1004788005138 dimerization interface [polypeptide binding]; other site 1004788005139 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 1004788005140 dimer interface [polypeptide binding]; other site 1004788005141 phosphorylation site [posttranslational modification] 1004788005142 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 1004788005143 ATP binding site [chemical binding]; other site 1004788005144 Mg2+ binding site [ion binding]; other site 1004788005145 G-X-G motif; other site 1004788005146 Ecdysteroid kinase; Region: EcKinase; cl17738 1004788005147 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1004788005148 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 1004788005149 homodimer interface [polypeptide binding]; other site 1004788005150 oligonucleotide binding site [chemical binding]; other site 1004788005151 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1004788005152 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 1004788005153 RNA binding surface [nucleotide binding]; other site 1004788005154 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004788005155 active site 1004788005156 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1004788005157 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 1004788005158 motif II; other site 1004788005159 Maf-like protein; Region: Maf; pfam02545 1004788005160 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 1004788005161 active site 1004788005162 dimer interface [polypeptide binding]; other site 1004788005163 hypothetical protein; Provisional; Region: PRK11193 1004788005164 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1004788005165 putative phosphate acyltransferase; Provisional; Region: PRK05331 1004788005166 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1004788005167 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 1004788005168 dimer interface [polypeptide binding]; other site 1004788005169 active site 1004788005170 CoA binding pocket [chemical binding]; other site 1004788005171 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1004788005172 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1004788005173 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004788005174 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1004788005175 NAD(P) binding site [chemical binding]; other site 1004788005176 homotetramer interface [polypeptide binding]; other site 1004788005177 homodimer interface [polypeptide binding]; other site 1004788005178 active site 1004788005179 acyl carrier protein; Provisional; Region: acpP; PRK00982 1004788005180 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1004788005181 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 1004788005182 dimer interface [polypeptide binding]; other site 1004788005183 active site 1004788005184 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1004788005185 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 1004788005186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788005187 catalytic residue [active] 1004788005188 YceG-like family; Region: YceG; pfam02618 1004788005189 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1004788005190 dimerization interface [polypeptide binding]; other site 1004788005191 thymidylate kinase; Validated; Region: tmk; PRK00698 1004788005192 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 1004788005193 TMP-binding site; other site 1004788005194 ATP-binding site [chemical binding]; other site 1004788005195 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1004788005196 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 1004788005197 Walker A motif; other site 1004788005198 ATP binding site [chemical binding]; other site 1004788005199 Walker B motif; other site 1004788005200 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1004788005201 arginine finger; other site 1004788005202 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004788005203 active site 1004788005204 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1004788005205 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 1004788005206 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1004788005207 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1004788005208 NAD(P) binding site [chemical binding]; other site 1004788005209 putative active site [active] 1004788005210 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004788005211 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004788005212 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788005213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788005214 metal binding site [ion binding]; metal-binding site 1004788005215 active site 1004788005216 I-site; other site 1004788005217 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 1004788005218 active site 1004788005219 Zn binding site [ion binding]; other site 1004788005220 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 1004788005221 putative active site pocket [active] 1004788005222 dimerization interface [polypeptide binding]; other site 1004788005223 putative catalytic residue [active] 1004788005224 Tic20-like protein; Region: Tic20; pfam09685 1004788005225 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1004788005226 classical (c) SDRs; Region: SDR_c; cd05233 1004788005227 NAD(P) binding site [chemical binding]; other site 1004788005228 active site 1004788005229 haloalkane dehalogenase; Provisional; Region: PRK00870 1004788005230 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788005231 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 1004788005232 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1004788005233 substrate binding site [chemical binding]; other site 1004788005234 oxyanion hole (OAH) forming residues; other site 1004788005235 trimer interface [polypeptide binding]; other site 1004788005236 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1004788005237 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004788005238 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1004788005239 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1004788005240 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 1004788005241 dimer interface [polypeptide binding]; other site 1004788005242 active site 1004788005243 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004788005244 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004788005245 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788005246 active site 1004788005247 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004788005248 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004788005249 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788005250 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788005251 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1004788005252 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1004788005253 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1004788005254 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 1004788005255 motif II; other site 1004788005256 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1004788005257 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1004788005258 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1004788005259 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1004788005260 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788005261 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1004788005262 metal binding site 2 [ion binding]; metal-binding site 1004788005263 putative DNA binding helix; other site 1004788005264 metal binding site 1 [ion binding]; metal-binding site 1004788005265 dimer interface [polypeptide binding]; other site 1004788005266 structural Zn2+ binding site [ion binding]; other site 1004788005267 dihydroorotase; Validated; Region: pyrC; PRK09357 1004788005268 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 1004788005269 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 1004788005270 active site 1004788005271 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1004788005272 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1004788005273 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 1004788005274 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1004788005275 FAD binding domain; Region: FAD_binding_4; pfam01565 1004788005276 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1004788005277 Predicted acyl esterases [General function prediction only]; Region: COG2936 1004788005278 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788005279 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1004788005280 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004788005281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788005282 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 1004788005283 substrate binding pocket [chemical binding]; other site 1004788005284 dimerization interface [polypeptide binding]; other site 1004788005285 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 1004788005286 active site 2 [active] 1004788005287 active site 1 [active] 1004788005288 Entericidin EcnA/B family; Region: Entericidin; cl02322 1004788005289 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788005290 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788005291 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788005292 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 1004788005293 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 1004788005294 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 1004788005295 aromatic arch; other site 1004788005296 DCoH dimer interaction site [polypeptide binding]; other site 1004788005297 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1004788005298 DCoH tetramer interaction site [polypeptide binding]; other site 1004788005299 substrate binding site [chemical binding]; other site 1004788005300 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1004788005301 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004788005302 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004788005303 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004788005304 PAS domain S-box; Region: sensory_box; TIGR00229 1004788005305 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 1004788005306 putative active site [active] 1004788005307 heme pocket [chemical binding]; other site 1004788005308 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 1004788005309 PAS fold; Region: PAS_3; pfam08447 1004788005310 putative active site [active] 1004788005311 heme pocket [chemical binding]; other site 1004788005312 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 1004788005313 dimer interface [polypeptide binding]; other site 1004788005314 phosphorylation site [posttranslational modification] 1004788005315 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 1004788005316 ATP binding site [chemical binding]; other site 1004788005317 Mg2+ binding site [ion binding]; other site 1004788005318 G-X-G motif; other site 1004788005319 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788005320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788005321 active site 1004788005322 phosphorylation site [posttranslational modification] 1004788005323 intermolecular recognition site; other site 1004788005324 dimerization interface [polypeptide binding]; other site 1004788005325 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004788005326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788005327 active site 1004788005328 phosphorylation site [posttranslational modification] 1004788005329 intermolecular recognition site; other site 1004788005330 dimerization interface [polypeptide binding]; other site 1004788005331 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788005332 Zn2+ binding site [ion binding]; other site 1004788005333 Mg2+ binding site [ion binding]; other site 1004788005334 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1004788005335 Sm and related proteins; Region: Sm_like; cl00259 1004788005336 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1004788005337 putative oligomer interface [polypeptide binding]; other site 1004788005338 putative RNA binding site [nucleotide binding]; other site 1004788005339 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1004788005340 NusA N-terminal domain; Region: NusA_N; pfam08529 1004788005341 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 1004788005342 RNA binding site [nucleotide binding]; other site 1004788005343 homodimer interface [polypeptide binding]; other site 1004788005344 NusA-like KH domain; Region: KH_5; pfam13184 1004788005345 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 1004788005346 G-X-X-G motif; other site 1004788005347 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1004788005348 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1004788005349 translation initiation factor IF-2; Region: IF-2; TIGR00487 1004788005350 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1004788005351 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1004788005352 G1 box; other site 1004788005353 putative GEF interaction site [polypeptide binding]; other site 1004788005354 GTP/Mg2+ binding site [chemical binding]; other site 1004788005355 Switch I region; other site 1004788005356 G2 box; other site 1004788005357 G3 box; other site 1004788005358 Switch II region; other site 1004788005359 G4 box; other site 1004788005360 G5 box; other site 1004788005361 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 1004788005362 Translation-initiation factor 2; Region: IF-2; pfam11987 1004788005363 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 1004788005364 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1004788005365 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1004788005366 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1004788005367 RNA binding site [nucleotide binding]; other site 1004788005368 active site 1004788005369 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 1004788005370 16S/18S rRNA binding site [nucleotide binding]; other site 1004788005371 S13e-L30e interaction site [polypeptide binding]; other site 1004788005372 25S rRNA binding site [nucleotide binding]; other site 1004788005373 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1004788005374 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004788005375 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1004788005376 PAS domain; Region: PAS; smart00091 1004788005377 PAS domain; Region: PAS_9; pfam13426 1004788005378 putative active site [active] 1004788005379 heme pocket [chemical binding]; other site 1004788005380 PAS fold; Region: PAS_4; pfam08448 1004788005381 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 1004788005382 putative active site [active] 1004788005383 heme pocket [chemical binding]; other site 1004788005384 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788005385 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788005386 metal binding site [ion binding]; metal-binding site 1004788005387 active site 1004788005388 I-site; other site 1004788005389 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 1004788005390 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1004788005391 RNA binding surface [nucleotide binding]; other site 1004788005392 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1004788005393 probable active site [active] 1004788005394 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1004788005395 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 1004788005396 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1004788005397 putative active site [active] 1004788005398 catalytic triad [active] 1004788005399 putative dimer interface [polypeptide binding]; other site 1004788005400 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1004788005401 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1004788005402 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788005403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788005404 active site 1004788005405 phosphorylation site [posttranslational modification] 1004788005406 intermolecular recognition site; other site 1004788005407 dimerization interface [polypeptide binding]; other site 1004788005408 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 1004788005409 binding surface 1004788005410 TPR motif; other site 1004788005411 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 1004788005412 generic binding surface I; other site 1004788005413 generic binding surface II; other site 1004788005414 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004788005415 putative catalytic site [active] 1004788005416 putative metal binding site [ion binding]; other site 1004788005417 putative phosphate binding site [ion binding]; other site 1004788005418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1004788005419 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1004788005420 peroxiredoxin; Region: AhpC; TIGR03137 1004788005421 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 1004788005422 dimer interface [polypeptide binding]; other site 1004788005423 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1004788005424 catalytic triad [active] 1004788005425 peroxidatic and resolving cysteines [active] 1004788005426 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1004788005427 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 1004788005428 catalytic residue [active] 1004788005429 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 1004788005430 catalytic residues [active] 1004788005431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788005432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788005433 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1004788005434 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 1004788005435 N-terminal plug; other site 1004788005436 ligand-binding site [chemical binding]; other site 1004788005437 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788005438 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004788005439 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1004788005440 diiron binding motif [ion binding]; other site 1004788005441 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1004788005442 Strictosidine synthase; Region: Str_synth; pfam03088 1004788005443 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1004788005444 Active site serine [active] 1004788005445 hypothetical protein; Provisional; Region: PRK01254 1004788005446 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1004788005447 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1004788005448 EVE domain; Region: EVE; cl00728 1004788005449 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788005450 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 1004788005451 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 1004788005452 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1004788005453 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004788005454 mercuric reductase; Validated; Region: PRK06370 1004788005455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788005456 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004788005457 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1004788005458 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1004788005459 hypothetical protein; Provisional; Region: PRK11622 1004788005460 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1004788005461 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 1004788005462 dimer interface [polypeptide binding]; other site 1004788005463 conserved gate region; other site 1004788005464 putative PBP binding loops; other site 1004788005465 ABC-ATPase subunit interface; other site 1004788005466 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1004788005467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788005468 Walker A/P-loop; other site 1004788005469 ATP binding site [chemical binding]; other site 1004788005470 Q-loop/lid; other site 1004788005471 ABC transporter signature motif; other site 1004788005472 Walker B; other site 1004788005473 D-loop; other site 1004788005474 H-loop/switch region; other site 1004788005475 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1004788005476 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1004788005477 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1004788005478 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 1004788005479 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1004788005480 active site 1004788005481 substrate binding site [chemical binding]; other site 1004788005482 Mg2+ binding site [ion binding]; other site 1004788005483 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788005484 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 1004788005485 putative NAD(P) binding site [chemical binding]; other site 1004788005486 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1004788005487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788005488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788005489 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 1004788005490 putative effector binding pocket; other site 1004788005491 dimerization interface [polypeptide binding]; other site 1004788005492 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788005493 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 1004788005494 N-terminal plug; other site 1004788005495 ligand-binding site [chemical binding]; other site 1004788005496 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 1004788005497 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1004788005498 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 1004788005499 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1004788005500 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1004788005501 Walker A/P-loop; other site 1004788005502 ATP binding site [chemical binding]; other site 1004788005503 Q-loop/lid; other site 1004788005504 ABC transporter signature motif; other site 1004788005505 Walker B; other site 1004788005506 D-loop; other site 1004788005507 H-loop/switch region; other site 1004788005508 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788005509 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 1004788005510 putative active site [active] 1004788005511 putative FMN binding site [chemical binding]; other site 1004788005512 putative substrate binding site [chemical binding]; other site 1004788005513 putative catalytic residue [active] 1004788005514 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 1004788005515 SmpB-tmRNA interface; other site 1004788005516 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1004788005517 putative coenzyme Q binding site [chemical binding]; other site 1004788005518 hypothetical protein; Validated; Region: PRK01777 1004788005519 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1004788005520 MarR family; Region: MarR; pfam01047 1004788005521 BCCT family transporter; Region: BCCT; cl00569 1004788005522 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788005523 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788005524 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 1004788005525 TPR repeat; Region: TPR_11; pfam13414 1004788005526 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 1004788005527 binding surface 1004788005528 TPR motif; other site 1004788005529 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 1004788005530 TPR motif; other site 1004788005531 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004788005532 binding surface 1004788005533 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 1004788005534 binding surface 1004788005535 TPR motif; other site 1004788005536 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 1004788005537 binding surface 1004788005538 TPR motif; other site 1004788005539 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1004788005540 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1004788005541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 1004788005542 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1004788005543 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1004788005544 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1004788005545 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1004788005546 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1004788005547 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1004788005548 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004788005549 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788005550 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788005551 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 1004788005552 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 1004788005553 catalytic loop [active] 1004788005554 iron binding site [ion binding]; other site 1004788005555 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004788005556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1004788005557 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1004788005558 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1004788005559 cyclase homology domain; Region: CHD; cd07302 1004788005560 nucleotidyl binding site; other site 1004788005561 metal binding site [ion binding]; metal-binding site 1004788005562 dimer interface [polypeptide binding]; other site 1004788005563 adenylosuccinate lyase; Provisional; Region: PRK09285 1004788005564 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1004788005565 tetramer interface [polypeptide binding]; other site 1004788005566 active site 1004788005567 putative lysogenization regulator; Reviewed; Region: PRK00218 1004788005568 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1004788005569 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 1004788005570 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1004788005571 pseudouridine synthase; Region: TIGR00093 1004788005572 probable active site [active] 1004788005573 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1004788005574 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1004788005575 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 1004788005576 DNA-binding site [nucleotide binding]; DNA binding site 1004788005577 RNA-binding motif; other site 1004788005578 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1004788005579 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1004788005580 Clp amino terminal domain; Region: Clp_N; pfam02861 1004788005581 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 1004788005582 Walker A motif; other site 1004788005583 ATP binding site [chemical binding]; other site 1004788005584 Walker B motif; other site 1004788005585 arginine finger; other site 1004788005586 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 1004788005587 Walker A motif; other site 1004788005588 ATP binding site [chemical binding]; other site 1004788005589 Walker B motif; other site 1004788005590 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004788005591 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 1004788005592 rRNA binding site [nucleotide binding]; other site 1004788005593 predicted 30S ribosome binding site; other site 1004788005594 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1004788005595 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1004788005596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788005597 Coenzyme A binding pocket [chemical binding]; other site 1004788005598 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1004788005599 thioredoxin reductase; Provisional; Region: PRK10262 1004788005600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788005601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788005602 Protein of unknown function, DUF412; Region: DUF412; pfam04217 1004788005603 protease 4; Provisional; Region: PRK10949 1004788005604 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1004788005605 tandem repeat interface [polypeptide binding]; other site 1004788005606 oligomer interface [polypeptide binding]; other site 1004788005607 active site residues [active] 1004788005608 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1004788005609 tandem repeat interface [polypeptide binding]; other site 1004788005610 oligomer interface [polypeptide binding]; other site 1004788005611 active site residues [active] 1004788005612 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 1004788005613 putative FMN binding site [chemical binding]; other site 1004788005614 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1004788005615 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1004788005616 active site 1004788005617 homodimer interface [polypeptide binding]; other site 1004788005618 lipoyl synthase; Provisional; Region: PRK05481 1004788005619 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 1004788005620 FeS/SAM binding site; other site 1004788005621 lipoate-protein ligase B; Provisional; Region: PRK14342 1004788005622 hypothetical protein; Provisional; Region: PRK04998 1004788005623 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1004788005624 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1004788005625 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1004788005626 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1004788005627 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1004788005628 Sporulation related domain; Region: SPOR; pfam05036 1004788005629 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1004788005630 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1004788005631 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1004788005632 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1004788005633 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1004788005634 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1004788005635 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1004788005636 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1004788005637 active site 1004788005638 (T/H)XGH motif; other site 1004788005639 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1004788005640 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1004788005641 Lipopolysaccharide-assembly; Region: LptE; cl01125 1004788005642 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1004788005643 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1004788005644 HIGH motif; other site 1004788005645 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004788005646 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004788005647 active site 1004788005648 KMSKS motif; other site 1004788005649 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1004788005650 tRNA binding surface [nucleotide binding]; other site 1004788005651 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1004788005652 AAA domain; Region: AAA_32; pfam13654 1004788005653 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1004788005654 RDD family; Region: RDD; pfam06271 1004788005655 HTH-like domain; Region: HTH_21; pfam13276 1004788005656 Integrase core domain; Region: rve; pfam00665 1004788005657 Integrase core domain; Region: rve_2; pfam13333 1004788005658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004788005659 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1004788005660 NAD binding site [chemical binding]; other site 1004788005661 homodimer interface [polypeptide binding]; other site 1004788005662 homotetramer interface [polypeptide binding]; other site 1004788005663 active site 1004788005664 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1004788005665 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1004788005666 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 1004788005667 S-adenosylmethionine binding site [chemical binding]; other site 1004788005668 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1004788005669 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 1004788005670 Walker A motif; other site 1004788005671 ATP binding site [chemical binding]; other site 1004788005672 Walker B motif; other site 1004788005673 arginine finger; other site 1004788005674 Peptidase family M41; Region: Peptidase_M41; pfam01434 1004788005675 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 1004788005676 dihydropteroate synthase; Region: DHPS; TIGR01496 1004788005677 substrate binding pocket [chemical binding]; other site 1004788005678 dimer interface [polypeptide binding]; other site 1004788005679 inhibitor binding site; inhibition site 1004788005680 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1004788005681 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 1004788005682 active site 1004788005683 substrate binding site [chemical binding]; other site 1004788005684 metal binding site [ion binding]; metal-binding site 1004788005685 triosephosphate isomerase; Provisional; Region: PRK14567 1004788005686 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 1004788005687 substrate binding site [chemical binding]; other site 1004788005688 dimer interface [polypeptide binding]; other site 1004788005689 catalytic triad [active] 1004788005690 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1004788005691 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 1004788005692 Interdomain contacts; other site 1004788005693 Cytokine receptor motif; other site 1004788005694 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1004788005695 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 1004788005696 Interdomain contacts; other site 1004788005697 Cytokine receptor motif; other site 1004788005698 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1004788005699 Phage-related minor tail protein [Function unknown]; Region: COG5281 1004788005700 tape measure domain; Region: tape_meas_nterm; TIGR02675 1004788005701 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 1004788005702 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1004788005703 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1004788005704 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1004788005705 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1004788005706 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1004788005707 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1004788005708 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1004788005709 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1004788005710 Terminase-like family; Region: Terminase_6; pfam03237 1004788005711 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1004788005712 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1004788005713 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1004788005714 AAA domain; Region: AAA_25; pfam13481 1004788005715 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; cd01120 1004788005716 Walker A motif; other site 1004788005717 ATP binding site [chemical binding]; other site 1004788005718 Walker B motif; other site 1004788005719 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788005720 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1004788005721 Mor transcription activator family; Region: Mor; cl02360 1004788005722 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1004788005723 Fic family protein [Function unknown]; Region: COG3177 1004788005724 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 1004788005725 AAA domain; Region: AAA_22; pfam13401 1004788005726 Walker A motif; other site 1004788005727 ATP binding site [chemical binding]; other site 1004788005728 Walker B motif; other site 1004788005729 arginine finger; other site 1004788005730 Integrase core domain; Region: rve; pfam00665 1004788005731 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1004788005732 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1004788005733 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 1004788005734 non-specific DNA binding site [nucleotide binding]; other site 1004788005735 salt bridge; other site 1004788005736 sequence-specific DNA binding site [nucleotide binding]; other site 1004788005737 HAMP domain; Region: HAMP; pfam00672 1004788005738 dimerization interface [polypeptide binding]; other site 1004788005739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788005740 active site 1004788005741 I-site; other site 1004788005742 metal binding site [ion binding]; metal-binding site 1004788005743 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 1004788005744 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1004788005745 Hemerythrin-like domain; Region: Hr-like; cd12108 1004788005746 Fe binding site [ion binding]; other site 1004788005747 glutamate dehydrogenase; Provisional; Region: PRK09414 1004788005748 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1004788005749 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1004788005750 NAD(P) binding pocket [chemical binding]; other site 1004788005751 hypothetical protein; Provisional; Region: PRK12361 1004788005752 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 1004788005753 active site 1004788005754 catalytic residues [active] 1004788005755 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1004788005756 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1004788005757 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1004788005758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788005759 NAD(P) binding site [chemical binding]; other site 1004788005760 active site 1004788005761 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 1004788005762 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1004788005763 active site 1004788005764 motif I; other site 1004788005765 motif II; other site 1004788005766 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1004788005767 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1004788005768 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1004788005769 active site 1004788005770 DNA binding site [nucleotide binding] 1004788005771 Int/Topo IB signature motif; other site 1004788005772 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1004788005773 Na binding site [ion binding]; other site 1004788005774 gamma-glutamyl kinase; Provisional; Region: PRK13402 1004788005775 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 1004788005776 nucleotide binding site [chemical binding]; other site 1004788005777 homotetrameric interface [polypeptide binding]; other site 1004788005778 putative phosphate binding site [ion binding]; other site 1004788005779 putative allosteric binding site; other site 1004788005780 PUA domain; Region: PUA; cl00607 1004788005781 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1004788005782 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1004788005783 putative catalytic cysteine [active] 1004788005784 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788005785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788005786 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1004788005787 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 1004788005788 active site 1004788005789 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1004788005790 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1004788005791 RNase E interface [polypeptide binding]; other site 1004788005792 trimer interface [polypeptide binding]; other site 1004788005793 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1004788005794 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1004788005795 RNase E interface [polypeptide binding]; other site 1004788005796 trimer interface [polypeptide binding]; other site 1004788005797 active site 1004788005798 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 1004788005799 putative nucleic acid binding region [nucleotide binding]; other site 1004788005800 G-X-X-G motif; other site 1004788005801 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 1004788005802 RNA binding site [nucleotide binding]; other site 1004788005803 domain interface; other site 1004788005804 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 1004788005805 CcdB protein; Region: CcdB; cl03380 1004788005806 CcdB protein; Region: CcdB; cl03380 1004788005807 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 1004788005808 hypothetical protein; Provisional; Region: PRK01184 1004788005809 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1004788005810 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1004788005811 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 1004788005812 Domain of unknown function (DUF4094); Region: DUF4094; pfam13334 1004788005813 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 1004788005814 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 1004788005815 AAA domain; Region: AAA_17; pfam13207 1004788005816 AAA domain; Region: AAA_18; pfam13238 1004788005817 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004788005818 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004788005819 MAPEG family; Region: MAPEG; cl09190 1004788005820 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 1004788005821 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 1004788005822 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1004788005823 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004788005824 active site 1004788005825 Zn binding site [ion binding]; other site 1004788005826 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004788005827 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788005828 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004788005829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788005830 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 1004788005831 DNA binding residues [nucleotide binding] 1004788005832 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 1004788005833 active site 1004788005834 catalytic motif [active] 1004788005835 Zn binding site [ion binding]; other site 1004788005836 TPR repeat; Region: TPR_11; pfam13414 1004788005837 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 1004788005838 binding surface 1004788005839 TPR motif; other site 1004788005840 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1004788005841 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1004788005842 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1004788005843 Walker A/P-loop; other site 1004788005844 ATP binding site [chemical binding]; other site 1004788005845 Q-loop/lid; other site 1004788005846 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1004788005847 ABC transporter signature motif; other site 1004788005848 Walker B; other site 1004788005849 D-loop; other site 1004788005850 H-loop/switch region; other site 1004788005851 cell division protein ZipA; Provisional; Region: PRK03427 1004788005852 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1004788005853 FtsZ protein binding site [polypeptide binding]; other site 1004788005854 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1004788005855 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 1004788005856 nucleotide binding pocket [chemical binding]; other site 1004788005857 K-X-D-G motif; other site 1004788005858 catalytic site [active] 1004788005859 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1004788005860 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1004788005861 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 1004788005862 Dimer interface [polypeptide binding]; other site 1004788005863 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1004788005864 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1004788005865 Competence protein; Region: Competence; pfam03772 1004788005866 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788005867 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1004788005868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788005869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788005870 Walker A/P-loop; other site 1004788005871 ATP binding site [chemical binding]; other site 1004788005872 Q-loop/lid; other site 1004788005873 ABC transporter signature motif; other site 1004788005874 Walker B; other site 1004788005875 D-loop; other site 1004788005876 H-loop/switch region; other site 1004788005877 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1004788005878 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1004788005879 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1004788005880 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1004788005881 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1004788005882 Ligand binding site; other site 1004788005883 oligomer interface; other site 1004788005884 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1004788005885 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1004788005886 NADP binding site [chemical binding]; other site 1004788005887 homodimer interface [polypeptide binding]; other site 1004788005888 active site 1004788005889 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788005890 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 1004788005891 substrate binding pocket [chemical binding]; other site 1004788005892 membrane-bound complex binding site; other site 1004788005893 hinge residues; other site 1004788005894 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1004788005895 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1004788005896 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 1004788005897 FeS/SAM binding site; other site 1004788005898 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1004788005899 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1004788005900 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 1004788005901 putative ATP binding site [chemical binding]; other site 1004788005902 putative substrate interface [chemical binding]; other site 1004788005903 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1004788005904 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1004788005905 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1004788005906 putative dimer interface [polypeptide binding]; other site 1004788005907 N-terminal domain interface [polypeptide binding]; other site 1004788005908 putative substrate binding pocket (H-site) [chemical binding]; other site 1004788005909 Pirin-related protein [General function prediction only]; Region: COG1741 1004788005910 Pirin; Region: Pirin; pfam02678 1004788005911 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1004788005912 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1004788005913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1004788005914 phosphomannomutase CpsG; Provisional; Region: PRK15414 1004788005915 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 1004788005916 active site 1004788005917 substrate binding site [chemical binding]; other site 1004788005918 metal binding site [ion binding]; metal-binding site 1004788005919 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1004788005920 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 1004788005921 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1004788005922 dimer interface [polypeptide binding]; other site 1004788005923 active site 1004788005924 citrylCoA binding site [chemical binding]; other site 1004788005925 NADH binding [chemical binding]; other site 1004788005926 cationic pore residues; other site 1004788005927 oxalacetate/citrate binding site [chemical binding]; other site 1004788005928 coenzyme A binding site [chemical binding]; other site 1004788005929 catalytic triad [active] 1004788005930 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 1004788005931 Iron-sulfur protein interface; other site 1004788005932 proximal quinone binding site [chemical binding]; other site 1004788005933 SdhD (CybS) interface [polypeptide binding]; other site 1004788005934 proximal heme binding site [chemical binding]; other site 1004788005935 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 1004788005936 SdhC subunit interface [polypeptide binding]; other site 1004788005937 proximal heme binding site [chemical binding]; other site 1004788005938 cardiolipin binding site; other site 1004788005939 Iron-sulfur protein interface; other site 1004788005940 proximal quinone binding site [chemical binding]; other site 1004788005941 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1004788005942 L-aspartate oxidase; Provisional; Region: PRK06175 1004788005943 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1004788005944 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1004788005945 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 1004788005946 catalytic loop [active] 1004788005947 iron binding site [ion binding]; other site 1004788005948 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1004788005949 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 1004788005950 TPP-binding site [chemical binding]; other site 1004788005951 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1004788005952 dimer interface [polypeptide binding]; other site 1004788005953 PYR/PP interface [polypeptide binding]; other site 1004788005954 TPP binding site [chemical binding]; other site 1004788005955 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 1004788005956 E3 interaction surface; other site 1004788005957 lipoyl attachment site [posttranslational modification]; other site 1004788005958 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1004788005959 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 1004788005960 E3 interaction surface; other site 1004788005961 lipoyl attachment site [posttranslational modification]; other site 1004788005962 e3 binding domain; Region: E3_binding; pfam02817 1004788005963 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004788005964 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1004788005965 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1004788005966 CoA-ligase; Region: Ligase_CoA; pfam00549 1004788005967 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1004788005968 CoA binding domain; Region: CoA_binding; pfam02629 1004788005969 CoA-ligase; Region: Ligase_CoA; pfam00549 1004788005970 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788005971 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 1004788005972 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 1004788005973 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788005974 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788005975 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 1004788005976 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 1004788005977 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1004788005978 carbohydrate binding site [chemical binding]; other site 1004788005979 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1004788005980 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 1004788005981 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 1004788005982 Ca binding site [ion binding]; other site 1004788005983 active site 1004788005984 catalytic site [active] 1004788005985 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1004788005986 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004788005987 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004788005988 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1004788005989 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1004788005990 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1004788005991 active site 1004788005992 nucleophile elbow; other site 1004788005993 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004788005994 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004788005995 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1004788005996 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788005997 active site 1004788005998 catalytic site [active] 1004788005999 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 1004788006000 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 1004788006001 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788006002 Ca binding site [ion binding]; other site 1004788006003 active site 1004788006004 homodimer interface [polypeptide binding]; other site 1004788006005 catalytic site [active] 1004788006006 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1004788006007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004788006008 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 1004788006009 putative substrate translocation pore; other site 1004788006010 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 1004788006011 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1004788006012 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788006013 active site 1004788006014 catalytic site [active] 1004788006015 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788006016 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788006017 DNA binding site [nucleotide binding] 1004788006018 domain linker motif; other site 1004788006019 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 1004788006020 putative dimerization interface [polypeptide binding]; other site 1004788006021 putative ligand binding site [chemical binding]; other site 1004788006022 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1004788006023 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004788006024 active site 1004788006025 HIGH motif; other site 1004788006026 nucleotide binding site [chemical binding]; other site 1004788006027 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1004788006028 KMSKS motif; other site 1004788006029 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1004788006030 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1004788006031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788006032 NAD(P) binding site [chemical binding]; other site 1004788006033 active site 1004788006034 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1004788006035 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1004788006036 Penicillin amidase; Region: Penicil_amidase; pfam01804 1004788006037 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 1004788006038 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 1004788006039 active site 1004788006040 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 1004788006041 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1004788006042 putative inner membrane peptidase; Provisional; Region: PRK11778 1004788006043 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1004788006044 tandem repeat interface [polypeptide binding]; other site 1004788006045 oligomer interface [polypeptide binding]; other site 1004788006046 active site residues [active] 1004788006047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788006048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788006049 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1004788006050 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1004788006051 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004788006052 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 1004788006053 S-adenosylmethionine binding site [chemical binding]; other site 1004788006054 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1004788006055 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1004788006056 putative ligand binding site [chemical binding]; other site 1004788006057 putative NAD binding site [chemical binding]; other site 1004788006058 catalytic site [active] 1004788006059 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 1004788006060 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788006061 catalytic residues [active] 1004788006062 dimer interface [polypeptide binding]; other site 1004788006063 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1004788006064 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004788006065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006066 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788006067 active site 1004788006068 phosphorylation site [posttranslational modification] 1004788006069 intermolecular recognition site; other site 1004788006070 dimerization interface [polypeptide binding]; other site 1004788006071 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004788006072 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1004788006073 substrate binding pocket [chemical binding]; other site 1004788006074 FAD binding site [chemical binding]; other site 1004788006075 catalytic base [active] 1004788006076 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1004788006077 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 1004788006078 substrate binding site [chemical binding]; other site 1004788006079 oxyanion hole (OAH) forming residues; other site 1004788006080 trimer interface [polypeptide binding]; other site 1004788006081 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1004788006082 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1004788006083 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 1004788006084 S-adenosylmethionine binding site [chemical binding]; other site 1004788006085 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1004788006086 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1004788006087 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1004788006088 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1004788006089 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 1004788006090 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004788006091 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788006092 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1004788006093 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1004788006094 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 1004788006095 protein binding site [polypeptide binding]; other site 1004788006096 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1004788006097 PilZ domain; Region: PilZ; pfam07238 1004788006098 Protein of unknown function (DUF962); Region: DUF962; cl01879 1004788006099 Histidine kinase; Region: His_kinase; pfam06580 1004788006100 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 1004788006101 ATP binding site [chemical binding]; other site 1004788006102 Mg2+ binding site [ion binding]; other site 1004788006103 G-X-G motif; other site 1004788006104 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004788006105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006106 active site 1004788006107 phosphorylation site [posttranslational modification] 1004788006108 intermolecular recognition site; other site 1004788006109 dimerization interface [polypeptide binding]; other site 1004788006110 LytTr DNA-binding domain; Region: LytTR; smart00850 1004788006111 6-phosphofructokinase; Provisional; Region: PRK03202 1004788006112 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1004788006113 active site 1004788006114 ADP/pyrophosphate binding site [chemical binding]; other site 1004788006115 dimerization interface [polypeptide binding]; other site 1004788006116 allosteric effector site; other site 1004788006117 fructose-1,6-bisphosphate binding site; other site 1004788006118 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788006119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006120 active site 1004788006121 phosphorylation site [posttranslational modification] 1004788006122 intermolecular recognition site; other site 1004788006123 dimerization interface [polypeptide binding]; other site 1004788006124 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 1004788006125 binding surface 1004788006126 TPR motif; other site 1004788006127 TPR repeat; Region: TPR_11; pfam13414 1004788006128 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 1004788006129 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1004788006130 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1004788006131 active site residue [active] 1004788006132 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 1004788006133 EF-hand domain pair; Region: EF_hand_5; pfam13499 1004788006134 Ca2+ binding site [ion binding]; other site 1004788006135 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 1004788006136 CoenzymeA binding site [chemical binding]; other site 1004788006137 subunit interaction site [polypeptide binding]; other site 1004788006138 PHB binding site; other site 1004788006139 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1004788006140 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788006141 putative NAD(P) binding site [chemical binding]; other site 1004788006142 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1004788006143 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788006144 putative NAD(P) binding site [chemical binding]; other site 1004788006145 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1004788006146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788006147 NAD(P) binding site [chemical binding]; other site 1004788006148 active site 1004788006149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788006150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788006151 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 1004788006152 putative effector binding pocket; other site 1004788006153 dimerization interface [polypeptide binding]; other site 1004788006154 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1004788006155 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 1004788006156 ATP binding site [chemical binding]; other site 1004788006157 putative Mg++ binding site [ion binding]; other site 1004788006158 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 1004788006159 nucleotide binding region [chemical binding]; other site 1004788006160 ATP-binding site [chemical binding]; other site 1004788006161 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1004788006162 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1004788006163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788006164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788006165 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 1004788006166 putative dimerization interface [polypeptide binding]; other site 1004788006167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788006168 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 1004788006169 ATP binding site [chemical binding]; other site 1004788006170 Mg2+ binding site [ion binding]; other site 1004788006171 G-X-G motif; other site 1004788006172 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1004788006173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788006174 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1004788006175 substrate binding site [chemical binding]; other site 1004788006176 dimerization interface [polypeptide binding]; other site 1004788006177 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1004788006178 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1004788006179 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1004788006180 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 1004788006181 putative active site [active] 1004788006182 putative CoA binding site [chemical binding]; other site 1004788006183 nudix motif; other site 1004788006184 metal binding site [ion binding]; metal-binding site 1004788006185 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1004788006186 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1004788006187 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1004788006188 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1004788006189 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1004788006190 RmuC family; Region: RmuC; pfam02646 1004788006191 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004788006192 active site 1004788006193 catalytic residues [active] 1004788006194 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 1004788006195 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004788006196 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1004788006197 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 1004788006198 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 1004788006199 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1004788006200 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 1004788006201 tetramer interface [polypeptide binding]; other site 1004788006202 TPP-binding site [chemical binding]; other site 1004788006203 heterodimer interface [polypeptide binding]; other site 1004788006204 phosphorylation loop region [posttranslational modification] 1004788006205 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1004788006206 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 1004788006207 alpha subunit interface [polypeptide binding]; other site 1004788006208 TPP binding site [chemical binding]; other site 1004788006209 heterodimer interface [polypeptide binding]; other site 1004788006210 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004788006211 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1004788006212 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 1004788006213 E3 interaction surface; other site 1004788006214 lipoyl attachment site [posttranslational modification]; other site 1004788006215 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 1004788006216 E3 interaction surface; other site 1004788006217 lipoyl attachment site [posttranslational modification]; other site 1004788006218 e3 binding domain; Region: E3_binding; pfam02817 1004788006219 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004788006220 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1004788006221 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1004788006222 active site 1004788006223 ATP binding site [chemical binding]; other site 1004788006224 substrate binding site [chemical binding]; other site 1004788006225 activation loop (A-loop); other site 1004788006226 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1004788006227 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 1004788006228 active site 1004788006229 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 1004788006230 catalytic triad [active] 1004788006231 dimer interface [polypeptide binding]; other site 1004788006232 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1004788006233 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 1004788006234 trimer interface [polypeptide binding]; other site 1004788006235 putative metal binding site [ion binding]; other site 1004788006236 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 1004788006237 homodimer interface [polypeptide binding]; other site 1004788006238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006239 catalytic residue [active] 1004788006240 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1004788006241 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1004788006242 ProP expression regulator; Provisional; Region: PRK04950 1004788006243 ProQ/FINO family; Region: ProQ; pfam04352 1004788006244 carboxy-terminal protease; Provisional; Region: PRK11186 1004788006245 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 1004788006246 protein binding site [polypeptide binding]; other site 1004788006247 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1004788006248 Catalytic dyad [active] 1004788006249 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1004788006250 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1004788006251 Na2 binding site [ion binding]; other site 1004788006252 putative substrate binding site 1 [chemical binding]; other site 1004788006253 Na binding site 1 [ion binding]; other site 1004788006254 putative substrate binding site 2 [chemical binding]; other site 1004788006255 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1004788006256 aminopeptidase N; Provisional; Region: pepN; PRK14015 1004788006257 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1004788006258 Zn binding site [ion binding]; other site 1004788006259 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1004788006260 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1004788006261 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1004788006262 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1004788006263 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1004788006264 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1004788006265 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1004788006266 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1004788006267 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 1004788006268 quinone interaction residues [chemical binding]; other site 1004788006269 active site 1004788006270 catalytic residues [active] 1004788006271 FMN binding site [chemical binding]; other site 1004788006272 substrate binding site [chemical binding]; other site 1004788006273 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1004788006274 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1004788006275 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 1004788006276 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1004788006277 putative RNA binding site [nucleotide binding]; other site 1004788006278 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 1004788006279 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 1004788006280 S-adenosylmethionine binding site [chemical binding]; other site 1004788006281 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1004788006282 ABC transporter ATPase component; Reviewed; Region: PRK11147 1004788006283 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788006284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788006285 ABC transporter; Region: ABC_tran_2; pfam12848 1004788006286 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788006287 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 1004788006288 Ribosome modulation factor; Region: RMF; pfam04957 1004788006289 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 1004788006290 active site 1 [active] 1004788006291 dimer interface [polypeptide binding]; other site 1004788006292 active site 2 [active] 1004788006293 DNA photolyase; Region: DNA_photolyase; pfam00875 1004788006294 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1004788006295 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1004788006296 DNA photolyase; Region: DNA_photolyase; pfam00875 1004788006297 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1004788006298 DNA photolyase; Region: DNA_photolyase; pfam00875 1004788006299 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1004788006300 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1004788006301 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1004788006302 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1004788006303 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1004788006304 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1004788006305 IucA / IucC family; Region: IucA_IucC; pfam04183 1004788006306 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1004788006307 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1004788006308 IucA / IucC family; Region: IucA_IucC; pfam04183 1004788006309 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1004788006310 acyl-CoA synthetase; Validated; Region: PRK08308 1004788006311 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004788006312 acyl-activating enzyme (AAE) consensus motif; other site 1004788006313 AMP binding site [chemical binding]; other site 1004788006314 active site 1004788006315 CoA binding site [chemical binding]; other site 1004788006316 acyl carrier protein; Provisional; Region: PRK07639 1004788006317 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1004788006318 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788006319 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004788006320 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004788006321 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1004788006322 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1004788006323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788006324 HAMP domain; Region: HAMP; pfam00672 1004788006325 dimerization interface [polypeptide binding]; other site 1004788006326 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 1004788006327 dimer interface [polypeptide binding]; other site 1004788006328 phosphorylation site [posttranslational modification] 1004788006329 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 1004788006330 ATP binding site [chemical binding]; other site 1004788006331 Mg2+ binding site [ion binding]; other site 1004788006332 G-X-G motif; other site 1004788006333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788006334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006335 active site 1004788006336 phosphorylation site [posttranslational modification] 1004788006337 intermolecular recognition site; other site 1004788006338 dimerization interface [polypeptide binding]; other site 1004788006339 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 1004788006340 DNA binding site [nucleotide binding] 1004788006341 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1004788006342 Predicted membrane protein [Function unknown]; Region: COG4325 1004788006343 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 1004788006344 active site 1004788006345 DNA binding site [nucleotide binding] 1004788006346 Int/Topo IB signature motif; other site 1004788006347 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1004788006348 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 1004788006349 Ligand Binding Site [chemical binding]; other site 1004788006350 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1004788006351 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 1004788006352 active site 1004788006353 FMN binding site [chemical binding]; other site 1004788006354 substrate binding site [chemical binding]; other site 1004788006355 3Fe-4S cluster binding site [ion binding]; other site 1004788006356 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1004788006357 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1004788006358 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1004788006359 TrkA-N domain; Region: TrkA_N; pfam02254 1004788006360 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1004788006361 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1004788006362 heme binding site [chemical binding]; other site 1004788006363 ferroxidase pore; other site 1004788006364 ferroxidase diiron center [ion binding]; other site 1004788006365 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1004788006366 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1004788006367 heme binding site [chemical binding]; other site 1004788006368 ferroxidase pore; other site 1004788006369 ferroxidase diiron center [ion binding]; other site 1004788006370 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 1004788006371 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1004788006372 Low-spin heme binding site [chemical binding]; other site 1004788006373 Putative water exit pathway; other site 1004788006374 Binuclear center (active site) [active] 1004788006375 Putative proton exit pathway; other site 1004788006376 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1004788006377 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1004788006378 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 1004788006379 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1004788006380 Cytochrome c; Region: Cytochrom_C; pfam00034 1004788006381 Cytochrome c; Region: Cytochrom_C; pfam00034 1004788006382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1004788006383 FixH; Region: FixH; pfam05751 1004788006384 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1004788006385 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1004788006386 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 1004788006387 metal-binding site [ion binding] 1004788006388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1004788006389 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1004788006390 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1004788006391 Family description; Region: DsbD_2; pfam13386 1004788006392 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1004788006393 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 1004788006394 ligand binding site [chemical binding]; other site 1004788006395 flexible hinge region; other site 1004788006396 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 1004788006397 putative switch regulator; other site 1004788006398 non-specific DNA interactions [nucleotide binding]; other site 1004788006399 DNA binding site [nucleotide binding] 1004788006400 sequence specific DNA binding site [nucleotide binding]; other site 1004788006401 putative cAMP binding site [chemical binding]; other site 1004788006402 universal stress protein UspE; Provisional; Region: PRK11175 1004788006403 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 1004788006404 Ligand Binding Site [chemical binding]; other site 1004788006405 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 1004788006406 Ligand Binding Site [chemical binding]; other site 1004788006407 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1004788006408 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 1004788006409 Ligand Binding Site [chemical binding]; other site 1004788006410 hypothetical protein; Provisional; Region: PRK10279 1004788006411 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1004788006412 nucleophile elbow; other site 1004788006413 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 1004788006414 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1004788006415 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1004788006416 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 1004788006417 LysE type translocator; Region: LysE; cl00565 1004788006418 NAD-dependent deacetylase; Provisional; Region: PRK00481 1004788006419 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 1004788006420 NAD+ binding site [chemical binding]; other site 1004788006421 substrate binding site [chemical binding]; other site 1004788006422 Zn binding site [ion binding]; other site 1004788006423 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1004788006424 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 1004788006425 active site residue [active] 1004788006426 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 1004788006427 active site residue [active] 1004788006428 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 1004788006429 dimer interface [polypeptide binding]; other site 1004788006430 catalytic triad [active] 1004788006431 peroxidatic and resolving cysteines [active] 1004788006432 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1004788006433 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1004788006434 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1004788006435 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 1004788006436 active site 1004788006437 DNA binding site [nucleotide binding] 1004788006438 Int/Topo IB signature motif; other site 1004788006439 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1004788006440 MPN+ (JAMM) motif; other site 1004788006441 Zinc-binding site [ion binding]; other site 1004788006442 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 1004788006443 PLD-like domain; Region: PLDc_2; pfam13091 1004788006444 putative active site [active] 1004788006445 catalytic site [active] 1004788006446 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 1004788006447 ATP binding site [chemical binding]; other site 1004788006448 putative Mg++ binding site [ion binding]; other site 1004788006449 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1004788006450 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 1004788006451 nucleotide binding region [chemical binding]; other site 1004788006452 ATP-binding site [chemical binding]; other site 1004788006453 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 1004788006454 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 1004788006455 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 1004788006456 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1004788006457 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 1004788006458 Protein of unknown function (DUF499); Region: DUF499; pfam04465 1004788006459 Fn3 associated; Region: Fn3_assoc; pfam13287 1004788006460 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1004788006461 active site 1004788006462 Int/Topo IB signature motif; other site 1004788006463 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1004788006464 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1004788006465 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1004788006466 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1004788006467 active site 1004788006468 catalytic site [active] 1004788006469 putative DNA binding site [nucleotide binding]; other site 1004788006470 GIY-YIG motif/motif A; other site 1004788006471 metal binding site [ion binding]; metal-binding site 1004788006472 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1004788006473 Helix-hairpin-helix motif; Region: HHH; pfam00633 1004788006474 response regulator; Provisional; Region: PRK09483 1004788006475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006476 active site 1004788006477 phosphorylation site [posttranslational modification] 1004788006478 intermolecular recognition site; other site 1004788006479 dimerization interface [polypeptide binding]; other site 1004788006480 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 1004788006481 DNA binding residues [nucleotide binding] 1004788006482 dimerization interface [polypeptide binding]; other site 1004788006483 Pirin-related protein [General function prediction only]; Region: COG1741 1004788006484 Pirin; Region: Pirin; pfam02678 1004788006485 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1004788006486 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 1004788006487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006488 homodimer interface [polypeptide binding]; other site 1004788006489 catalytic residue [active] 1004788006490 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 1004788006491 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1004788006492 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004788006493 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 1004788006494 S-adenosylmethionine binding site [chemical binding]; other site 1004788006495 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 1004788006496 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1004788006497 putative active site [active] 1004788006498 metal binding site [ion binding]; metal-binding site 1004788006499 DoxX; Region: DoxX; pfam07681 1004788006500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788006501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788006502 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 1004788006503 putative effector binding pocket; other site 1004788006504 dimerization interface [polypeptide binding]; other site 1004788006505 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 1004788006506 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1004788006507 YccA-like proteins; Region: YccA_like; cd10433 1004788006508 DsrE/DsrF-like family; Region: DrsE; cl00672 1004788006509 DsrE/DsrF-like family; Region: DrsE; cl00672 1004788006510 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1004788006511 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1004788006512 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1004788006513 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1004788006514 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1004788006515 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788006516 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 1004788006517 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 1004788006518 seryl-tRNA synthetase; Provisional; Region: PRK05431 1004788006519 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1004788006520 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 1004788006521 dimer interface [polypeptide binding]; other site 1004788006522 active site 1004788006523 motif 1; other site 1004788006524 motif 2; other site 1004788006525 motif 3; other site 1004788006526 CrcB-like protein; Region: CRCB; cl09114 1004788006527 recombination factor protein RarA; Reviewed; Region: PRK13342 1004788006528 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 1004788006529 Walker A motif; other site 1004788006530 ATP binding site [chemical binding]; other site 1004788006531 Walker B motif; other site 1004788006532 arginine finger; other site 1004788006533 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1004788006534 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1004788006535 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1004788006536 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1004788006537 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1004788006538 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1004788006539 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1004788006540 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 1004788006541 putative DNA binding site [nucleotide binding]; other site 1004788006542 putative Zn2+ binding site [ion binding]; other site 1004788006543 AsnC family; Region: AsnC_trans_reg; pfam01037 1004788006544 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1004788006545 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1004788006546 hexamer interface [polypeptide binding]; other site 1004788006547 ligand binding site [chemical binding]; other site 1004788006548 putative active site [active] 1004788006549 NAD(P) binding site [chemical binding]; other site 1004788006550 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 1004788006551 active site 1004788006552 dimer interface [polypeptide binding]; other site 1004788006553 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1004788006554 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 1004788006555 binding surface 1004788006556 TPR motif; other site 1004788006557 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 1004788006558 binding surface 1004788006559 TPR motif; other site 1004788006560 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1004788006561 PilZ domain; Region: PilZ; pfam07238 1004788006562 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 1004788006563 IHF dimer interface [polypeptide binding]; other site 1004788006564 IHF - DNA interface [nucleotide binding]; other site 1004788006565 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1004788006566 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 1004788006567 RNA binding site [nucleotide binding]; other site 1004788006568 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 1004788006569 RNA binding site [nucleotide binding]; other site 1004788006570 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 1004788006571 RNA binding site [nucleotide binding]; other site 1004788006572 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 1004788006573 RNA binding site [nucleotide binding]; other site 1004788006574 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 1004788006575 RNA binding site [nucleotide binding]; other site 1004788006576 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 1004788006577 RNA binding site [nucleotide binding]; other site 1004788006578 cytidylate kinase; Provisional; Region: cmk; PRK00023 1004788006579 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 1004788006580 CMP-binding site; other site 1004788006581 The sites determining sugar specificity; other site 1004788006582 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1004788006583 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 1004788006584 hinge; other site 1004788006585 active site 1004788006586 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 1004788006587 homodimer interface [polypeptide binding]; other site 1004788006588 substrate-cofactor binding pocket; other site 1004788006589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006590 catalytic residue [active] 1004788006591 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006592 DNA gyrase subunit A; Validated; Region: PRK05560 1004788006593 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 1004788006594 CAP-like domain; other site 1004788006595 active site 1004788006596 primary dimer interface [polypeptide binding]; other site 1004788006597 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006598 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006599 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006600 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006601 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1004788006602 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1004788006603 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 1004788006604 S-adenosylmethionine binding site [chemical binding]; other site 1004788006605 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1004788006606 ATP cone domain; Region: ATP-cone; pfam03477 1004788006607 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1004788006608 active site 1004788006609 dimer interface [polypeptide binding]; other site 1004788006610 catalytic residues [active] 1004788006611 effector binding site; other site 1004788006612 R2 peptide binding site; other site 1004788006613 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1004788006614 dimer interface [polypeptide binding]; other site 1004788006615 putative radical transfer pathway; other site 1004788006616 diiron center [ion binding]; other site 1004788006617 tyrosyl radical; other site 1004788006618 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1004788006619 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 1004788006620 catalytic loop [active] 1004788006621 iron binding site [ion binding]; other site 1004788006622 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1004788006623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788006624 NAD(P) binding site [chemical binding]; other site 1004788006625 active site 1004788006626 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1004788006627 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788006628 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 1004788006629 putative active site [active] 1004788006630 putative FMN binding site [chemical binding]; other site 1004788006631 putative substrate binding site [chemical binding]; other site 1004788006632 putative catalytic residue [active] 1004788006633 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788006634 GAF domain; Region: GAF; pfam01590 1004788006635 GAF domain; Region: GAF_2; pfam13185 1004788006636 GAF domain; Region: GAF; pfam01590 1004788006637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788006638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788006639 metal binding site [ion binding]; metal-binding site 1004788006640 active site 1004788006641 I-site; other site 1004788006642 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 1004788006643 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1004788006644 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788006645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788006646 metal binding site [ion binding]; metal-binding site 1004788006647 active site 1004788006648 I-site; other site 1004788006649 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004788006650 EamA-like transporter family; Region: EamA; pfam00892 1004788006651 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1004788006652 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1004788006653 ATP binding site [chemical binding]; other site 1004788006654 active site 1004788006655 substrate binding site [chemical binding]; other site 1004788006656 lipoprotein; Provisional; Region: PRK11679 1004788006657 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1004788006658 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1004788006659 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1004788006660 dimer interface [polypeptide binding]; other site 1004788006661 active site 1004788006662 catalytic residue [active] 1004788006663 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1004788006664 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1004788006665 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1004788006666 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1004788006667 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 1004788006668 catalytic triad [active] 1004788006669 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1004788006670 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1004788006671 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1004788006672 Peptidase family M48; Region: Peptidase_M48; pfam01435 1004788006673 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 1004788006674 TPR motif; other site 1004788006675 binding surface 1004788006676 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 1004788006677 binding surface 1004788006678 TPR motif; other site 1004788006679 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 1004788006680 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788006681 catalytic residues [active] 1004788006682 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 1004788006683 ArsC family; Region: ArsC; pfam03960 1004788006684 catalytic residues [active] 1004788006685 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788006686 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004788006687 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1004788006688 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1004788006689 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 1004788006690 ATP binding site [chemical binding]; other site 1004788006691 Walker A motif; other site 1004788006692 Walker B motif; other site 1004788006693 arginine finger; other site 1004788006694 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1004788006695 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1004788006696 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1004788006697 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 1004788006698 dimerization interface [polypeptide binding]; other site 1004788006699 putative ATP binding site [chemical binding]; other site 1004788006700 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1004788006701 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1004788006702 active site 1004788006703 substrate binding site [chemical binding]; other site 1004788006704 cosubstrate binding site; other site 1004788006705 catalytic site [active] 1004788006706 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1004788006707 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1004788006708 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1004788006709 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1004788006710 active site 1004788006711 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1004788006712 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 1004788006713 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788006714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788006715 active site 1004788006716 phosphorylation site [posttranslational modification] 1004788006717 intermolecular recognition site; other site 1004788006718 dimerization interface [polypeptide binding]; other site 1004788006719 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 1004788006720 DNA binding residues [nucleotide binding] 1004788006721 dimerization interface [polypeptide binding]; other site 1004788006722 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 1004788006723 S-adenosylmethionine binding site [chemical binding]; other site 1004788006724 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1004788006725 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 1004788006726 S-adenosylmethionine binding site [chemical binding]; other site 1004788006727 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 1004788006728 active site 1004788006729 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 1004788006730 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 1004788006731 active site 1004788006732 motif I; other site 1004788006733 motif II; other site 1004788006734 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 1004788006735 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1004788006736 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 1004788006737 trehalose synthase; Region: treS_nterm; TIGR02456 1004788006738 active site 1004788006739 homodimer interface [polypeptide binding]; other site 1004788006740 catalytic site [active] 1004788006741 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1004788006742 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 1004788006743 motif II; other site 1004788006744 potential frameshift: common BLAST hit: gi|332141587|ref|YP_004427325.1| putative molybdopterin biosynthesis protein MoeA 1004788006745 multidrug efflux protein; Reviewed; Region: PRK01766 1004788006746 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1004788006747 cation binding site [ion binding]; other site 1004788006748 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1004788006749 Ligand binding site; other site 1004788006750 metal-binding site 1004788006751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1004788006752 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1004788006753 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 1004788006754 Walker A motif; other site 1004788006755 ATP binding site [chemical binding]; other site 1004788006756 Walker B motif; other site 1004788006757 arginine finger; other site 1004788006758 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1004788006759 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 1004788006760 dimer interface [polypeptide binding]; other site 1004788006761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006762 catalytic residue [active] 1004788006763 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 1004788006764 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1004788006765 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1004788006766 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1004788006767 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 1004788006768 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1004788006769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788006770 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1004788006771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1004788006772 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1004788006773 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1004788006774 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1004788006775 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1004788006776 enoyl-CoA hydratase; Provisional; Region: PRK06688 1004788006777 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 1004788006778 substrate binding site [chemical binding]; other site 1004788006779 oxyanion hole (OAH) forming residues; other site 1004788006780 trimer interface [polypeptide binding]; other site 1004788006781 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1004788006782 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1004788006783 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788006784 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 1004788006785 catalytic residues [active] 1004788006786 dimer interface [polypeptide binding]; other site 1004788006787 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788006788 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004788006789 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004788006790 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004788006791 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004788006792 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1004788006793 CHRD domain; Region: CHRD; pfam07452 1004788006794 CHRD domain; Region: CHRD; pfam07452 1004788006795 CHRD domain; Region: CHRD; pfam07452 1004788006796 hypothetical protein; Provisional; Region: PRK05939 1004788006797 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 1004788006798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788006799 catalytic residue [active] 1004788006800 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004788006801 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1004788006802 putative acyl-acceptor binding pocket; other site 1004788006803 NRDE protein; Region: NRDE; cl01315 1004788006804 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1004788006805 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 1004788006806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006807 homodimer interface [polypeptide binding]; other site 1004788006808 catalytic residue [active] 1004788006809 Peptidase S46; Region: Peptidase_S46; pfam10459 1004788006810 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1004788006811 short chain dehydrogenase; Provisional; Region: PRK07035 1004788006812 classical (c) SDRs; Region: SDR_c; cd05233 1004788006813 NAD(P) binding site [chemical binding]; other site 1004788006814 active site 1004788006815 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1004788006816 classical (c) SDRs; Region: SDR_c; cd05233 1004788006817 NAD(P) binding site [chemical binding]; other site 1004788006818 active site 1004788006819 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1004788006820 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1004788006821 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788006822 active site 1004788006823 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1004788006824 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1004788006825 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1004788006826 conserved cys residue [active] 1004788006827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788006828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788006829 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788006830 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 1004788006831 N-terminal plug; other site 1004788006832 ligand-binding site [chemical binding]; other site 1004788006833 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1004788006834 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788006835 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788006836 Protein export membrane protein; Region: SecD_SecF; cl14618 1004788006837 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788006838 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788006839 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 1004788006840 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1004788006841 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 1004788006842 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1004788006843 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 1004788006844 Ligand binding site [chemical binding]; other site 1004788006845 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1004788006846 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1004788006847 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1004788006848 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1004788006849 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1004788006850 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1004788006851 acyl-CoA esterase; Provisional; Region: PRK10673 1004788006852 PGAP1-like protein; Region: PGAP1; pfam07819 1004788006853 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1004788006854 flavodoxin FldA; Validated; Region: PRK09267 1004788006855 HTH-like domain; Region: HTH_21; pfam13276 1004788006856 Integrase core domain; Region: rve; pfam00665 1004788006857 Integrase core domain; Region: rve_2; pfam13333 1004788006858 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 1004788006859 dimerization interface [polypeptide binding]; other site 1004788006860 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788006861 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788006862 dimer interface [polypeptide binding]; other site 1004788006863 putative CheW interface [polypeptide binding]; other site 1004788006864 ferric uptake regulator; Provisional; Region: fur; PRK09462 1004788006865 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1004788006866 metal binding site 2 [ion binding]; metal-binding site 1004788006867 putative DNA binding helix; other site 1004788006868 metal binding site 1 [ion binding]; metal-binding site 1004788006869 dimer interface [polypeptide binding]; other site 1004788006870 structural Zn2+ binding site [ion binding]; other site 1004788006871 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1004788006872 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 1004788006873 homodimer interface [polypeptide binding]; other site 1004788006874 substrate-cofactor binding pocket; other site 1004788006875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006876 catalytic residue [active] 1004788006877 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1004788006878 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1004788006879 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1004788006880 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1004788006881 putative active site [active] 1004788006882 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1004788006883 S1 domain; Region: S1_2; pfam13509 1004788006884 OsmC-like protein; Region: OsmC; cl00767 1004788006885 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788006886 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788006887 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788006888 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1004788006889 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788006890 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1004788006891 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1004788006892 aminotransferase AlaT; Validated; Region: PRK09265 1004788006893 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 1004788006894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006895 homodimer interface [polypeptide binding]; other site 1004788006896 catalytic residue [active] 1004788006897 5'-nucleotidase; Provisional; Region: PRK03826 1004788006898 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1004788006899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1004788006900 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1004788006901 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1004788006902 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 1004788006903 Moco binding site; other site 1004788006904 metal coordination site [ion binding]; other site 1004788006905 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1004788006906 Predicted membrane protein [Function unknown]; Region: COG1238 1004788006907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1004788006908 SEC-C motif; Region: SEC-C; pfam02810 1004788006909 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788006910 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 1004788006911 active site 1004788006912 Ca binding site [ion binding]; other site 1004788006913 catalytic site [active] 1004788006914 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788006915 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1004788006916 NAD(P) binding site [chemical binding]; other site 1004788006917 Phosphotransferase enzyme family; Region: APH; pfam01636 1004788006918 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 1004788006919 putative active site [active] 1004788006920 putative substrate binding site [chemical binding]; other site 1004788006921 ATP binding site [chemical binding]; other site 1004788006922 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1004788006923 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788006924 active site 1004788006925 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 1004788006926 catalytic core [active] 1004788006927 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 1004788006928 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788006929 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788006930 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 1004788006931 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1004788006932 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1004788006933 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1004788006934 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 1004788006935 catalytic residues [active] 1004788006936 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 1004788006937 active site 1004788006938 catalytic triad [active] 1004788006939 oxyanion hole [active] 1004788006940 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1004788006941 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 1004788006942 FeS/SAM binding site; other site 1004788006943 HemN C-terminal domain; Region: HemN_C; pfam06969 1004788006944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788006945 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1004788006946 Walker A/P-loop; other site 1004788006947 ATP binding site [chemical binding]; other site 1004788006948 Q-loop/lid; other site 1004788006949 ABC transporter signature motif; other site 1004788006950 Walker B; other site 1004788006951 D-loop; other site 1004788006952 H-loop/switch region; other site 1004788006953 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1004788006954 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 1004788006955 putative PBP binding loops; other site 1004788006956 dimer interface [polypeptide binding]; other site 1004788006957 ABC-ATPase subunit interface; other site 1004788006958 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1004788006959 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1004788006960 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 1004788006961 MoaE homodimer interface [polypeptide binding]; other site 1004788006962 MoaD interaction [polypeptide binding]; other site 1004788006963 active site residues [active] 1004788006964 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1004788006965 MoaE interaction surface [polypeptide binding]; other site 1004788006966 MoeB interaction surface [polypeptide binding]; other site 1004788006967 thiocarboxylated glycine; other site 1004788006968 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 1004788006969 trimer interface [polypeptide binding]; other site 1004788006970 dimer interface [polypeptide binding]; other site 1004788006971 putative active site [active] 1004788006972 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 1004788006973 MPT binding site; other site 1004788006974 trimer interface [polypeptide binding]; other site 1004788006975 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1004788006976 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 1004788006977 ATP binding site [chemical binding]; other site 1004788006978 substrate interface [chemical binding]; other site 1004788006979 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1004788006980 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004788006981 active site 1004788006982 Zn binding site [ion binding]; other site 1004788006983 ectoine utilization protein EutC; Validated; Region: PRK08291 1004788006984 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1004788006985 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 1004788006986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788006987 homodimer interface [polypeptide binding]; other site 1004788006988 catalytic residue [active] 1004788006989 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1004788006990 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 1004788006991 putative DNA binding site [nucleotide binding]; other site 1004788006992 putative Zn2+ binding site [ion binding]; other site 1004788006993 AsnC family; Region: AsnC_trans_reg; pfam01037 1004788006994 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1004788006995 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 1004788006996 active site 1004788006997 Peptidase family U32; Region: Peptidase_U32; pfam01136 1004788006998 Peptidase family U32; Region: Peptidase_U32; pfam01136 1004788006999 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1004788007000 aminotransferase; Validated; Region: PRK07337 1004788007001 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 1004788007002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788007003 homodimer interface [polypeptide binding]; other site 1004788007004 catalytic residue [active] 1004788007005 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1004788007006 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1004788007007 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 1004788007008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788007009 homodimer interface [polypeptide binding]; other site 1004788007010 catalytic residue [active] 1004788007011 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1004788007012 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1004788007013 methionine synthase; Provisional; Region: PRK01207 1004788007014 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 1004788007015 substrate binding site [chemical binding]; other site 1004788007016 THF binding site; other site 1004788007017 zinc-binding site [ion binding]; other site 1004788007018 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 1004788007019 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 1004788007020 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1004788007021 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004788007022 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 1004788007023 S-adenosylmethionine binding site [chemical binding]; other site 1004788007024 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1004788007025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004788007026 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1004788007027 EamA-like transporter family; Region: EamA; pfam00892 1004788007028 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1004788007029 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1004788007030 active site 1004788007031 DNA binding site [nucleotide binding] 1004788007032 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788007033 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 1004788007034 active site 1004788007035 metal binding site [ion binding]; metal-binding site 1004788007036 SnoaL-like domain; Region: SnoaL_2; pfam12680 1004788007037 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1004788007038 potential frameshift: common BLAST hit: gi|333892030|ref|YP_004465905.1| GntR family transcriptional regulator 1004788007039 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1004788007040 AAA domain; Region: AAA_30; pfam13604 1004788007041 Family description; Region: UvrD_C_2; pfam13538 1004788007042 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1004788007043 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1004788007044 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1004788007045 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1004788007046 dUTPase; Region: dUTPase_2; pfam08761 1004788007047 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 1004788007048 active site 1004788007049 homodimer interface [polypeptide binding]; other site 1004788007050 metal binding site [ion binding]; metal-binding site 1004788007051 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1004788007052 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1004788007053 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1004788007054 acyl-activating enzyme (AAE) consensus motif; other site 1004788007055 putative AMP binding site [chemical binding]; other site 1004788007056 putative active site [active] 1004788007057 putative CoA binding site [chemical binding]; other site 1004788007058 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004788007059 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004788007060 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 1004788007061 PAS domain; Region: PAS_9; pfam13426 1004788007062 putative active site [active] 1004788007063 heme pocket [chemical binding]; other site 1004788007064 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788007065 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788007066 metal binding site [ion binding]; metal-binding site 1004788007067 active site 1004788007068 I-site; other site 1004788007069 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 1004788007070 conserved hypothetical protein; Region: MG423; TIGR00649 1004788007071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788007072 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1004788007073 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1004788007074 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1004788007075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007076 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 1004788007077 dimerization interface [polypeptide binding]; other site 1004788007078 Protein of unknown function, DUF; Region: DUF413; cl10479 1004788007079 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 1004788007080 dimerization interface [polypeptide binding]; other site 1004788007081 putative DNA binding site [nucleotide binding]; other site 1004788007082 putative Zn2+ binding site [ion binding]; other site 1004788007083 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 1004788007084 active site residue [active] 1004788007085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788007086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007087 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1004788007088 dimerization interface [polypeptide binding]; other site 1004788007089 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1004788007090 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1004788007091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007092 active site 1004788007093 phosphorylation site [posttranslational modification] 1004788007094 intermolecular recognition site; other site 1004788007095 dimerization interface [polypeptide binding]; other site 1004788007096 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 1004788007097 Walker A motif; other site 1004788007098 ATP binding site [chemical binding]; other site 1004788007099 Walker B motif; other site 1004788007100 arginine finger; other site 1004788007101 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004788007102 CHASE3 domain; Region: CHASE3; pfam05227 1004788007103 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 1004788007104 dimer interface [polypeptide binding]; other site 1004788007105 phosphorylation site [posttranslational modification] 1004788007106 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 1004788007107 ATP binding site [chemical binding]; other site 1004788007108 Mg2+ binding site [ion binding]; other site 1004788007109 G-X-G motif; other site 1004788007110 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788007111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007112 active site 1004788007113 phosphorylation site [posttranslational modification] 1004788007114 intermolecular recognition site; other site 1004788007115 dimerization interface [polypeptide binding]; other site 1004788007116 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788007117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007118 active site 1004788007119 phosphorylation site [posttranslational modification] 1004788007120 intermolecular recognition site; other site 1004788007121 dimerization interface [polypeptide binding]; other site 1004788007122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788007123 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 1004788007124 dimer interface [polypeptide binding]; other site 1004788007125 phosphorylation site [posttranslational modification] 1004788007126 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 1004788007127 ATP binding site [chemical binding]; other site 1004788007128 Mg2+ binding site [ion binding]; other site 1004788007129 G-X-G motif; other site 1004788007130 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788007131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007132 active site 1004788007133 phosphorylation site [posttranslational modification] 1004788007134 intermolecular recognition site; other site 1004788007135 dimerization interface [polypeptide binding]; other site 1004788007136 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788007137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007138 active site 1004788007139 phosphorylation site [posttranslational modification] 1004788007140 intermolecular recognition site; other site 1004788007141 dimerization interface [polypeptide binding]; other site 1004788007142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 1004788007143 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 1004788007144 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1004788007145 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1004788007146 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004788007147 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1004788007148 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1004788007149 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1004788007150 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1004788007151 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1004788007152 putative active site [active] 1004788007153 Zn binding site [ion binding]; other site 1004788007154 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1004788007155 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004788007156 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004788007157 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 1004788007158 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1004788007159 SelR domain; Region: SelR; pfam01641 1004788007160 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004788007161 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1004788007162 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1004788007163 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1004788007164 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 1004788007165 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1004788007166 active site 1004788007167 catalytic site [active] 1004788007168 glycogen branching enzyme; Provisional; Region: PRK05402 1004788007169 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1004788007170 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1004788007171 active site 1004788007172 catalytic site [active] 1004788007173 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1004788007174 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1004788007175 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1004788007176 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1004788007177 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1004788007178 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1004788007179 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1004788007180 active site 1004788007181 phosphate binding residues; other site 1004788007182 catalytic residues [active] 1004788007183 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1004788007184 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1004788007185 active site 1004788007186 intersubunit interface [polypeptide binding]; other site 1004788007187 catalytic residue [active] 1004788007188 glucokinase; Provisional; Region: glk; PRK00292 1004788007189 glucokinase, proteobacterial type; Region: glk; TIGR00749 1004788007190 phosphogluconate dehydratase; Validated; Region: PRK09054 1004788007191 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1004788007192 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1004788007193 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 1004788007194 putative active site [active] 1004788007195 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1004788007196 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1004788007197 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1004788007198 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1004788007199 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1004788007200 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 1004788007201 putative active site [active] 1004788007202 pyruvate kinase; Provisional; Region: PRK05826 1004788007203 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 1004788007204 domain interfaces; other site 1004788007205 active site 1004788007206 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1004788007207 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1004788007208 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 1004788007209 FeS/SAM binding site; other site 1004788007210 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1004788007211 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1004788007212 BON domain; Region: BON; pfam04972 1004788007213 BON domain; Region: BON; pfam04972 1004788007214 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004788007215 putative catalytic site [active] 1004788007216 putative metal binding site [ion binding]; other site 1004788007217 putative phosphate binding site [ion binding]; other site 1004788007218 The TATA Binding Protein (TBP) Associated Factor 10; Region: TAF10; cl02150 1004788007219 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 1004788007220 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 1004788007221 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 1004788007222 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1004788007223 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1004788007224 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1004788007225 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1004788007226 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1004788007227 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1004788007228 NADP binding site [chemical binding]; other site 1004788007229 homodimer interface [polypeptide binding]; other site 1004788007230 active site 1004788007231 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1004788007232 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1004788007233 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1004788007234 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1004788007235 DctM-like transporters; Region: DctM; pfam06808 1004788007236 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1004788007237 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788007238 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788007239 DNA binding site [nucleotide binding] 1004788007240 domain linker motif; other site 1004788007241 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1004788007242 putative dimerization interface [polypeptide binding]; other site 1004788007243 putative ligand binding site [chemical binding]; other site 1004788007244 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1004788007245 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1004788007246 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1004788007247 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1004788007248 glucuronate isomerase; Reviewed; Region: PRK02925 1004788007249 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1004788007250 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1004788007251 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1004788007252 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1004788007253 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1004788007254 active site 1004788007255 intersubunit interface [polypeptide binding]; other site 1004788007256 catalytic residue [active] 1004788007257 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 1004788007258 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004788007259 substrate binding site [chemical binding]; other site 1004788007260 ATP binding site [chemical binding]; other site 1004788007261 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 1004788007262 active site 1004788007263 catalytic triad [active] 1004788007264 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788007265 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 1004788007266 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 1004788007267 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1004788007268 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 1004788007269 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1004788007270 Pectinesterase; Region: Pectinesterase; pfam01095 1004788007271 putative pectinesterase; Region: PLN02432; cl01911 1004788007272 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1004788007273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788007274 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 1004788007275 dimer interface [polypeptide binding]; other site 1004788007276 phosphorylation site [posttranslational modification] 1004788007277 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 1004788007278 ATP binding site [chemical binding]; other site 1004788007279 Mg2+ binding site [ion binding]; other site 1004788007280 G-X-G motif; other site 1004788007281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007282 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788007283 active site 1004788007284 phosphorylation site [posttranslational modification] 1004788007285 intermolecular recognition site; other site 1004788007286 dimerization interface [polypeptide binding]; other site 1004788007287 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788007288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007289 active site 1004788007290 phosphorylation site [posttranslational modification] 1004788007291 intermolecular recognition site; other site 1004788007292 dimerization interface [polypeptide binding]; other site 1004788007293 WYL domain; Region: WYL; pfam13280 1004788007294 PEP-CTERM motif; Region: VPEP; pfam07589 1004788007295 Endonuclease I; Region: Endonuclease_1; pfam04231 1004788007296 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1004788007297 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 1004788007298 generic binding surface II; other site 1004788007299 generic binding surface I; other site 1004788007300 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1004788007301 putative active site [active] 1004788007302 putative catalytic site [active] 1004788007303 putative Mg binding site IVb [ion binding]; other site 1004788007304 putative phosphate binding site [ion binding]; other site 1004788007305 putative DNA binding site [nucleotide binding]; other site 1004788007306 putative Mg binding site IVa [ion binding]; other site 1004788007307 Peptidase family M1; Region: Peptidase_M1; pfam01433 1004788007308 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1004788007309 Zn binding site [ion binding]; other site 1004788007310 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1004788007311 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 1004788007312 dimerization interface [polypeptide binding]; other site 1004788007313 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788007314 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788007315 dimer interface [polypeptide binding]; other site 1004788007316 putative CheW interface [polypeptide binding]; other site 1004788007317 DNA topoisomerase I; Validated; Region: PRK07219 1004788007318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788007319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007320 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 1004788007321 dimerization interface [polypeptide binding]; other site 1004788007322 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1004788007323 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1004788007324 potential catalytic triad [active] 1004788007325 conserved cys residue [active] 1004788007326 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1004788007327 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1004788007328 dimer interface [polypeptide binding]; other site 1004788007329 active site 1004788007330 metal binding site [ion binding]; metal-binding site 1004788007331 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788007332 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 1004788007333 active site 1004788007334 FMN binding site [chemical binding]; other site 1004788007335 substrate binding site [chemical binding]; other site 1004788007336 homotetramer interface [polypeptide binding]; other site 1004788007337 catalytic residue [active] 1004788007338 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788007339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788007340 metal binding site [ion binding]; metal-binding site 1004788007341 active site 1004788007342 I-site; other site 1004788007343 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 1004788007344 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 1004788007345 putative FMN binding site [chemical binding]; other site 1004788007346 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1004788007347 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1004788007348 tetramer interface [polypeptide binding]; other site 1004788007349 heme binding pocket [chemical binding]; other site 1004788007350 NADPH binding site [chemical binding]; other site 1004788007351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1004788007352 active site 1004788007353 phosphorylation site [posttranslational modification] 1004788007354 intermolecular recognition site; other site 1004788007355 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004788007356 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004788007357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788007358 Zn2+ binding site [ion binding]; other site 1004788007359 Mg2+ binding site [ion binding]; other site 1004788007360 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788007361 GAF domain; Region: GAF; pfam01590 1004788007362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788007363 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 1004788007364 dimer interface [polypeptide binding]; other site 1004788007365 phosphorylation site [posttranslational modification] 1004788007366 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 1004788007367 ATP binding site [chemical binding]; other site 1004788007368 Mg2+ binding site [ion binding]; other site 1004788007369 G-X-G motif; other site 1004788007370 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004788007371 Helix-turn-helix domain; Region: HTH_18; pfam12833 1004788007372 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1004788007373 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1004788007374 YrhK-like protein; Region: YrhK; pfam14145 1004788007375 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 1004788007376 Cupin; Region: Cupin_6; pfam12852 1004788007377 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1004788007378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788007379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788007380 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1004788007381 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 1004788007382 transmembrane helices; other site 1004788007383 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1004788007384 trimer interface [polypeptide binding]; other site 1004788007385 active site 1004788007386 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1004788007387 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 1004788007388 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1004788007389 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1004788007390 active site 1004788007391 HIGH motif; other site 1004788007392 KMSKS motif; other site 1004788007393 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1004788007394 anticodon binding site; other site 1004788007395 tRNA binding surface [nucleotide binding]; other site 1004788007396 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 1004788007397 dimer interface [polypeptide binding]; other site 1004788007398 putative tRNA-binding site [nucleotide binding]; other site 1004788007399 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788007400 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788007401 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1004788007402 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1004788007403 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004788007404 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 1004788007405 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788007406 catalytic residue [active] 1004788007407 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1004788007408 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788007409 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788007410 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788007411 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1004788007412 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1004788007413 active site 1004788007414 HIGH motif; other site 1004788007415 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1004788007416 KMSKS motif; other site 1004788007417 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1004788007418 tRNA binding surface [nucleotide binding]; other site 1004788007419 anticodon binding site; other site 1004788007420 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 1004788007421 substrate binding site [chemical binding]; other site 1004788007422 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1004788007423 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004788007424 putative active site [active] 1004788007425 putative metal binding site [ion binding]; other site 1004788007426 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 1004788007427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1004788007428 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 1004788007429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788007430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007431 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 1004788007432 putative effector binding pocket; other site 1004788007433 putative dimerization interface [polypeptide binding]; other site 1004788007434 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1004788007435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788007436 NAD(P) binding site [chemical binding]; other site 1004788007437 active site 1004788007438 sucrose phosphorylase; Provisional; Region: PRK13840 1004788007439 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 1004788007440 active site 1004788007441 homodimer interface [polypeptide binding]; other site 1004788007442 catalytic site [active] 1004788007443 Predicted transcriptional regulators [Transcription]; Region: COG1733 1004788007444 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 1004788007445 dimerization interface [polypeptide binding]; other site 1004788007446 putative DNA binding site [nucleotide binding]; other site 1004788007447 putative Zn2+ binding site [ion binding]; other site 1004788007448 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1004788007449 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1004788007450 NADP binding site [chemical binding]; other site 1004788007451 dimer interface [polypeptide binding]; other site 1004788007452 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1004788007453 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1004788007454 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1004788007455 putative NAD(P) binding site [chemical binding]; other site 1004788007456 dimer interface [polypeptide binding]; other site 1004788007457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788007458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007459 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 1004788007460 putative effector binding pocket; other site 1004788007461 dimerization interface [polypeptide binding]; other site 1004788007462 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1004788007463 Nidogen-like; Region: NIDO; pfam06119 1004788007464 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1004788007465 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1004788007466 Protein of unknown function, DUF479; Region: DUF479; cl01203 1004788007467 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1004788007468 active site 1004788007469 dinuclear metal binding site [ion binding]; other site 1004788007470 dimerization interface [polypeptide binding]; other site 1004788007471 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1004788007472 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1004788007473 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 1004788007474 active site 1004788007475 tetramer interface [polypeptide binding]; other site 1004788007476 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788007477 active site 1004788007478 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1004788007479 Colicin V production protein; Region: Colicin_V; cl00567 1004788007480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1004788007481 Sporulation related domain; Region: SPOR; pfam05036 1004788007482 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1004788007483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788007484 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1004788007485 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1004788007486 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1004788007487 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1004788007488 dimerization interface 3.5A [polypeptide binding]; other site 1004788007489 active site 1004788007490 FimV N-terminal domain; Region: FimV_core; TIGR03505 1004788007491 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1004788007492 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1004788007493 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1004788007494 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1004788007495 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1004788007496 ligand binding site [chemical binding]; other site 1004788007497 NAD binding site [chemical binding]; other site 1004788007498 catalytic site [active] 1004788007499 homodimer interface [polypeptide binding]; other site 1004788007500 aldolase II superfamily protein; Provisional; Region: PRK07044 1004788007501 intersubunit interface [polypeptide binding]; other site 1004788007502 active site 1004788007503 Zn2+ binding site [ion binding]; other site 1004788007504 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1004788007505 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 1004788007506 ligand binding site [chemical binding]; other site 1004788007507 flexible hinge region; other site 1004788007508 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1004788007509 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1004788007510 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1004788007511 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1004788007512 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 1004788007513 dimer interface [polypeptide binding]; other site 1004788007514 active site 1004788007515 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1004788007516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004788007517 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1004788007518 putative AMP binding site [chemical binding]; other site 1004788007519 putative active site [active] 1004788007520 acyl-activating enzyme (AAE) consensus motif; other site 1004788007521 putative CoA binding site [chemical binding]; other site 1004788007522 Kelch motif; Region: Kelch_6; pfam13964 1004788007523 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1004788007524 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1004788007525 Predicted integral membrane protein [Function unknown]; Region: COG5616 1004788007526 Predicted integral membrane protein [Function unknown]; Region: COG5616 1004788007527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788007528 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788007529 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1004788007530 Coenzyme A binding pocket [chemical binding]; other site 1004788007531 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 1004788007532 active site 1004788007533 metal binding site [ion binding]; metal-binding site 1004788007534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788007535 Coenzyme A binding pocket [chemical binding]; other site 1004788007536 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1004788007537 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1004788007538 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1004788007539 DNA binding residues [nucleotide binding] 1004788007540 putative dimer interface [polypeptide binding]; other site 1004788007541 putative metal binding residues [ion binding]; other site 1004788007542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788007543 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004788007544 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 1004788007545 classical (c) SDRs; Region: SDR_c; cd05233 1004788007546 NAD(P) binding site [chemical binding]; other site 1004788007547 active site 1004788007548 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1004788007549 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788007550 Walker A/P-loop; other site 1004788007551 ATP binding site [chemical binding]; other site 1004788007552 Q-loop/lid; other site 1004788007553 ABC transporter signature motif; other site 1004788007554 Walker B; other site 1004788007555 D-loop; other site 1004788007556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788007557 Walker A/P-loop; other site 1004788007558 ATP binding site [chemical binding]; other site 1004788007559 Q-loop/lid; other site 1004788007560 ABC transporter signature motif; other site 1004788007561 Walker B; other site 1004788007562 D-loop; other site 1004788007563 H-loop/switch region; other site 1004788007564 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1004788007565 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1004788007566 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1004788007567 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1004788007568 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1004788007569 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1004788007570 conserved cys residue [active] 1004788007571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788007572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788007573 Isochorismatase family; Region: Isochorismatase; pfam00857 1004788007574 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 1004788007575 catalytic triad [active] 1004788007576 conserved cis-peptide bond; other site 1004788007577 Isochorismatase family; Region: Isochorismatase; pfam00857 1004788007578 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 1004788007579 catalytic triad [active] 1004788007580 conserved cis-peptide bond; other site 1004788007581 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1004788007582 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1004788007583 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1004788007584 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 1004788007585 dimer interface [polypeptide binding]; other site 1004788007586 phosphorylation site [posttranslational modification] 1004788007587 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 1004788007588 ATP binding site [chemical binding]; other site 1004788007589 Mg2+ binding site [ion binding]; other site 1004788007590 G-X-G motif; other site 1004788007591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1004788007592 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788007593 active site 1004788007594 dimerization interface [polypeptide binding]; other site 1004788007595 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788007596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788007597 active site 1004788007598 phosphorylation site [posttranslational modification] 1004788007599 intermolecular recognition site; other site 1004788007600 dimerization interface [polypeptide binding]; other site 1004788007601 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788007602 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788007603 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788007604 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788007605 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788007606 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788007607 YfcL protein; Region: YfcL; pfam08891 1004788007608 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1004788007609 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1004788007610 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 1004788007611 active site 1004788007612 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004788007613 catalytic motif [active] 1004788007614 Catalytic residue [active] 1004788007615 HopJ type III effector protein; Region: HopJ; pfam08888 1004788007616 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788007617 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 1004788007618 active site 1004788007619 FMN binding site [chemical binding]; other site 1004788007620 2,4-decadienoyl-CoA binding site; other site 1004788007621 catalytic residue [active] 1004788007622 4Fe-4S cluster binding site [ion binding]; other site 1004788007623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1004788007624 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788007625 enoyl-CoA hydratase; Provisional; Region: PRK06142 1004788007626 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 1004788007627 substrate binding site [chemical binding]; other site 1004788007628 oxyanion hole (OAH) forming residues; other site 1004788007629 trimer interface [polypeptide binding]; other site 1004788007630 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788007631 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788007632 WHG domain; Region: WHG; pfam13305 1004788007633 choline dehydrogenase; Validated; Region: PRK02106 1004788007634 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004788007635 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1004788007636 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1004788007637 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1004788007638 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788007639 Bacterial transcriptional repressor; Region: TetR; pfam13972 1004788007640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1004788007641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1004788007642 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 1004788007643 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 1004788007644 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1004788007645 active site 1004788007646 nucleophile elbow; other site 1004788007647 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1004788007648 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1004788007649 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1004788007650 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788007651 fatty acid metabolism regulator; Provisional; Region: PRK04984 1004788007652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788007653 DNA-binding site [nucleotide binding]; DNA binding site 1004788007654 FadR C-terminal domain; Region: FadR_C; pfam07840 1004788007655 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1004788007656 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1004788007657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1004788007658 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1004788007659 hypothetical protein; Provisional; Region: PRK05170 1004788007660 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1004788007661 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 1004788007662 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1004788007663 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 1004788007664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1004788007665 YcgL domain; Region: YcgL; pfam05166 1004788007666 ribonuclease D; Provisional; Region: PRK10829 1004788007667 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1004788007668 catalytic site [active] 1004788007669 putative active site [active] 1004788007670 putative substrate binding site [chemical binding]; other site 1004788007671 HRDC domain; Region: HRDC; pfam00570 1004788007672 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1004788007673 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1004788007674 acyl-activating enzyme (AAE) consensus motif; other site 1004788007675 putative AMP binding site [chemical binding]; other site 1004788007676 putative active site [active] 1004788007677 putative CoA binding site [chemical binding]; other site 1004788007678 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788007679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788007680 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 1004788007681 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1004788007682 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1004788007683 Glycoprotease family; Region: Peptidase_M22; pfam00814 1004788007684 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1004788007685 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1004788007686 DEAD_2; Region: DEAD_2; pfam06733 1004788007687 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1004788007688 Cation efflux family; Region: Cation_efflux; cl00316 1004788007689 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 1004788007690 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1004788007691 iron-sulfur cluster [ion binding]; other site 1004788007692 [2Fe-2S] cluster binding site [ion binding]; other site 1004788007693 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1004788007694 alpha subunit interface [polypeptide binding]; other site 1004788007695 active site 1004788007696 substrate binding site [chemical binding]; other site 1004788007697 Fe binding site [ion binding]; other site 1004788007698 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1004788007699 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 1004788007700 Ca2+ binding site [ion binding]; other site 1004788007701 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 1004788007702 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1004788007703 active site 1004788007704 catalytic site [active] 1004788007705 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1004788007706 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1004788007707 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788007708 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1004788007709 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 1004788007710 P-loop; other site 1004788007711 Magnesium ion binding site [ion binding]; other site 1004788007712 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 1004788007713 Magnesium ion binding site [ion binding]; other site 1004788007714 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1004788007715 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1004788007716 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1004788007717 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 1004788007718 histidinol dehydrogenase; Region: hisD; TIGR00069 1004788007719 NAD binding site [chemical binding]; other site 1004788007720 dimerization interface [polypeptide binding]; other site 1004788007721 product binding site; other site 1004788007722 substrate binding site [chemical binding]; other site 1004788007723 zinc binding site [ion binding]; other site 1004788007724 catalytic residues [active] 1004788007725 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1004788007726 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 1004788007727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788007728 homodimer interface [polypeptide binding]; other site 1004788007729 catalytic residue [active] 1004788007730 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1004788007731 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 1004788007732 active site 1004788007733 motif I; other site 1004788007734 motif II; other site 1004788007735 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1004788007736 putative active site pocket [active] 1004788007737 4-fold oligomerization interface [polypeptide binding]; other site 1004788007738 metal binding residues [ion binding]; metal-binding site 1004788007739 3-fold/trimer interface [polypeptide binding]; other site 1004788007740 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1004788007741 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1004788007742 putative active site [active] 1004788007743 oxyanion strand; other site 1004788007744 catalytic triad [active] 1004788007745 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 1004788007746 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1004788007747 catalytic residues [active] 1004788007748 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 1004788007749 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1004788007750 substrate binding site [chemical binding]; other site 1004788007751 glutamase interaction surface [polypeptide binding]; other site 1004788007752 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1004788007753 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1004788007754 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 1004788007755 metal binding site [ion binding]; metal-binding site 1004788007756 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1004788007757 Cache domain; Region: Cache_1; pfam02743 1004788007758 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 1004788007759 dimerization interface [polypeptide binding]; other site 1004788007760 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788007761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788007762 dimer interface [polypeptide binding]; other site 1004788007763 putative CheW interface [polypeptide binding]; other site 1004788007764 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788007765 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788007766 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788007767 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788007768 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1004788007769 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1004788007770 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1004788007771 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 1004788007772 Catalytic site [active] 1004788007773 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1004788007774 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788007775 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 1004788007776 N-terminal plug; other site 1004788007777 ligand-binding site [chemical binding]; other site 1004788007778 MAPEG family; Region: MAPEG; cl09190 1004788007779 adenylate kinase; Reviewed; Region: adk; PRK00279 1004788007780 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 1004788007781 AMP-binding site [chemical binding]; other site 1004788007782 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1004788007783 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1004788007784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1004788007785 potential frameshift: common BLAST hit: gi|332142045|ref|YP_004427783.1| heat shock protein 90 1004788007786 potential frameshift: common BLAST hit: gi|332142046|ref|YP_004427784.1| recombination protein RecR 1004788007787 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1004788007788 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 1004788007789 FAD binding pocket [chemical binding]; other site 1004788007790 FAD binding motif [chemical binding]; other site 1004788007791 phosphate binding motif [ion binding]; other site 1004788007792 beta-alpha-beta structure motif; other site 1004788007793 NAD binding pocket [chemical binding]; other site 1004788007794 hypothetical protein; Validated; Region: PRK00153 1004788007795 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 1004788007796 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 1004788007797 Walker A motif; other site 1004788007798 ATP binding site [chemical binding]; other site 1004788007799 Walker B motif; other site 1004788007800 arginine finger; other site 1004788007801 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1004788007802 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1004788007803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788007804 active site 1004788007805 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1004788007806 hypothetical protein; Provisional; Region: PRK05409 1004788007807 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 1004788007808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788007809 DNA binding site [nucleotide binding] 1004788007810 AAA ATPase domain; Region: AAA_16; pfam13191 1004788007811 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788007812 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 1004788007813 putative active site [active] 1004788007814 heme pocket [chemical binding]; other site 1004788007815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788007816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788007817 metal binding site [ion binding]; metal-binding site 1004788007818 active site 1004788007819 I-site; other site 1004788007820 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1004788007821 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1004788007822 Domain of unknown function (DUF378); Region: DUF378; cl00943 1004788007823 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1004788007824 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 1004788007825 binding surface 1004788007826 TPR motif; other site 1004788007827 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 1004788007828 TPR motif; other site 1004788007829 binding surface 1004788007830 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 1004788007831 binding surface 1004788007832 TPR motif; other site 1004788007833 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 1004788007834 TPR motif; other site 1004788007835 binding surface 1004788007836 D-lactate dehydrogenase; Provisional; Region: PRK11183 1004788007837 FAD binding domain; Region: FAD_binding_4; pfam01565 1004788007838 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1004788007839 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1004788007840 L-lactate permease; Region: Lactate_perm; cl00701 1004788007841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788007842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788007843 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 1004788007844 putative effector binding pocket; other site 1004788007845 dimerization interface [polypeptide binding]; other site 1004788007846 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1004788007847 Clp amino terminal domain; Region: Clp_N; pfam02861 1004788007848 Clp amino terminal domain; Region: Clp_N; pfam02861 1004788007849 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 1004788007850 Walker A motif; other site 1004788007851 ATP binding site [chemical binding]; other site 1004788007852 Walker B motif; other site 1004788007853 arginine finger; other site 1004788007854 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 1004788007855 Walker A motif; other site 1004788007856 ATP binding site [chemical binding]; other site 1004788007857 Walker B motif; other site 1004788007858 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1004788007859 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1004788007860 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1004788007861 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1004788007862 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 1004788007863 RNA binding surface [nucleotide binding]; other site 1004788007864 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1004788007865 active site 1004788007866 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1004788007867 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1004788007868 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1004788007869 RNA polymerase sigma factor; Provisional; Region: PRK11924 1004788007870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788007871 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 1004788007872 DNA binding residues [nucleotide binding] 1004788007873 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1004788007874 SnoaL-like domain; Region: SnoaL_2; pfam12680 1004788007875 short chain dehydrogenase; Provisional; Region: PRK06101 1004788007876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788007877 NAD(P) binding site [chemical binding]; other site 1004788007878 active site 1004788007879 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1004788007880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004788007881 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1004788007882 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1004788007883 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 1004788007884 S-adenosylmethionine binding site [chemical binding]; other site 1004788007885 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1004788007886 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1004788007887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788007888 ligand binding site [chemical binding]; other site 1004788007889 flagellar motor protein PomA; Reviewed; Region: PRK08990 1004788007890 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1004788007891 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1004788007892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1004788007893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1004788007894 substrate binding pocket [chemical binding]; other site 1004788007895 chain length determination region; other site 1004788007896 substrate-Mg2+ binding site; other site 1004788007897 catalytic residues [active] 1004788007898 aspartate-rich region 1; other site 1004788007899 active site lid residues [active] 1004788007900 aspartate-rich region 2; other site 1004788007901 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1004788007902 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1004788007903 TPP-binding site; other site 1004788007904 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 1004788007905 PYR/PP interface [polypeptide binding]; other site 1004788007906 dimer interface [polypeptide binding]; other site 1004788007907 TPP binding site [chemical binding]; other site 1004788007908 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1004788007909 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1004788007910 tetramer interfaces [polypeptide binding]; other site 1004788007911 binuclear metal-binding site [ion binding]; other site 1004788007912 thiamine monophosphate kinase; Provisional; Region: PRK05731 1004788007913 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 1004788007914 ATP binding site [chemical binding]; other site 1004788007915 dimerization interface [polypeptide binding]; other site 1004788007916 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 1004788007917 putative RNA binding site [nucleotide binding]; other site 1004788007918 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 1004788007919 homopentamer interface [polypeptide binding]; other site 1004788007920 active site 1004788007921 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1004788007922 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1004788007923 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1004788007924 dimerization interface [polypeptide binding]; other site 1004788007925 active site 1004788007926 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1004788007927 Lumazine binding domain; Region: Lum_binding; pfam00677 1004788007928 Lumazine binding domain; Region: Lum_binding; pfam00677 1004788007929 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1004788007930 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 1004788007931 catalytic motif [active] 1004788007932 Zn binding site [ion binding]; other site 1004788007933 RibD C-terminal domain; Region: RibD_C; cl17279 1004788007934 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1004788007935 ATP cone domain; Region: ATP-cone; pfam03477 1004788007936 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1004788007937 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 1004788007938 dimer interface [polypeptide binding]; other site 1004788007939 active site 1004788007940 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1004788007941 folate binding site [chemical binding]; other site 1004788007942 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1004788007943 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1004788007944 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 1004788007945 trimer interface [polypeptide binding]; other site 1004788007946 active site 1004788007947 UDP-GlcNAc binding site [chemical binding]; other site 1004788007948 lipid binding site [chemical binding]; lipid-binding site 1004788007949 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1004788007950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788007951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788007952 ABC transporter; Region: ABC_tran_2; pfam12848 1004788007953 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788007954 PilZ domain; Region: PilZ; cl01260 1004788007955 DNA repair protein RadA; Provisional; Region: PRK11823 1004788007956 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 1004788007957 Walker A motif/ATP binding site; other site 1004788007958 ATP binding site [chemical binding]; other site 1004788007959 Walker B motif; other site 1004788007960 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1004788007961 PilZ domain; Region: PilZ; pfam07238 1004788007962 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1004788007963 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 1004788007964 motif II; other site 1004788007965 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1004788007966 active site 1004788007967 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1004788007968 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1004788007969 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1004788007970 GTPase Era; Reviewed; Region: era; PRK00089 1004788007971 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1004788007972 G1 box; other site 1004788007973 GTP/Mg2+ binding site [chemical binding]; other site 1004788007974 Switch I region; other site 1004788007975 G2 box; other site 1004788007976 Switch II region; other site 1004788007977 G3 box; other site 1004788007978 G4 box; other site 1004788007979 G5 box; other site 1004788007980 KH domain; Region: KH_2; pfam07650 1004788007981 ribonuclease III; Reviewed; Region: rnc; PRK00102 1004788007982 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 1004788007983 dimerization interface [polypeptide binding]; other site 1004788007984 active site 1004788007985 metal binding site [ion binding]; metal-binding site 1004788007986 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 1004788007987 dsRNA binding site [nucleotide binding]; other site 1004788007988 signal peptidase I; Provisional; Region: PRK10861 1004788007989 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 1004788007990 Catalytic site [active] 1004788007991 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 1004788007992 GTP-binding protein LepA; Provisional; Region: PRK05433 1004788007993 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1004788007994 G1 box; other site 1004788007995 putative GEF interaction site [polypeptide binding]; other site 1004788007996 GTP/Mg2+ binding site [chemical binding]; other site 1004788007997 Switch I region; other site 1004788007998 G2 box; other site 1004788007999 G3 box; other site 1004788008000 Switch II region; other site 1004788008001 G4 box; other site 1004788008002 G5 box; other site 1004788008003 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 1004788008004 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 1004788008005 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1004788008006 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1004788008007 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1004788008008 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1004788008009 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1004788008010 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1004788008011 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1004788008012 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788008013 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 1004788008014 DNA binding residues [nucleotide binding] 1004788008015 L-aspartate oxidase; Provisional; Region: PRK09077 1004788008016 L-aspartate oxidase; Provisional; Region: PRK06175 1004788008017 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1004788008018 (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 1004788008019 active site 1004788008020 catalytic site [active] 1004788008021 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1004788008022 putative global regulator; Reviewed; Region: PRK09559 1004788008023 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1004788008024 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1004788008025 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004788008026 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1004788008027 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1004788008028 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1004788008029 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 1004788008030 homodimer interface [polypeptide binding]; other site 1004788008031 NAD binding pocket [chemical binding]; other site 1004788008032 ATP binding pocket [chemical binding]; other site 1004788008033 Mg binding site [ion binding]; other site 1004788008034 active-site loop [active] 1004788008035 Type II transport protein GspH; Region: GspH; pfam12019 1004788008036 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1004788008037 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1004788008038 hypothetical protein; Provisional; Region: PRK10506 1004788008039 hypothetical protein; Provisional; Region: PRK10557 1004788008040 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1004788008041 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1004788008042 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1004788008043 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1004788008044 PilX N-terminal; Region: PilX_N; pfam14341 1004788008045 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004788008046 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1004788008047 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1004788008048 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1004788008049 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1004788008050 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004788008051 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1004788008052 lipoprotein signal peptidase; Provisional; Region: PRK14787 1004788008053 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1004788008054 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1004788008055 active site 1004788008056 HIGH motif; other site 1004788008057 nucleotide binding site [chemical binding]; other site 1004788008058 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004788008059 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1004788008060 active site 1004788008061 KMSKS motif; other site 1004788008062 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1004788008063 tRNA binding surface [nucleotide binding]; other site 1004788008064 anticodon binding site; other site 1004788008065 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004788008066 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1004788008067 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1004788008068 active site 1004788008069 Riboflavin kinase; Region: Flavokinase; smart00904 1004788008070 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1004788008071 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1004788008072 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1004788008073 short chain dehydrogenase; Provisional; Region: PRK08251 1004788008074 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 1004788008075 putative NAD(P) binding site [chemical binding]; other site 1004788008076 active site 1004788008077 Phosphotransferase enzyme family; Region: APH; pfam01636 1004788008078 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 1004788008079 putative active site [active] 1004788008080 putative substrate binding site [chemical binding]; other site 1004788008081 ATP binding site [chemical binding]; other site 1004788008082 short chain dehydrogenase; Provisional; Region: PRK05650 1004788008083 classical (c) SDRs; Region: SDR_c; cd05233 1004788008084 NAD(P) binding site [chemical binding]; other site 1004788008085 active site 1004788008086 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1004788008087 Sodium Bile acid symporter family; Region: SBF; pfam01758 1004788008088 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004788008089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788008090 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 1004788008091 substrate binding pocket [chemical binding]; other site 1004788008092 dimerization interface [polypeptide binding]; other site 1004788008093 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004788008094 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1004788008095 putative active site [active] 1004788008096 putative metal binding site [ion binding]; other site 1004788008097 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 1004788008098 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004788008099 putative acyl-acceptor binding pocket; other site 1004788008100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1004788008101 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1004788008102 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1004788008103 metal binding site [ion binding]; metal-binding site 1004788008104 dimer interface [polypeptide binding]; other site 1004788008105 periplasmic folding chaperone; Provisional; Region: PRK10788 1004788008106 SurA N-terminal domain; Region: SurA_N_3; cl07813 1004788008107 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1004788008108 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 1004788008109 IHF dimer interface [polypeptide binding]; other site 1004788008110 IHF - DNA interface [nucleotide binding]; other site 1004788008111 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1004788008112 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1004788008113 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 1004788008114 Walker A motif; other site 1004788008115 ATP binding site [chemical binding]; other site 1004788008116 Walker B motif; other site 1004788008117 arginine finger; other site 1004788008118 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1004788008119 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1004788008120 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1004788008121 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 1004788008122 Walker A motif; other site 1004788008123 ATP binding site [chemical binding]; other site 1004788008124 Walker B motif; other site 1004788008125 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004788008126 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1004788008127 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1004788008128 oligomer interface [polypeptide binding]; other site 1004788008129 active site residues [active] 1004788008130 trigger factor; Provisional; Region: tig; PRK01490 1004788008131 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004788008132 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1004788008133 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1004788008134 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1004788008135 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1004788008136 homodimer interface [polypeptide binding]; other site 1004788008137 NADP binding site [chemical binding]; other site 1004788008138 substrate binding site [chemical binding]; other site 1004788008139 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1004788008140 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1004788008141 homodimer interaction site [polypeptide binding]; other site 1004788008142 cofactor binding site; other site 1004788008143 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1004788008144 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 1004788008145 dimer interface [polypeptide binding]; other site 1004788008146 motif 1; other site 1004788008147 active site 1004788008148 motif 2; other site 1004788008149 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 1004788008150 putative deacylase active site [active] 1004788008151 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 1004788008152 active site 1004788008153 motif 3; other site 1004788008154 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 1004788008155 anticodon binding site; other site 1004788008156 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1004788008157 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 1004788008158 dimerization interface [polypeptide binding]; other site 1004788008159 substrate binding site [chemical binding]; other site 1004788008160 active site 1004788008161 calcium binding site [ion binding]; other site 1004788008162 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1004788008163 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1004788008164 putative active site [active] 1004788008165 Zn binding site [ion binding]; other site 1004788008166 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788008167 dimer interface [polypeptide binding]; other site 1004788008168 putative CheW interface [polypeptide binding]; other site 1004788008169 GMP synthase; Reviewed; Region: guaA; PRK00074 1004788008170 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1004788008171 AMP/PPi binding site [chemical binding]; other site 1004788008172 candidate oxyanion hole; other site 1004788008173 catalytic triad [active] 1004788008174 potential glutamine specificity residues [chemical binding]; other site 1004788008175 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 1004788008176 ATP Binding subdomain [chemical binding]; other site 1004788008177 Ligand Binding sites [chemical binding]; other site 1004788008178 Dimerization subdomain; other site 1004788008179 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1004788008180 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 1004788008181 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 1004788008182 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 1004788008183 active site 1004788008184 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1004788008185 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 1004788008186 generic binding surface II; other site 1004788008187 generic binding surface I; other site 1004788008188 GTP-binding protein Der; Reviewed; Region: PRK00093 1004788008189 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1004788008190 G1 box; other site 1004788008191 GTP/Mg2+ binding site [chemical binding]; other site 1004788008192 Switch I region; other site 1004788008193 G2 box; other site 1004788008194 Switch II region; other site 1004788008195 G3 box; other site 1004788008196 G4 box; other site 1004788008197 G5 box; other site 1004788008198 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1004788008199 G1 box; other site 1004788008200 GTP/Mg2+ binding site [chemical binding]; other site 1004788008201 Switch I region; other site 1004788008202 G2 box; other site 1004788008203 G3 box; other site 1004788008204 Switch II region; other site 1004788008205 G4 box; other site 1004788008206 G5 box; other site 1004788008207 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1004788008208 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1004788008209 Trp docking motif [polypeptide binding]; other site 1004788008210 active site 1004788008211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1004788008212 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1004788008213 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1004788008214 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 1004788008215 dimer interface [polypeptide binding]; other site 1004788008216 motif 1; other site 1004788008217 active site 1004788008218 motif 2; other site 1004788008219 motif 3; other site 1004788008220 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 1004788008221 anticodon binding site; other site 1004788008222 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1004788008223 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1004788008224 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1004788008225 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1004788008226 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 1004788008227 non-specific DNA binding site [nucleotide binding]; other site 1004788008228 salt bridge; other site 1004788008229 sequence-specific DNA binding site [nucleotide binding]; other site 1004788008230 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1004788008231 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1004788008232 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 1004788008233 binding surface 1004788008234 TPR motif; other site 1004788008235 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 1004788008236 binding surface 1004788008237 TPR motif; other site 1004788008238 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 1004788008239 binding surface 1004788008240 TPR motif; other site 1004788008241 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788008242 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1004788008243 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 1004788008244 FeS/SAM binding site; other site 1004788008245 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 1004788008246 active site 1004788008247 multimer interface [polypeptide binding]; other site 1004788008248 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1004788008249 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1004788008250 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1004788008251 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1004788008252 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 1004788008253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788008254 catalytic residue [active] 1004788008255 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1004788008256 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1004788008257 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1004788008258 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1004788008259 Walker A/P-loop; other site 1004788008260 ATP binding site [chemical binding]; other site 1004788008261 Q-loop/lid; other site 1004788008262 ABC transporter signature motif; other site 1004788008263 Walker B; other site 1004788008264 D-loop; other site 1004788008265 H-loop/switch region; other site 1004788008266 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1004788008267 putative ABC transporter; Region: ycf24; CHL00085 1004788008268 cysteine desulfurase; Provisional; Region: PRK14012 1004788008269 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1004788008270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788008271 catalytic residue [active] 1004788008272 Transcriptional regulator; Region: Rrf2; cl17282 1004788008273 Rrf2 family protein; Region: rrf2_super; TIGR00738 1004788008274 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004788008275 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1004788008276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1004788008277 serine O-acetyltransferase; Region: cysE; TIGR01172 1004788008278 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1004788008279 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 1004788008280 trimer interface [polypeptide binding]; other site 1004788008281 active site 1004788008282 substrate binding site [chemical binding]; other site 1004788008283 CoA binding site [chemical binding]; other site 1004788008284 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1004788008285 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1004788008286 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004788008287 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 1004788008288 active site 1004788008289 dimerization interface [polypeptide binding]; other site 1004788008290 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1004788008291 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1004788008292 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004788008293 LytTr DNA-binding domain; Region: LytTR; smart00850 1004788008294 HTH-like domain; Region: HTH_21; pfam13276 1004788008295 Integrase core domain; Region: rve; pfam00665 1004788008296 Integrase core domain; Region: rve_2; pfam13333 1004788008297 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1004788008298 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004788008299 Protein export membrane protein; Region: SecD_SecF; pfam02355 1004788008300 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1004788008301 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1004788008302 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1004788008303 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1004788008304 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1004788008305 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1004788008306 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1004788008307 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1004788008308 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1004788008309 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1004788008310 PspA/IM30 family; Region: PspA_IM30; pfam04012 1004788008311 Ion channel; Region: Ion_trans_2; pfam07885 1004788008312 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 1004788008313 Predicted membrane protein [Function unknown]; Region: COG3766 1004788008314 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1004788008315 hypothetical protein; Provisional; Region: PRK11653 1004788008316 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1004788008317 Rhomboid family; Region: Rhomboid; pfam01694 1004788008318 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1004788008319 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004788008320 Walker A/P-loop; other site 1004788008321 ATP binding site [chemical binding]; other site 1004788008322 Q-loop/lid; other site 1004788008323 ABC transporter signature motif; other site 1004788008324 Walker B; other site 1004788008325 D-loop; other site 1004788008326 H-loop/switch region; other site 1004788008327 FtsX-like permease family; Region: FtsX; pfam02687 1004788008328 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1004788008329 FtsX-like permease family; Region: FtsX; pfam02687 1004788008330 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 1004788008331 glutaminase; Provisional; Region: PRK00971 1004788008332 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1004788008333 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1004788008334 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 1004788008335 dimer interface [polypeptide binding]; other site 1004788008336 active site 1004788008337 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1004788008338 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008340 active site 1004788008341 phosphorylation site [posttranslational modification] 1004788008342 intermolecular recognition site; other site 1004788008343 dimerization interface [polypeptide binding]; other site 1004788008344 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 1004788008345 tetramer interface [polypeptide binding]; other site 1004788008346 active site 1004788008347 Mg2+/Mn2+ binding site [ion binding]; other site 1004788008348 isocitrate lyase; Region: PLN02892 1004788008349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788008350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788008351 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 1004788008352 substrate binding pocket [chemical binding]; other site 1004788008353 dimerization interface [polypeptide binding]; other site 1004788008354 malate synthase G; Provisional; Region: PRK02999 1004788008355 active site 1004788008356 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1004788008357 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1004788008358 active site 1004788008359 nucleophile elbow; other site 1004788008360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004788008361 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1004788008362 putative NAD(P) binding site [chemical binding]; other site 1004788008363 active site 1004788008364 putative substrate binding site [chemical binding]; other site 1004788008365 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 1004788008366 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 1004788008367 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1004788008368 FAD binding domain; Region: FAD_binding_4; pfam01565 1004788008369 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1004788008370 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1004788008371 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1004788008372 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1004788008373 putative active site [active] 1004788008374 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004788008375 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1004788008376 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 1004788008377 binding surface 1004788008378 TPR motif; other site 1004788008379 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 1004788008380 binding surface 1004788008381 TPR motif; other site 1004788008382 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 1004788008383 TPR motif; other site 1004788008384 binding surface 1004788008385 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 1004788008386 binding surface 1004788008387 TPR motif; other site 1004788008388 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1004788008389 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1004788008390 trimer interface [polypeptide binding]; other site 1004788008391 active site 1004788008392 substrate binding site [chemical binding]; other site 1004788008393 CoA binding site [chemical binding]; other site 1004788008394 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1004788008395 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1004788008396 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 1004788008397 active site 1004788008398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788008399 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 1004788008400 putative ADP-binding pocket [chemical binding]; other site 1004788008401 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 1004788008402 putative active site [active] 1004788008403 putative catalytic site [active] 1004788008404 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1004788008405 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1004788008406 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 1004788008407 active site 1004788008408 dimer interface [polypeptide binding]; other site 1004788008409 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 1004788008410 Ligand Binding Site [chemical binding]; other site 1004788008411 Molecular Tunnel; other site 1004788008412 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 1004788008413 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1004788008414 putative ADP-binding pocket [chemical binding]; other site 1004788008415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788008416 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 1004788008417 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1004788008418 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1004788008419 putative trimer interface [polypeptide binding]; other site 1004788008420 putative CoA binding site [chemical binding]; other site 1004788008421 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1004788008422 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1004788008423 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1004788008424 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 1004788008425 inhibitor-cofactor binding pocket; inhibition site 1004788008426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788008427 catalytic residue [active] 1004788008428 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004788008429 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 1004788008430 active site 1004788008431 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1004788008432 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1004788008433 O-Antigen ligase; Region: Wzy_C; cl04850 1004788008434 Right handed beta helix region; Region: Beta_helix; pfam13229 1004788008435 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1004788008436 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1004788008437 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 1004788008438 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 1004788008439 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 1004788008440 putative active site [active] 1004788008441 putative catalytic site [active] 1004788008442 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 1004788008443 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1004788008444 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1004788008445 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1004788008446 SLBB domain; Region: SLBB; pfam10531 1004788008447 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1004788008448 Chain length determinant protein; Region: Wzz; pfam02706 1004788008449 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1004788008450 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 1004788008451 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 1004788008452 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1004788008453 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1004788008454 GIY-YIG motif/motif A; other site 1004788008455 putative active site [active] 1004788008456 putative metal binding site [ion binding]; other site 1004788008457 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1004788008458 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004788008459 metal binding triad; other site 1004788008460 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1004788008461 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004788008462 metal binding triad; other site 1004788008463 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1004788008464 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1004788008465 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1004788008466 putative acyl-acceptor binding pocket; other site 1004788008467 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 1004788008468 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004788008469 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1004788008470 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788008471 active site 1004788008472 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1004788008473 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004788008474 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788008475 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788008476 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 1004788008477 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788008478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788008479 metal binding site [ion binding]; metal-binding site 1004788008480 active site 1004788008481 I-site; other site 1004788008482 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 1004788008483 thymidine kinase; Provisional; Region: PRK04296 1004788008484 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788008485 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 1004788008486 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 1004788008487 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788008488 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788008489 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788008490 DNA binding site [nucleotide binding] 1004788008491 domain linker motif; other site 1004788008492 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 1004788008493 putative dimerization interface [polypeptide binding]; other site 1004788008494 putative ligand binding site [chemical binding]; other site 1004788008495 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788008496 active site 1004788008497 Pectinacetylesterase; Region: PAE; pfam03283 1004788008498 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 1004788008499 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1004788008500 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 1004788008501 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1004788008502 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1004788008503 GTP/Mg2+ binding site [chemical binding]; other site 1004788008504 G4 box; other site 1004788008505 G5 box; other site 1004788008506 G1 box; other site 1004788008507 Switch I region; other site 1004788008508 G2 box; other site 1004788008509 G3 box; other site 1004788008510 Switch II region; other site 1004788008511 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1004788008512 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1004788008513 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004788008514 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1004788008515 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 1004788008516 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788008517 catalytic residue [active] 1004788008518 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1004788008519 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 1004788008520 substrate binding site [chemical binding]; other site 1004788008521 oxyanion hole (OAH) forming residues; other site 1004788008522 trimer interface [polypeptide binding]; other site 1004788008523 Predicted membrane protein [Function unknown]; Region: COG4539 1004788008524 META domain; Region: META; pfam03724 1004788008525 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1004788008526 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1004788008527 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1004788008528 NAD(P) binding site [chemical binding]; other site 1004788008529 catalytic residues [active] 1004788008530 choline dehydrogenase; Validated; Region: PRK02106 1004788008531 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1004788008532 BCCT family transporter; Region: BCCT; cl00569 1004788008533 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1004788008534 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 1004788008535 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1004788008536 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1004788008537 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1004788008538 DNA binding residues [nucleotide binding] 1004788008539 dimer interface [polypeptide binding]; other site 1004788008540 [2Fe-2S] cluster binding site [ion binding]; other site 1004788008541 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 1004788008542 active site 1004788008543 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 1004788008544 active site 1004788008545 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1004788008546 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1004788008547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1004788008548 active site 1004788008549 DsrE/DsrF-like family; Region: DrsE; pfam02635 1004788008550 Major royal jelly protein; Region: MRJP; pfam03022 1004788008551 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1004788008552 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1004788008553 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1004788008554 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1004788008555 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1004788008556 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1004788008557 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1004788008558 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004788008559 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788008560 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1004788008561 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004788008562 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004788008563 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004788008564 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1004788008565 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1004788008566 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788008567 dimer interface [polypeptide binding]; other site 1004788008568 active site 1004788008569 metal binding site [ion binding]; metal-binding site 1004788008570 glutathione binding site [chemical binding]; other site 1004788008571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1004788008572 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1004788008573 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1004788008574 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1004788008575 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 1004788008576 catalytic loop [active] 1004788008577 iron binding site [ion binding]; other site 1004788008578 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1004788008579 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1004788008580 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1004788008581 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1004788008582 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1004788008583 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1004788008584 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1004788008585 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788008586 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1004788008587 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 1004788008588 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1004788008589 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 1004788008590 FeS/SAM binding site; other site 1004788008591 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1004788008592 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1004788008593 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1004788008594 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 1004788008595 potential frameshift: common BLAST hit: gi|332142222|ref|YP_004427960.1| BNR/Asp-box repeat-containing protein 1004788008596 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 1004788008597 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1004788008598 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1004788008599 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 1004788008600 dimer interface [polypeptide binding]; other site 1004788008601 conserved gate region; other site 1004788008602 putative PBP binding loops; other site 1004788008603 ABC-ATPase subunit interface; other site 1004788008604 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1004788008605 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 1004788008606 dimer interface [polypeptide binding]; other site 1004788008607 conserved gate region; other site 1004788008608 putative PBP binding loops; other site 1004788008609 ABC-ATPase subunit interface; other site 1004788008610 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1004788008611 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1004788008612 Walker A/P-loop; other site 1004788008613 ATP binding site [chemical binding]; other site 1004788008614 Q-loop/lid; other site 1004788008615 ABC transporter signature motif; other site 1004788008616 Walker B; other site 1004788008617 D-loop; other site 1004788008618 H-loop/switch region; other site 1004788008619 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1004788008620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788008621 Walker A/P-loop; other site 1004788008622 ATP binding site [chemical binding]; other site 1004788008623 Q-loop/lid; other site 1004788008624 ABC transporter signature motif; other site 1004788008625 Walker B; other site 1004788008626 D-loop; other site 1004788008627 H-loop/switch region; other site 1004788008628 hypothetical protein; Provisional; Region: PRK06194 1004788008629 classical (c) SDRs; Region: SDR_c; cd05233 1004788008630 NAD(P) binding site [chemical binding]; other site 1004788008631 active site 1004788008632 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 1004788008633 putative heme binding site [chemical binding]; other site 1004788008634 putative substrate binding site [chemical binding]; other site 1004788008635 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1004788008636 classical (c) SDRs; Region: SDR_c; cd05233 1004788008637 NAD(P) binding site [chemical binding]; other site 1004788008638 active site 1004788008639 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1004788008640 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1004788008641 proposed catalytic triad [active] 1004788008642 conserved cys residue [active] 1004788008643 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1004788008644 putative MFS family transporter protein; Provisional; Region: PRK03633 1004788008645 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004788008646 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004788008647 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788008648 Histidine kinase; Region: His_kinase; pfam06580 1004788008649 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1004788008650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008651 active site 1004788008652 phosphorylation site [posttranslational modification] 1004788008653 intermolecular recognition site; other site 1004788008654 dimerization interface [polypeptide binding]; other site 1004788008655 LytTr DNA-binding domain; Region: LytTR; smart00850 1004788008656 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1004788008657 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1004788008658 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 1004788008659 metal ion-dependent adhesion site (MIDAS); other site 1004788008660 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 1004788008661 active site 1004788008662 catalytic site [active] 1004788008663 potential frameshift: common BLAST hit: gi|71279090|ref|YP_269572.1| CzcA family heavy metal efflux protein 1004788008664 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1004788008665 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1004788008666 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788008667 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1004788008668 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1004788008669 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1004788008670 adenosine deaminase; Provisional; Region: PRK09358 1004788008671 active site 1004788008672 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 1004788008673 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788008674 putative catalytic residues [active] 1004788008675 YaeQ protein; Region: YaeQ; pfam07152 1004788008676 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004788008677 catalytic motif [active] 1004788008678 Catalytic residue [active] 1004788008679 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 1004788008680 putative FMN binding site [chemical binding]; other site 1004788008681 putative dimer interface [polypeptide binding]; other site 1004788008682 sugar efflux transporter; Region: 2A0120; TIGR00899 1004788008683 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 1004788008684 putative substrate translocation pore; other site 1004788008685 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1004788008686 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1004788008687 active site 1004788008688 Zn binding site [ion binding]; other site 1004788008689 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1004788008690 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1004788008691 MarR family; Region: MarR_2; pfam12802 1004788008692 NTP pyrophosphohydrolases including oxidative damage repair enzymes [DNA replication, recombination, and repair / General function prediction only]; Region: MutT; COG0494 1004788008693 nudix motif; other site 1004788008694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1004788008695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788008696 Coenzyme A binding pocket [chemical binding]; other site 1004788008697 endonuclease VIII; Provisional; Region: PRK10445 1004788008698 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1004788008699 DNA binding site [nucleotide binding] 1004788008700 catalytic residue [active] 1004788008701 putative catalytic residues [active] 1004788008702 H2TH interface [polypeptide binding]; other site 1004788008703 intercalation triad [nucleotide binding]; other site 1004788008704 substrate specificity determining residue; other site 1004788008705 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1004788008706 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1004788008707 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 1004788008708 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788008709 NADP binding site [chemical binding]; other site 1004788008710 dimer interface [polypeptide binding]; other site 1004788008711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1004788008712 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1004788008713 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 1004788008714 ATP binding site [chemical binding]; other site 1004788008715 putative Mg++ binding site [ion binding]; other site 1004788008716 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 1004788008717 nucleotide binding region [chemical binding]; other site 1004788008718 ATP-binding site [chemical binding]; other site 1004788008719 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 1004788008720 active site 1004788008721 homodimer interface [polypeptide binding]; other site 1004788008722 SAM binding site [chemical binding]; other site 1004788008723 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 1004788008724 binding surface 1004788008725 TPR motif; other site 1004788008726 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788008727 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 1004788008728 binding surface 1004788008729 TPR motif; other site 1004788008730 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 1004788008731 dimer interface [polypeptide binding]; other site 1004788008732 phosphorylation site [posttranslational modification] 1004788008733 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 1004788008734 ATP binding site [chemical binding]; other site 1004788008735 Mg2+ binding site [ion binding]; other site 1004788008736 G-X-G motif; other site 1004788008737 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008739 active site 1004788008740 phosphorylation site [posttranslational modification] 1004788008741 intermolecular recognition site; other site 1004788008742 dimerization interface [polypeptide binding]; other site 1004788008743 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788008744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008745 active site 1004788008746 phosphorylation site [posttranslational modification] 1004788008747 intermolecular recognition site; other site 1004788008748 dimerization interface [polypeptide binding]; other site 1004788008749 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 1004788008750 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1004788008751 GAF domain; Region: GAF; pfam01590 1004788008752 Phytochrome region; Region: PHY; pfam00360 1004788008753 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 1004788008754 dimer interface [polypeptide binding]; other site 1004788008755 phosphorylation site [posttranslational modification] 1004788008756 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 1004788008757 ATP binding site [chemical binding]; other site 1004788008758 Mg2+ binding site [ion binding]; other site 1004788008759 G-X-G motif; other site 1004788008760 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008762 active site 1004788008763 phosphorylation site [posttranslational modification] 1004788008764 intermolecular recognition site; other site 1004788008765 dimerization interface [polypeptide binding]; other site 1004788008766 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1004788008767 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1004788008768 conserved hypothetical protein; Region: TIGR02285 1004788008769 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1004788008770 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004788008771 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004788008772 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1004788008773 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1004788008774 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1004788008775 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1004788008776 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1004788008777 glycine dehydrogenase; Provisional; Region: PRK05367 1004788008778 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 1004788008779 tetramer interface [polypeptide binding]; other site 1004788008780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788008781 catalytic residue [active] 1004788008782 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 1004788008783 tetramer interface [polypeptide binding]; other site 1004788008784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788008785 catalytic residue [active] 1004788008786 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 1004788008787 lipoyl attachment site [posttranslational modification]; other site 1004788008788 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1004788008789 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1004788008790 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788008791 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 1004788008792 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1004788008793 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 1004788008794 active site 1004788008795 dimer interface [polypeptide binding]; other site 1004788008796 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1004788008797 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 1004788008798 dimer interface [polypeptide binding]; other site 1004788008799 active site 1004788008800 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 1004788008801 dimer interface [polypeptide binding]; other site 1004788008802 active site 1004788008803 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1004788008804 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 1004788008805 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1004788008806 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 1004788008807 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1004788008808 active site 1004788008809 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1004788008810 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788008811 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 1004788008812 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 1004788008813 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788008814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788008815 DNA binding site [nucleotide binding] 1004788008816 domain linker motif; other site 1004788008817 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1004788008818 putative dimerization interface [polypeptide binding]; other site 1004788008819 putative ligand binding site [chemical binding]; other site 1004788008820 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788008821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788008822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788008823 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1004788008824 dimerization interface [polypeptide binding]; other site 1004788008825 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1004788008826 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1004788008827 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1004788008828 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 1004788008829 active site 1004788008830 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788008831 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 1004788008832 PA/protease or protease-like domain interface [polypeptide binding]; other site 1004788008833 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788008834 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004788008835 metal binding site [ion binding]; metal-binding site 1004788008836 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004788008837 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1004788008838 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1004788008839 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1004788008840 proline aminopeptidase P II; Provisional; Region: PRK10879 1004788008841 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1004788008842 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 1004788008843 active site 1004788008844 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1004788008845 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004788008846 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 1004788008847 substrate binding site [chemical binding]; other site 1004788008848 dimer interface [polypeptide binding]; other site 1004788008849 ATP binding site [chemical binding]; other site 1004788008850 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 1004788008851 active site 1004788008852 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788008853 GAF domain; Region: GAF; pfam01590 1004788008854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788008855 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 1004788008856 dimer interface [polypeptide binding]; other site 1004788008857 phosphorylation site [posttranslational modification] 1004788008858 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 1004788008859 ATP binding site [chemical binding]; other site 1004788008860 Mg2+ binding site [ion binding]; other site 1004788008861 G-X-G motif; other site 1004788008862 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008864 active site 1004788008865 phosphorylation site [posttranslational modification] 1004788008866 intermolecular recognition site; other site 1004788008867 dimerization interface [polypeptide binding]; other site 1004788008868 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1004788008869 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1004788008870 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 1004788008871 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1004788008872 active site 1004788008873 dimer interface [polypeptide binding]; other site 1004788008874 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1004788008875 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1004788008876 ligand binding site [chemical binding]; other site 1004788008877 NAD binding site [chemical binding]; other site 1004788008878 tetramer interface [polypeptide binding]; other site 1004788008879 catalytic site [active] 1004788008880 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1004788008881 L-serine binding site [chemical binding]; other site 1004788008882 ACT domain interface; other site 1004788008883 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1004788008884 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1004788008885 HDOD domain; Region: HDOD; pfam08668 1004788008886 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1004788008887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1004788008888 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1004788008889 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788008890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788008891 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788008892 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1004788008893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788008894 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 1004788008895 substrate binding pocket [chemical binding]; other site 1004788008896 dimerization interface [polypeptide binding]; other site 1004788008897 HTH-like domain; Region: HTH_21; pfam13276 1004788008898 Integrase core domain; Region: rve; pfam00665 1004788008899 Integrase core domain; Region: rve_2; pfam13333 1004788008900 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1004788008901 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1004788008902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788008903 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004788008904 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 1004788008905 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1004788008906 E3 interaction surface; other site 1004788008907 lipoyl attachment site [posttranslational modification]; other site 1004788008908 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 1004788008909 E3 interaction surface; other site 1004788008910 lipoyl attachment site [posttranslational modification]; other site 1004788008911 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 1004788008912 E3 interaction surface; other site 1004788008913 lipoyl attachment site [posttranslational modification]; other site 1004788008914 e3 binding domain; Region: E3_binding; pfam02817 1004788008915 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1004788008916 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1004788008917 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 1004788008918 dimer interface [polypeptide binding]; other site 1004788008919 TPP-binding site [chemical binding]; other site 1004788008920 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1004788008921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788008922 DNA-binding site [nucleotide binding]; DNA binding site 1004788008923 FCD domain; Region: FCD; pfam07729 1004788008924 regulatory protein AmpE; Provisional; Region: PRK10987 1004788008925 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1004788008926 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 1004788008927 amidase catalytic site [active] 1004788008928 Zn binding residues [ion binding]; other site 1004788008929 substrate binding site [chemical binding]; other site 1004788008930 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1004788008931 catalytic motif [active] 1004788008932 Catalytic residue [active] 1004788008933 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1004788008934 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 1004788008935 dimerization interface [polypeptide binding]; other site 1004788008936 active site 1004788008937 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1004788008938 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1004788008939 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788008940 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788008941 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 1004788008942 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1004788008943 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1004788008944 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1004788008945 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 1004788008946 CoA-binding site [chemical binding]; other site 1004788008947 ATP-binding [chemical binding]; other site 1004788008948 hypothetical protein; Provisional; Region: PRK05287 1004788008949 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1004788008950 aspartoacylase; Provisional; Region: PRK02259 1004788008951 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1004788008952 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1004788008953 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788008954 dimer interface [polypeptide binding]; other site 1004788008955 putative CheW interface [polypeptide binding]; other site 1004788008956 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008958 active site 1004788008959 phosphorylation site [posttranslational modification] 1004788008960 intermolecular recognition site; other site 1004788008961 dimerization interface [polypeptide binding]; other site 1004788008962 AAA domain; Region: AAA_31; pfam13614 1004788008963 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 1004788008964 P-loop; other site 1004788008965 Magnesium ion binding site [ion binding]; other site 1004788008966 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 1004788008967 Magnesium ion binding site [ion binding]; other site 1004788008968 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 1004788008969 putative binding surface; other site 1004788008970 active site 1004788008971 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1004788008972 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1004788008973 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 1004788008974 ATP binding site [chemical binding]; other site 1004788008975 Mg2+ binding site [ion binding]; other site 1004788008976 G-X-G motif; other site 1004788008977 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 1004788008978 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788008979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008980 active site 1004788008981 phosphorylation site [posttranslational modification] 1004788008982 intermolecular recognition site; other site 1004788008983 dimerization interface [polypeptide binding]; other site 1004788008984 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1004788008985 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1004788008986 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1004788008987 HEAT repeats; Region: HEAT_2; pfam13646 1004788008988 HEAT repeats; Region: HEAT_2; pfam13646 1004788008989 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1004788008990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788008991 active site 1004788008992 phosphorylation site [posttranslational modification] 1004788008993 intermolecular recognition site; other site 1004788008994 CheB methylesterase; Region: CheB_methylest; pfam01339 1004788008995 CheW-like domain; Region: CheW; pfam01584 1004788008996 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1004788008997 CheW-like domain; Region: CheW; pfam01584 1004788008998 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788008999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788009000 dimer interface [polypeptide binding]; other site 1004788009001 putative CheW interface [polypeptide binding]; other site 1004788009002 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788009003 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788009004 dimer interface [polypeptide binding]; other site 1004788009005 putative CheW interface [polypeptide binding]; other site 1004788009006 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 1004788009007 active site 1004788009008 8-oxo-dGMP binding site [chemical binding]; other site 1004788009009 nudix motif; other site 1004788009010 metal binding site [ion binding]; metal-binding site 1004788009011 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1004788009012 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1004788009013 SEC-C motif; Region: SEC-C; pfam02810 1004788009014 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004788009015 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788009016 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1004788009017 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1004788009018 cell division protein FtsZ; Validated; Region: PRK09330 1004788009019 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 1004788009020 nucleotide binding site [chemical binding]; other site 1004788009021 SulA interaction site; other site 1004788009022 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1004788009023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1004788009024 nucleotide binding site [chemical binding]; other site 1004788009025 Cell division protein FtsA; Region: FtsA; pfam14450 1004788009026 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1004788009027 Cell division protein FtsQ; Region: FtsQ; pfam03799 1004788009028 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1004788009029 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1004788009030 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788009031 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1004788009032 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004788009033 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788009034 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004788009035 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1004788009036 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 1004788009037 active site 1004788009038 homodimer interface [polypeptide binding]; other site 1004788009039 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1004788009040 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1004788009041 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788009042 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1004788009043 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 1004788009044 Mg++ binding site [ion binding]; other site 1004788009045 putative catalytic motif [active] 1004788009046 putative substrate binding site [chemical binding]; other site 1004788009047 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1004788009048 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004788009049 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788009050 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004788009051 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1004788009052 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1004788009053 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1004788009054 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1004788009055 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1004788009056 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1004788009057 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1004788009058 Cell division protein FtsL; Region: FtsL; pfam04999 1004788009059 MraW methylase family; Region: Methyltransf_5; pfam01795 1004788009060 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1004788009061 cell division protein MraZ; Reviewed; Region: PRK00326 1004788009062 MraZ protein; Region: MraZ; pfam02381 1004788009063 MraZ protein; Region: MraZ; pfam02381 1004788009064 SapC; Region: SapC; pfam07277 1004788009065 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 1004788009066 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1004788009067 active site 1004788009068 dimer interface [polypeptide binding]; other site 1004788009069 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1004788009070 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1004788009071 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788009072 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1004788009073 Outer membrane efflux protein; Region: OEP; pfam02321 1004788009074 Outer membrane efflux protein; Region: OEP; pfam02321 1004788009075 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788009076 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 1004788009077 catalytic triad [active] 1004788009078 dimer interface [polypeptide binding]; other site 1004788009079 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004788009080 ParA-like protein; Provisional; Region: PHA02518 1004788009081 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 1004788009082 P-loop; other site 1004788009083 Magnesium ion binding site [ion binding]; other site 1004788009084 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788009085 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788009086 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788009087 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788009088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788009089 metal binding site [ion binding]; metal-binding site 1004788009090 active site 1004788009091 I-site; other site 1004788009092 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1004788009093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009094 active site 1004788009095 phosphorylation site [posttranslational modification] 1004788009096 intermolecular recognition site; other site 1004788009097 dimerization interface [polypeptide binding]; other site 1004788009098 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 1004788009099 Walker A motif; other site 1004788009100 ATP binding site [chemical binding]; other site 1004788009101 Walker B motif; other site 1004788009102 arginine finger; other site 1004788009103 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004788009104 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1004788009105 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 1004788009106 ATP binding site [chemical binding]; other site 1004788009107 Mg2+ binding site [ion binding]; other site 1004788009108 G-X-G motif; other site 1004788009109 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1004788009110 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 1004788009111 active site 1004788009112 Peptidase family M48; Region: Peptidase_M48; pfam01435 1004788009113 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788009114 RNA methyltransferase, RsmE family; Region: TIGR00046 1004788009115 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1004788009116 glutathione synthetase; Provisional; Region: PRK05246 1004788009117 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1004788009118 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1004788009119 hypothetical protein; Validated; Region: PRK00228 1004788009120 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1004788009121 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1004788009122 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1004788009123 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 1004788009124 ATP binding site [chemical binding]; other site 1004788009125 Walker B motif; other site 1004788009126 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1004788009127 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 1004788009128 Walker A motif; other site 1004788009129 ATP binding site [chemical binding]; other site 1004788009130 Walker B motif; other site 1004788009131 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1004788009132 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004788009133 catalytic residue [active] 1004788009134 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1004788009135 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1004788009136 YGGT family; Region: YGGT; pfam02325 1004788009137 YGGT family; Region: YGGT; pfam02325 1004788009138 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1004788009139 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788009140 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 1004788009141 active site 1004788009142 FMN binding site [chemical binding]; other site 1004788009143 2,4-decadienoyl-CoA binding site; other site 1004788009144 catalytic residue [active] 1004788009145 4Fe-4S cluster binding site [ion binding]; other site 1004788009146 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1004788009147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788009148 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 1004788009149 active site 1004788009150 metal binding site [ion binding]; metal-binding site 1004788009151 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1004788009152 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788009153 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 1004788009154 putative C-terminal domain interface [polypeptide binding]; other site 1004788009155 putative GSH binding site (G-site) [chemical binding]; other site 1004788009156 putative dimer interface [polypeptide binding]; other site 1004788009157 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004788009158 dimer interface [polypeptide binding]; other site 1004788009159 N-terminal domain interface [polypeptide binding]; other site 1004788009160 substrate binding pocket (H-site) [chemical binding]; other site 1004788009161 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1004788009162 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 1004788009163 active site 1004788009164 Cu2+ binding site [ion binding]; other site 1004788009165 E-class dimer interface [polypeptide binding]; other site 1004788009166 Zn2+ binding site [ion binding]; other site 1004788009167 P-class dimer interface [polypeptide binding]; other site 1004788009168 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1004788009169 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 1004788009170 AzlC protein; Region: AzlC; pfam03591 1004788009171 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1004788009172 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 1004788009173 sequence-specific DNA binding site [nucleotide binding]; other site 1004788009174 salt bridge; other site 1004788009175 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 1004788009176 MFS transport protein AraJ; Provisional; Region: PRK10091 1004788009177 putative substrate translocation pore; other site 1004788009178 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1004788009179 RNA recognition motif; Region: RRM; smart00360 1004788009180 hypothetical protein; Validated; Region: PRK02101 1004788009181 transaldolase-like protein; Provisional; Region: PTZ00411 1004788009182 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1004788009183 active site 1004788009184 dimer interface [polypeptide binding]; other site 1004788009185 catalytic residue [active] 1004788009186 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1004788009187 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1004788009188 active site 1004788009189 dimer interface [polypeptide binding]; other site 1004788009190 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1004788009191 dimer interface [polypeptide binding]; other site 1004788009192 active site 1004788009193 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 1004788009194 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1004788009195 ligand binding site [chemical binding]; other site 1004788009196 active site 1004788009197 UGI interface [polypeptide binding]; other site 1004788009198 catalytic site [active] 1004788009199 threonine synthase; Validated; Region: PRK09225 1004788009200 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1004788009201 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788009202 catalytic residue [active] 1004788009203 homoserine kinase; Provisional; Region: PRK01212 1004788009204 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1004788009205 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1004788009206 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1004788009207 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 1004788009208 putative catalytic residues [active] 1004788009209 putative nucleotide binding site [chemical binding]; other site 1004788009210 putative aspartate binding site [chemical binding]; other site 1004788009211 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1004788009212 dimer interface [polypeptide binding]; other site 1004788009213 putative threonine allosteric regulatory site; other site 1004788009214 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1004788009215 putative threonine allosteric regulatory site; other site 1004788009216 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1004788009217 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1004788009218 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004788009219 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1004788009220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788009221 AAA domain; Region: AAA_21; pfam13304 1004788009222 Walker A/P-loop; other site 1004788009223 ATP binding site [chemical binding]; other site 1004788009224 Q-loop/lid; other site 1004788009225 ABC transporter signature motif; other site 1004788009226 Walker B; other site 1004788009227 D-loop; other site 1004788009228 H-loop/switch region; other site 1004788009229 LysR family transcriptional regulator; Provisional; Region: PRK14997 1004788009230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788009231 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 1004788009232 dimerization interface [polypeptide binding]; other site 1004788009233 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1004788009234 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1004788009235 substrate binding site [chemical binding]; other site 1004788009236 catalytic Zn binding site [ion binding]; other site 1004788009237 NAD binding site [chemical binding]; other site 1004788009238 structural Zn binding site [ion binding]; other site 1004788009239 dimer interface [polypeptide binding]; other site 1004788009240 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 1004788009241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009243 active site 1004788009244 phosphorylation site [posttranslational modification] 1004788009245 intermolecular recognition site; other site 1004788009246 dimerization interface [polypeptide binding]; other site 1004788009247 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 1004788009248 DNA binding residues [nucleotide binding] 1004788009249 dimerization interface [polypeptide binding]; other site 1004788009250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004788009251 Histidine kinase; Region: HisKA_3; pfam07730 1004788009252 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 1004788009253 catalytic residues [active] 1004788009254 active site 1004788009255 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 1004788009256 putative DNA binding site [nucleotide binding]; other site 1004788009257 putative Zn2+ binding site [ion binding]; other site 1004788009258 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1004788009259 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1004788009260 active site 1004788009261 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788009262 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1004788009263 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1004788009264 arsenical-resistance protein; Region: acr3; TIGR00832 1004788009265 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788009266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009267 active site 1004788009268 phosphorylation site [posttranslational modification] 1004788009269 intermolecular recognition site; other site 1004788009270 dimerization interface [polypeptide binding]; other site 1004788009271 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1004788009272 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1004788009273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788009274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009275 active site 1004788009276 phosphorylation site [posttranslational modification] 1004788009277 intermolecular recognition site; other site 1004788009278 dimerization interface [polypeptide binding]; other site 1004788009279 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 1004788009280 DNA binding site [nucleotide binding] 1004788009281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788009282 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 1004788009283 dimerization interface [polypeptide binding]; other site 1004788009284 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 1004788009285 dimer interface [polypeptide binding]; other site 1004788009286 phosphorylation site [posttranslational modification] 1004788009287 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 1004788009288 ATP binding site [chemical binding]; other site 1004788009289 Mg2+ binding site [ion binding]; other site 1004788009290 G-X-G motif; other site 1004788009291 hypothetical protein; Provisional; Region: PRK09273 1004788009292 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1004788009293 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1004788009294 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1004788009295 D-cysteine desulfhydrase; Validated; Region: PRK03910 1004788009296 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 1004788009297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788009298 catalytic residue [active] 1004788009299 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 1004788009300 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1004788009301 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 1004788009302 active site 1004788009303 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1004788009304 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1004788009305 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1004788009306 putative hydrophobic ligand binding site [chemical binding]; other site 1004788009307 protein interface [polypeptide binding]; other site 1004788009308 gate; other site 1004788009309 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1004788009310 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004788009311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1004788009312 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1004788009313 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1004788009314 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1004788009315 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1004788009316 dimer interface [polypeptide binding]; other site 1004788009317 active site 1004788009318 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004788009319 catalytic residues [active] 1004788009320 substrate binding site [chemical binding]; other site 1004788009321 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1004788009322 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1004788009323 putative metal binding site; other site 1004788009324 Predicted methyltransferases [General function prediction only]; Region: COG0313 1004788009325 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1004788009326 putative SAM binding site [chemical binding]; other site 1004788009327 putative homodimer interface [polypeptide binding]; other site 1004788009328 LppC putative lipoprotein; Region: LppC; pfam04348 1004788009329 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1004788009330 putative ligand binding site [chemical binding]; other site 1004788009331 hypothetical protein; Reviewed; Region: PRK12497 1004788009332 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 1004788009333 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788009334 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 1004788009335 dimer interface [polypeptide binding]; other site 1004788009336 active site 1004788009337 BON domain; Region: BON; pfam04972 1004788009338 BON domain; Region: BON; pfam04972 1004788009339 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 1004788009340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004788009341 putative substrate translocation pore; other site 1004788009342 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1004788009343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004788009344 Histidine kinase; Region: HisKA_3; pfam07730 1004788009345 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009347 active site 1004788009348 phosphorylation site [posttranslational modification] 1004788009349 intermolecular recognition site; other site 1004788009350 dimerization interface [polypeptide binding]; other site 1004788009351 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 1004788009352 DNA binding residues [nucleotide binding] 1004788009353 dimerization interface [polypeptide binding]; other site 1004788009354 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788009355 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 1004788009356 N-terminal plug; other site 1004788009357 ligand-binding site [chemical binding]; other site 1004788009358 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1004788009359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788009360 DNA-binding site [nucleotide binding]; DNA binding site 1004788009361 FCD domain; Region: FCD; pfam07729 1004788009362 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1004788009363 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 1004788009364 tetramer interface [polypeptide binding]; other site 1004788009365 active site 1004788009366 Mg2+/Mn2+ binding site [ion binding]; other site 1004788009367 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1004788009368 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 1004788009369 dimer interface [polypeptide binding]; other site 1004788009370 active site 1004788009371 citrylCoA binding site [chemical binding]; other site 1004788009372 oxalacetate/citrate binding site [chemical binding]; other site 1004788009373 coenzyme A binding site [chemical binding]; other site 1004788009374 catalytic triad [active] 1004788009375 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1004788009376 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1004788009377 substrate binding site [chemical binding]; other site 1004788009378 ligand binding site [chemical binding]; other site 1004788009379 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 1004788009380 substrate binding site [chemical binding]; other site 1004788009381 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1004788009382 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788009383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009384 active site 1004788009385 phosphorylation site [posttranslational modification] 1004788009386 intermolecular recognition site; other site 1004788009387 dimerization interface [polypeptide binding]; other site 1004788009388 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788009389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009390 active site 1004788009391 phosphorylation site [posttranslational modification] 1004788009392 intermolecular recognition site; other site 1004788009393 dimerization interface [polypeptide binding]; other site 1004788009394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788009395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788009396 metal binding site [ion binding]; metal-binding site 1004788009397 active site 1004788009398 I-site; other site 1004788009399 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 1004788009400 Na binding site [ion binding]; other site 1004788009401 Predicted membrane protein [Function unknown]; Region: COG3428 1004788009402 Bacterial PH domain; Region: DUF304; pfam03703 1004788009403 Bacterial PH domain; Region: DUF304; cl01348 1004788009404 Bacterial PH domain; Region: DUF304; pfam03703 1004788009405 Bacterial PH domain; Region: DUF304; cl01348 1004788009406 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1004788009407 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 1004788009408 putative active site [active] 1004788009409 heme pocket [chemical binding]; other site 1004788009410 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 1004788009411 dimer interface [polypeptide binding]; other site 1004788009412 phosphorylation site [posttranslational modification] 1004788009413 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 1004788009414 ATP binding site [chemical binding]; other site 1004788009415 Mg2+ binding site [ion binding]; other site 1004788009416 G-X-G motif; other site 1004788009417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009418 active site 1004788009419 phosphorylation site [posttranslational modification] 1004788009420 intermolecular recognition site; other site 1004788009421 dimerization interface [polypeptide binding]; other site 1004788009422 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 1004788009423 putative binding surface; other site 1004788009424 active site 1004788009425 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1004788009426 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 1004788009427 substrate binding site [chemical binding]; other site 1004788009428 amidase catalytic site [active] 1004788009429 Zn binding residues [ion binding]; other site 1004788009430 Bacterial SH3 domain; Region: SH3_3; pfam08239 1004788009431 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1004788009432 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 1004788009433 active site 1004788009434 dimer interface [polypeptide binding]; other site 1004788009435 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1004788009436 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 1004788009437 active site 1004788009438 FMN binding site [chemical binding]; other site 1004788009439 substrate binding site [chemical binding]; other site 1004788009440 3Fe-4S cluster binding site [ion binding]; other site 1004788009441 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 1004788009442 domain interface; other site 1004788009443 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1004788009444 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 1004788009445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788009446 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1004788009447 hypothetical protein; Provisional; Region: PRK08201 1004788009448 metal binding site [ion binding]; metal-binding site 1004788009449 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1004788009450 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1004788009451 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1004788009452 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1004788009453 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1004788009454 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 1004788009455 cobalamin binding residues [chemical binding]; other site 1004788009456 putative BtuC binding residues; other site 1004788009457 dimer interface [polypeptide binding]; other site 1004788009458 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 1004788009459 active site residue [active] 1004788009460 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1004788009461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788009462 Coenzyme A binding pocket [chemical binding]; other site 1004788009463 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1004788009464 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1004788009465 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1004788009466 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004788009467 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788009468 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 1004788009469 DNA binding residues [nucleotide binding] 1004788009470 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1004788009471 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1004788009472 active site 1004788009473 HIGH motif; other site 1004788009474 dimer interface [polypeptide binding]; other site 1004788009475 KMSKS motif; other site 1004788009476 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 1004788009477 RNA binding surface [nucleotide binding]; other site 1004788009478 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1004788009479 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1004788009480 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788009481 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1004788009482 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1004788009483 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788009484 L-fucose transporter; Provisional; Region: PRK10133; cl17665 1004788009485 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1004788009486 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1004788009487 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 1004788009488 FMN binding site [chemical binding]; other site 1004788009489 active site 1004788009490 substrate binding site [chemical binding]; other site 1004788009491 catalytic residue [active] 1004788009492 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1004788009493 putative hydrophobic ligand binding site [chemical binding]; other site 1004788009494 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1004788009495 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 1004788009496 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788009497 catalytic residue [active] 1004788009498 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1004788009499 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1004788009500 NAD binding site [chemical binding]; other site 1004788009501 ligand binding site [chemical binding]; other site 1004788009502 catalytic site [active] 1004788009503 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788009504 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1004788009505 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1004788009506 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1004788009507 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1004788009508 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 1004788009509 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1004788009510 Switch I; other site 1004788009511 Switch II; other site 1004788009512 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1004788009513 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1004788009514 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1004788009515 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1004788009516 Class II fumarases; Region: Fumarase_classII; cd01362 1004788009517 active site 1004788009518 tetramer interface [polypeptide binding]; other site 1004788009519 azurin; Region: azurin; TIGR02695 1004788009520 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 1004788009521 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1004788009522 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 1004788009523 Cl- selectivity filter; other site 1004788009524 Cl- binding residues [ion binding]; other site 1004788009525 pore gating glutamate residue; other site 1004788009526 dimer interface [polypeptide binding]; other site 1004788009527 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1004788009528 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1004788009529 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1004788009530 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1004788009531 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1004788009532 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 1004788009533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788009534 homodimer interface [polypeptide binding]; other site 1004788009535 catalytic residue [active] 1004788009536 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788009537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009538 active site 1004788009539 phosphorylation site [posttranslational modification] 1004788009540 intermolecular recognition site; other site 1004788009541 dimerization interface [polypeptide binding]; other site 1004788009542 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1004788009543 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1004788009544 G1 box; other site 1004788009545 putative GEF interaction site [polypeptide binding]; other site 1004788009546 GTP/Mg2+ binding site [chemical binding]; other site 1004788009547 Switch I region; other site 1004788009548 G2 box; other site 1004788009549 G3 box; other site 1004788009550 Switch II region; other site 1004788009551 G4 box; other site 1004788009552 G5 box; other site 1004788009553 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 1004788009554 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 1004788009555 glutamine synthetase; Provisional; Region: glnA; PRK09469 1004788009556 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1004788009557 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1004788009558 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1004788009559 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 1004788009560 putative active site [active] 1004788009561 heme pocket [chemical binding]; other site 1004788009562 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 1004788009563 dimer interface [polypeptide binding]; other site 1004788009564 phosphorylation site [posttranslational modification] 1004788009565 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 1004788009566 ATP binding site [chemical binding]; other site 1004788009567 Mg2+ binding site [ion binding]; other site 1004788009568 G-X-G motif; other site 1004788009569 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1004788009570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009571 active site 1004788009572 phosphorylation site [posttranslational modification] 1004788009573 intermolecular recognition site; other site 1004788009574 dimerization interface [polypeptide binding]; other site 1004788009575 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 1004788009576 Walker A motif; other site 1004788009577 ATP binding site [chemical binding]; other site 1004788009578 Walker B motif; other site 1004788009579 arginine finger; other site 1004788009580 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004788009581 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 1004788009582 putative binding surface; other site 1004788009583 active site 1004788009584 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788009585 Zn2+ binding site [ion binding]; other site 1004788009586 Mg2+ binding site [ion binding]; other site 1004788009587 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1004788009588 putative acyl-acceptor binding pocket; other site 1004788009589 RNase E inhibitor protein; Provisional; Region: PRK11191 1004788009590 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1004788009591 PAS domain; Region: PAS; smart00091 1004788009592 PAS domain; Region: PAS_9; pfam13426 1004788009593 putative active site [active] 1004788009594 heme pocket [chemical binding]; other site 1004788009595 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 1004788009596 PAS domain; Region: PAS_9; pfam13426 1004788009597 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 1004788009598 putative active site [active] 1004788009599 heme pocket [chemical binding]; other site 1004788009600 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788009601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788009602 metal binding site [ion binding]; metal-binding site 1004788009603 active site 1004788009604 I-site; other site 1004788009605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1004788009606 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1004788009607 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 1004788009608 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1004788009609 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1004788009610 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 1004788009611 dimer interface [polypeptide binding]; other site 1004788009612 phosphorylation site [posttranslational modification] 1004788009613 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 1004788009614 ATP binding site [chemical binding]; other site 1004788009615 Mg2+ binding site [ion binding]; other site 1004788009616 G-X-G motif; other site 1004788009617 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788009618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009619 active site 1004788009620 phosphorylation site [posttranslational modification] 1004788009621 intermolecular recognition site; other site 1004788009622 dimerization interface [polypeptide binding]; other site 1004788009623 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1004788009624 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1004788009625 HIGH motif; other site 1004788009626 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1004788009627 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1004788009628 active site 1004788009629 KMSKS motif; other site 1004788009630 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1004788009631 tRNA binding surface [nucleotide binding]; other site 1004788009632 anticodon binding site; other site 1004788009633 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1004788009634 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1004788009635 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1004788009636 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 1004788009637 interface (dimer of trimers) [polypeptide binding]; other site 1004788009638 Substrate-binding/catalytic site; other site 1004788009639 Zn-binding sites [ion binding]; other site 1004788009640 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1004788009641 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1004788009642 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1004788009643 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1004788009644 RDD family; Region: RDD; pfam06271 1004788009645 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788009646 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 1004788009647 N-terminal plug; other site 1004788009648 ligand-binding site [chemical binding]; other site 1004788009649 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 1004788009650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788009651 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 1004788009652 DNA binding residues [nucleotide binding] 1004788009653 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1004788009654 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1004788009655 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1004788009656 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1004788009657 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1004788009658 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1004788009659 Bacterial transcriptional regulator; Region: IclR; pfam01614 1004788009660 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1004788009661 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1004788009662 Walker A/P-loop; other site 1004788009663 ATP binding site [chemical binding]; other site 1004788009664 Q-loop/lid; other site 1004788009665 ABC transporter signature motif; other site 1004788009666 Walker B; other site 1004788009667 D-loop; other site 1004788009668 H-loop/switch region; other site 1004788009669 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1004788009670 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1004788009671 Walker A/P-loop; other site 1004788009672 ATP binding site [chemical binding]; other site 1004788009673 Q-loop/lid; other site 1004788009674 ABC transporter signature motif; other site 1004788009675 Walker B; other site 1004788009676 D-loop; other site 1004788009677 H-loop/switch region; other site 1004788009678 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1004788009679 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1004788009680 TM-ABC transporter signature motif; other site 1004788009681 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1004788009682 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1004788009683 TM-ABC transporter signature motif; other site 1004788009684 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1004788009685 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 1004788009686 putative ligand binding site [chemical binding]; other site 1004788009687 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1004788009688 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1004788009689 benzoate transporter; Region: benE; TIGR00843 1004788009690 Benzoate membrane transport protein; Region: BenE; pfam03594 1004788009691 benzoate transport; Region: 2A0115; TIGR00895 1004788009692 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 1004788009693 putative substrate translocation pore; other site 1004788009694 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 1004788009695 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1004788009696 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1004788009697 putative NAD(P) binding site [chemical binding]; other site 1004788009698 active site 1004788009699 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1004788009700 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 1004788009701 catalytic loop [active] 1004788009702 iron binding site [ion binding]; other site 1004788009703 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1004788009704 FAD binding pocket [chemical binding]; other site 1004788009705 FAD binding motif [chemical binding]; other site 1004788009706 phosphate binding motif [ion binding]; other site 1004788009707 beta-alpha-beta structure motif; other site 1004788009708 NAD binding pocket [chemical binding]; other site 1004788009709 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1004788009710 inter-subunit interface; other site 1004788009711 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1004788009712 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 1004788009713 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1004788009714 putative alpha subunit interface [polypeptide binding]; other site 1004788009715 putative active site [active] 1004788009716 putative substrate binding site [chemical binding]; other site 1004788009717 Fe binding site [ion binding]; other site 1004788009718 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1004788009719 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1004788009720 dimer interface [polypeptide binding]; other site 1004788009721 active site 1004788009722 Muconolactone delta-isomerase; Region: MIase; cl01992 1004788009723 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1004788009724 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1004788009725 metal binding site [ion binding]; metal-binding site 1004788009726 substrate binding pocket [chemical binding]; other site 1004788009727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788009728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788009729 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 1004788009730 dimerization interface [polypeptide binding]; other site 1004788009731 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1004788009732 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1004788009733 Bacterial transcriptional regulator; Region: IclR; pfam01614 1004788009734 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1004788009735 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1004788009736 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1004788009737 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 1004788009738 dimer interface [polypeptide binding]; other site 1004788009739 active site 1004788009740 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1004788009741 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788009742 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1004788009743 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1004788009744 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 1004788009745 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788009746 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 1004788009747 putative catalytic residues [active] 1004788009748 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1004788009749 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1004788009750 Part of AAA domain; Region: AAA_19; pfam13245 1004788009751 Family description; Region: UvrD_C_2; pfam13538 1004788009752 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 1004788009753 active site flap/lid [active] 1004788009754 nucleophilic elbow; other site 1004788009755 catalytic triad [active] 1004788009756 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1004788009757 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004788009758 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004788009759 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004788009760 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788009761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009762 active site 1004788009763 phosphorylation site [posttranslational modification] 1004788009764 intermolecular recognition site; other site 1004788009765 dimerization interface [polypeptide binding]; other site 1004788009766 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1004788009767 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788009768 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 1004788009769 N-terminal plug; other site 1004788009770 ligand-binding site [chemical binding]; other site 1004788009771 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004788009772 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788009773 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004788009774 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1004788009775 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1004788009776 putative NAD(P) binding site [chemical binding]; other site 1004788009777 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1004788009778 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 1004788009779 dimerization domain [polypeptide binding]; other site 1004788009780 dimer interface [polypeptide binding]; other site 1004788009781 catalytic residues [active] 1004788009782 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1004788009783 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 1004788009784 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1004788009785 catalytic residues [active] 1004788009786 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788009787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009788 active site 1004788009789 phosphorylation site [posttranslational modification] 1004788009790 intermolecular recognition site; other site 1004788009791 dimerization interface [polypeptide binding]; other site 1004788009792 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 1004788009793 DNA binding site [nucleotide binding] 1004788009794 sensor protein QseC; Provisional; Region: PRK10337 1004788009795 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 1004788009796 dimer interface [polypeptide binding]; other site 1004788009797 phosphorylation site [posttranslational modification] 1004788009798 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 1004788009799 ATP binding site [chemical binding]; other site 1004788009800 Mg2+ binding site [ion binding]; other site 1004788009801 G-X-G motif; other site 1004788009802 lipid-transfer protein; Provisional; Region: PRK08256 1004788009803 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1004788009804 active site 1004788009805 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 1004788009806 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1004788009807 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 1004788009808 amphipathic channel; other site 1004788009809 Asn-Pro-Ala signature motifs; other site 1004788009810 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004788009811 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 1004788009812 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 1004788009813 hypothetical protein; Provisional; Region: PRK11469 1004788009814 Domain of unknown function DUF; Region: DUF204; pfam02659 1004788009815 Domain of unknown function DUF; Region: DUF204; pfam02659 1004788009816 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1004788009817 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1004788009818 hypothetical protein; Validated; Region: PRK00029 1004788009819 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1004788009820 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004788009821 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1004788009822 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1004788009823 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 1004788009824 active site 1004788009825 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1004788009826 NAD binding site [chemical binding]; other site 1004788009827 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1004788009828 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1004788009829 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788009830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788009831 metal binding site [ion binding]; metal-binding site 1004788009832 active site 1004788009833 I-site; other site 1004788009834 Predicted permeases [General function prediction only]; Region: COG0679 1004788009835 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788009836 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1004788009837 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1004788009838 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1004788009839 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1004788009840 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1004788009841 dimer interface [polypeptide binding]; other site 1004788009842 Trp docking motif [polypeptide binding]; other site 1004788009843 active site 1004788009844 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004788009845 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 1004788009846 substrate binding pocket [chemical binding]; other site 1004788009847 membrane-bound complex binding site; other site 1004788009848 hinge residues; other site 1004788009849 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 1004788009850 ligand binding site [chemical binding]; other site 1004788009851 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1004788009852 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004788009853 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004788009854 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1004788009855 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1004788009856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788009857 Walker A/P-loop; other site 1004788009858 ATP binding site [chemical binding]; other site 1004788009859 Q-loop/lid; other site 1004788009860 ABC transporter signature motif; other site 1004788009861 Walker B; other site 1004788009862 D-loop; other site 1004788009863 H-loop/switch region; other site 1004788009864 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1004788009865 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1004788009866 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 1004788009867 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1004788009868 interface (dimer of trimers) [polypeptide binding]; other site 1004788009869 Substrate-binding/catalytic site; other site 1004788009870 Zn-binding sites [ion binding]; other site 1004788009871 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1004788009872 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1004788009873 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1004788009874 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1004788009875 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1004788009876 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 1004788009877 FeS/SAM binding site; other site 1004788009878 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1004788009879 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1004788009880 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788009881 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788009882 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788009883 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 1004788009884 Gram-negative porin; Region: Porin_4; pfam13609 1004788009885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009887 active site 1004788009888 phosphorylation site [posttranslational modification] 1004788009889 intermolecular recognition site; other site 1004788009890 dimerization interface [polypeptide binding]; other site 1004788009891 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 1004788009892 DNA binding residues [nucleotide binding] 1004788009893 dimerization interface [polypeptide binding]; other site 1004788009894 PAS fold; Region: PAS_7; pfam12860 1004788009895 PAS fold; Region: PAS; pfam00989 1004788009896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788009897 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 1004788009898 dimer interface [polypeptide binding]; other site 1004788009899 phosphorylation site [posttranslational modification] 1004788009900 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 1004788009901 ATP binding site [chemical binding]; other site 1004788009902 G-X-G motif; other site 1004788009903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009904 active site 1004788009905 phosphorylation site [posttranslational modification] 1004788009906 intermolecular recognition site; other site 1004788009907 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1004788009908 FIST N domain; Region: FIST; pfam08495 1004788009909 FIST C domain; Region: FIST_C; pfam10442 1004788009910 FMN-binding domain; Region: FMN_bind; cl01081 1004788009911 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1004788009912 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1004788009913 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1004788009914 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1004788009915 NAD(P) binding site [chemical binding]; other site 1004788009916 catalytic residues [active] 1004788009917 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009919 active site 1004788009920 phosphorylation site [posttranslational modification] 1004788009921 intermolecular recognition site; other site 1004788009922 dimerization interface [polypeptide binding]; other site 1004788009923 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 1004788009924 DNA binding residues [nucleotide binding] 1004788009925 dimerization interface [polypeptide binding]; other site 1004788009926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004788009927 Histidine kinase; Region: HisKA_3; pfam07730 1004788009928 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 1004788009929 ATP binding site [chemical binding]; other site 1004788009930 Mg2+ binding site [ion binding]; other site 1004788009931 G-X-G motif; other site 1004788009932 PAS domain; Region: PAS_9; pfam13426 1004788009933 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 1004788009934 putative active site [active] 1004788009935 heme pocket [chemical binding]; other site 1004788009936 PAS domain; Region: PAS_9; pfam13426 1004788009937 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 1004788009938 putative active site [active] 1004788009939 heme pocket [chemical binding]; other site 1004788009940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788009941 dimer interface [polypeptide binding]; other site 1004788009942 putative CheW interface [polypeptide binding]; other site 1004788009943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788009944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788009945 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1004788009946 dimerization interface [polypeptide binding]; other site 1004788009947 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1004788009948 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1004788009949 tetrameric interface [polypeptide binding]; other site 1004788009950 NAD binding site [chemical binding]; other site 1004788009951 catalytic residues [active] 1004788009952 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1004788009953 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1004788009954 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 1004788009955 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 1004788009956 active site 1004788009957 BCCT family transporter; Region: BCCT; pfam02028 1004788009958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788009959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788009960 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 1004788009961 putative effector binding pocket; other site 1004788009962 dimerization interface [polypeptide binding]; other site 1004788009963 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1004788009964 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 1004788009965 active site 1004788009966 substrate binding site [chemical binding]; other site 1004788009967 FMN binding site [chemical binding]; other site 1004788009968 putative catalytic residues [active] 1004788009969 D-lactate dehydrogenase; Provisional; Region: PRK11183 1004788009970 FAD binding domain; Region: FAD_binding_4; pfam01565 1004788009971 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1004788009972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009973 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 1004788009974 DNA binding residues [nucleotide binding] 1004788009975 dimerization interface [polypeptide binding]; other site 1004788009976 lipoprotein; Provisional; Region: PRK11443 1004788009977 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1004788009978 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1004788009979 Curli assembly protein CsgE; Region: CsgE; pfam10627 1004788009980 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1004788009981 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1004788009982 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1004788009983 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1004788009984 catalytic triad [active] 1004788009985 putative active site [active] 1004788009986 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1004788009987 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 1004788009988 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788009989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788009990 active site 1004788009991 phosphorylation site [posttranslational modification] 1004788009992 intermolecular recognition site; other site 1004788009993 dimerization interface [polypeptide binding]; other site 1004788009994 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 1004788009995 DNA binding residues [nucleotide binding] 1004788009996 dimerization interface [polypeptide binding]; other site 1004788009997 MASE1; Region: MASE1; cl17823 1004788009998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1004788009999 Histidine kinase; Region: HisKA_3; pfam07730 1004788010000 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 1004788010001 ATP binding site [chemical binding]; other site 1004788010002 Mg2+ binding site [ion binding]; other site 1004788010003 G-X-G motif; other site 1004788010004 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1004788010005 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 1004788010006 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1004788010007 ATP binding site [chemical binding]; other site 1004788010008 Mg++ binding site [ion binding]; other site 1004788010009 motif III; other site 1004788010010 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 1004788010011 nucleotide binding region [chemical binding]; other site 1004788010012 ATP-binding site [chemical binding]; other site 1004788010013 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788010014 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1004788010015 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1004788010016 heme binding site [chemical binding]; other site 1004788010017 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1004788010018 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004788010019 PAS domain S-box; Region: sensory_box; TIGR00229 1004788010020 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 1004788010021 putative active site [active] 1004788010022 heme pocket [chemical binding]; other site 1004788010023 PAS domain S-box; Region: sensory_box; TIGR00229 1004788010024 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 1004788010025 putative active site [active] 1004788010026 heme pocket [chemical binding]; other site 1004788010027 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 1004788010028 PAS domain; Region: PAS_9; pfam13426 1004788010029 putative active site [active] 1004788010030 heme pocket [chemical binding]; other site 1004788010031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788010032 putative CheW interface [polypeptide binding]; other site 1004788010033 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1004788010034 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1004788010035 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1004788010036 putative active site [active] 1004788010037 putative active site [active] 1004788010038 catalytic site [active] 1004788010039 catalytic site [active] 1004788010040 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1004788010041 putative active site [active] 1004788010042 catalytic site [active] 1004788010043 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1004788010044 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1004788010045 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1004788010046 putative catalytic site [active] 1004788010047 putative metal binding site [ion binding]; other site 1004788010048 putative phosphate binding site [ion binding]; other site 1004788010049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788010050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788010051 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 1004788010052 dimerization interface [polypeptide binding]; other site 1004788010053 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788010054 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 1004788010055 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 1004788010056 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004788010057 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1004788010058 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 1004788010059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788010060 homodimer interface [polypeptide binding]; other site 1004788010061 catalytic residue [active] 1004788010062 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788010063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010064 active site 1004788010065 phosphorylation site [posttranslational modification] 1004788010066 intermolecular recognition site; other site 1004788010067 dimerization interface [polypeptide binding]; other site 1004788010068 CheC-like family; Region: CheC; pfam04509 1004788010069 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1004788010070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788010071 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 1004788010072 dimer interface [polypeptide binding]; other site 1004788010073 phosphorylation site [posttranslational modification] 1004788010074 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 1004788010075 ATP binding site [chemical binding]; other site 1004788010076 Mg2+ binding site [ion binding]; other site 1004788010077 G-X-G motif; other site 1004788010078 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788010079 DNA polymerase II; Reviewed; Region: PRK05762 1004788010080 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1004788010081 active site 1004788010082 catalytic site [active] 1004788010083 substrate binding site [chemical binding]; other site 1004788010084 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 1004788010085 active site 1004788010086 metal-binding site 1004788010087 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 1004788010088 pseudo EF-hand loop; other site 1004788010089 peptide binding pocket; other site 1004788010090 Ca2+ binding site [ion binding]; other site 1004788010091 AMP-binding domain protein; Validated; Region: PRK08315 1004788010092 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1004788010093 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1004788010094 acyl-activating enzyme (AAE) consensus motif; other site 1004788010095 acyl-activating enzyme (AAE) consensus motif; other site 1004788010096 putative AMP binding site [chemical binding]; other site 1004788010097 putative active site [active] 1004788010098 putative CoA binding site [chemical binding]; other site 1004788010099 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1004788010100 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1004788010101 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1004788010102 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 1004788010103 S-adenosylmethionine binding site [chemical binding]; other site 1004788010104 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1004788010105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788010106 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 1004788010107 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1004788010108 Di-iron ligands [ion binding]; other site 1004788010109 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 1004788010110 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1004788010111 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788010112 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788010113 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004788010114 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1004788010115 ligand binding site [chemical binding]; other site 1004788010116 active site 1004788010117 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788010118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010119 active site 1004788010120 phosphorylation site [posttranslational modification] 1004788010121 intermolecular recognition site; other site 1004788010122 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1004788010123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788010124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788010125 metal binding site [ion binding]; metal-binding site 1004788010126 active site 1004788010127 I-site; other site 1004788010128 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 1004788010129 TIGR03899 family protein; Region: TIGR03899 1004788010130 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1004788010131 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 1004788010132 Active Sites [active] 1004788010133 sulfite reductase subunit beta; Provisional; Region: PRK13504 1004788010134 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004788010135 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1004788010136 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1004788010137 Flavodoxin; Region: Flavodoxin_1; pfam00258 1004788010138 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 1004788010139 FAD binding pocket [chemical binding]; other site 1004788010140 FAD binding motif [chemical binding]; other site 1004788010141 catalytic residues [active] 1004788010142 NAD binding pocket [chemical binding]; other site 1004788010143 phosphate binding motif [ion binding]; other site 1004788010144 beta-alpha-beta structure motif; other site 1004788010145 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1004788010146 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1004788010147 PspC domain; Region: PspC; pfam04024 1004788010148 phage shock protein A; Region: phageshock_pspA; TIGR02977 1004788010149 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1004788010150 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 1004788010151 FMN binding site [chemical binding]; other site 1004788010152 active site 1004788010153 catalytic residues [active] 1004788010154 substrate binding site [chemical binding]; other site 1004788010155 hypothetical protein; Provisional; Region: PRK11281 1004788010156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788010157 ligand binding site [chemical binding]; other site 1004788010158 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 1004788010159 Rab subfamily motif 1 (RabSF1); other site 1004788010160 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1004788010161 G1 box; other site 1004788010162 GTP/Mg2+ binding site [chemical binding]; other site 1004788010163 Rab subfamily motif 2 (RabSF2); other site 1004788010164 Switch I region; other site 1004788010165 G2 box; other site 1004788010166 effector interaction site; other site 1004788010167 GDI interaction site; other site 1004788010168 Rab family motif 1 (RabF1); other site 1004788010169 GEF interaction site [polypeptide binding]; other site 1004788010170 Rab family motif 2 (RabF2); other site 1004788010171 G3 box; other site 1004788010172 Switch II region; other site 1004788010173 Rab family motif 3 (RabF3); other site 1004788010174 Rab family motif 4 (RabF4); other site 1004788010175 Rab family motif 5 (RabF5); other site 1004788010176 Rab subfamily motif 3 (RabSF3); other site 1004788010177 G4 box; other site 1004788010178 G5 box; other site 1004788010179 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788010180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788010181 metal binding site [ion binding]; metal-binding site 1004788010182 active site 1004788010183 I-site; other site 1004788010184 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 1004788010185 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1004788010186 S-formylglutathione hydrolase; Region: PLN02442 1004788010187 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004788010188 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1004788010189 putative acyl-acceptor binding pocket; other site 1004788010190 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1004788010191 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1004788010192 putative acyl-acceptor binding pocket; other site 1004788010193 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788010194 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788010195 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1004788010196 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1004788010197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788010198 NAD(P) binding site [chemical binding]; other site 1004788010199 active site 1004788010200 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1004788010201 Na2 binding site [ion binding]; other site 1004788010202 putative substrate binding site 1 [chemical binding]; other site 1004788010203 Na binding site 1 [ion binding]; other site 1004788010204 putative substrate binding site 2 [chemical binding]; other site 1004788010205 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1004788010206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788010207 NAD(P) binding site [chemical binding]; other site 1004788010208 active site 1004788010209 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1004788010210 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1004788010211 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1004788010212 metal binding site [ion binding]; metal-binding site 1004788010213 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1004788010214 putative active site [active] 1004788010215 putative metal binding site [ion binding]; other site 1004788010216 flavodoxin FldB; Provisional; Region: PRK12359 1004788010217 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1004788010218 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004788010219 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1004788010220 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1004788010221 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1004788010222 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1004788010223 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1004788010224 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1004788010225 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004788010226 DXD motif; other site 1004788010227 PilZ domain; Region: PilZ; pfam07238 1004788010228 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004788010229 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1004788010230 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1004788010231 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1004788010232 NAD binding site [chemical binding]; other site 1004788010233 active site 1004788010234 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1004788010235 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1004788010236 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788010237 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1004788010238 pentamer interface [polypeptide binding]; other site 1004788010239 dodecaamer interface [polypeptide binding]; other site 1004788010240 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1004788010241 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788010242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788010243 metal binding site [ion binding]; metal-binding site 1004788010244 active site 1004788010245 I-site; other site 1004788010246 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 1004788010247 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1004788010248 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 1004788010249 tetramer interface [polypeptide binding]; other site 1004788010250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788010251 catalytic residue [active] 1004788010252 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1004788010253 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 1004788010254 active site 1004788010255 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1004788010256 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1004788010257 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788010258 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 1004788010259 active site 1004788010260 metal binding site [ion binding]; metal-binding site 1004788010261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788010262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788010263 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 1004788010264 dimerization interface [polypeptide binding]; other site 1004788010265 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1004788010266 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 1004788010267 putative active site [active] 1004788010268 putative dimer interface [polypeptide binding]; other site 1004788010269 Predicted membrane protein [Function unknown]; Region: COG4682 1004788010270 yiaA/B two helix domain; Region: YiaAB; pfam05360 1004788010271 yiaA/B two helix domain; Region: YiaAB; cl01759 1004788010272 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1004788010273 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1004788010274 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1004788010275 Na binding site [ion binding]; other site 1004788010276 putative substrate binding site [chemical binding]; other site 1004788010277 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788010278 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788010279 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 1004788010280 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1004788010281 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1004788010282 tetrameric interface [polypeptide binding]; other site 1004788010283 NAD binding site [chemical binding]; other site 1004788010284 catalytic residues [active] 1004788010285 Flavin Reductases; Region: FlaRed; cl00801 1004788010286 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 1004788010287 putative FMN binding site [chemical binding]; other site 1004788010288 pyrimidine utilization protein D; Region: RutD; TIGR03611 1004788010289 TAP-like protein; Region: Abhydrolase_4; pfam08386 1004788010290 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 1004788010291 homotrimer interaction site [polypeptide binding]; other site 1004788010292 putative active site [active] 1004788010293 Isochorismatase family; Region: Isochorismatase; pfam00857 1004788010294 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 1004788010295 catalytic triad [active] 1004788010296 conserved cis-peptide bond; other site 1004788010297 pyrimidine utilization protein A; Region: RutA; TIGR03612 1004788010298 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 1004788010299 active site 1004788010300 dimer interface [polypeptide binding]; other site 1004788010301 non-prolyl cis peptide bond; other site 1004788010302 insertion regions; other site 1004788010303 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1004788010304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1004788010305 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1004788010306 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 1004788010307 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1004788010308 ligand binding site [chemical binding]; other site 1004788010309 flexible hinge region; other site 1004788010310 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 1004788010311 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1004788010312 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1004788010313 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1004788010314 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1004788010315 GntP family permease; Region: GntP_permease; pfam02447 1004788010316 Shikimate kinase; Region: SKI; pfam01202 1004788010317 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 1004788010318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788010319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788010320 DNA binding site [nucleotide binding] 1004788010321 domain linker motif; other site 1004788010322 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 1004788010323 putative dimerization interface [polypeptide binding]; other site 1004788010324 putative ligand binding site [chemical binding]; other site 1004788010325 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1004788010326 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1004788010327 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1004788010328 active site 1004788010329 DNA polymerase IV; Validated; Region: PRK02406 1004788010330 DNA binding site [nucleotide binding] 1004788010331 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1004788010332 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1004788010333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1004788010334 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1004788010335 ApbE family; Region: ApbE; pfam02424 1004788010336 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1004788010337 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 1004788010338 FAD binding pocket [chemical binding]; other site 1004788010339 FAD binding motif [chemical binding]; other site 1004788010340 phosphate binding motif [ion binding]; other site 1004788010341 beta-alpha-beta structure motif; other site 1004788010342 NAD binding pocket [chemical binding]; other site 1004788010343 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1004788010344 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1004788010345 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1004788010346 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1004788010347 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1004788010348 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1004788010349 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1004788010350 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1004788010351 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1004788010352 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1004788010353 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1004788010354 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1004788010355 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1004788010356 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004788010357 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1004788010358 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1004788010359 malate dehydrogenase; Provisional; Region: PRK05086 1004788010360 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1004788010361 NAD binding site [chemical binding]; other site 1004788010362 dimerization interface [polypeptide binding]; other site 1004788010363 Substrate binding site [chemical binding]; other site 1004788010364 arginine repressor; Provisional; Region: PRK05066 1004788010365 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1004788010366 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1004788010367 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1004788010368 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1004788010369 potential catalytic triad [active] 1004788010370 conserved cys residue [active] 1004788010371 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004788010372 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788010373 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 1004788010374 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1004788010375 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1004788010376 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 1004788010377 Sugar specificity; other site 1004788010378 Pyrimidine base specificity; other site 1004788010379 ATP-binding site [chemical binding]; other site 1004788010380 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1004788010381 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1004788010382 Nucleoside recognition; Region: Gate; pfam07670 1004788010383 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1004788010384 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1004788010385 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1004788010386 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1004788010387 TPR repeat; Region: TPR_11; pfam13414 1004788010388 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 1004788010389 binding surface 1004788010390 TPR motif; other site 1004788010391 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 1004788010392 binding surface 1004788010393 TPR motif; other site 1004788010394 TPR repeat; Region: TPR_11; pfam13414 1004788010395 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 1004788010396 binding surface 1004788010397 TPR motif; other site 1004788010398 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1004788010399 Fasciclin domain; Region: Fasciclin; pfam02469 1004788010400 MAPEG family; Region: MAPEG; pfam01124 1004788010401 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788010402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010403 active site 1004788010404 phosphorylation site [posttranslational modification] 1004788010405 intermolecular recognition site; other site 1004788010406 dimerization interface [polypeptide binding]; other site 1004788010407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788010408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788010409 metal binding site [ion binding]; metal-binding site 1004788010410 active site 1004788010411 I-site; other site 1004788010412 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1004788010413 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1004788010414 active site 1004788010415 catalytic site [active] 1004788010416 substrate binding site [chemical binding]; other site 1004788010417 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1004788010418 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 1004788010419 ligand binding site [chemical binding]; other site 1004788010420 flexible hinge region; other site 1004788010421 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 1004788010422 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1004788010423 metal binding triad; other site 1004788010424 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1004788010425 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1004788010426 Na binding site [ion binding]; other site 1004788010427 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1004788010428 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1004788010429 Na binding site [ion binding]; other site 1004788010430 PAS fold; Region: PAS_7; pfam12860 1004788010431 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788010432 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 1004788010433 dimer interface [polypeptide binding]; other site 1004788010434 phosphorylation site [posttranslational modification] 1004788010435 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 1004788010436 ATP binding site [chemical binding]; other site 1004788010437 Mg2+ binding site [ion binding]; other site 1004788010438 G-X-G motif; other site 1004788010439 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788010440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010441 active site 1004788010442 phosphorylation site [posttranslational modification] 1004788010443 intermolecular recognition site; other site 1004788010444 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1004788010445 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788010446 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1004788010447 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1004788010448 Predicted deacylase [General function prediction only]; Region: COG3608 1004788010449 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1004788010450 putative active site [active] 1004788010451 Zn binding site [ion binding]; other site 1004788010452 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1004788010453 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788010454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010455 active site 1004788010456 phosphorylation site [posttranslational modification] 1004788010457 intermolecular recognition site; other site 1004788010458 dimerization interface [polypeptide binding]; other site 1004788010459 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 1004788010460 DNA binding residues [nucleotide binding] 1004788010461 dimerization interface [polypeptide binding]; other site 1004788010462 acetyl-CoA synthetase; Provisional; Region: PRK00174 1004788010463 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1004788010464 active site 1004788010465 CoA binding site [chemical binding]; other site 1004788010466 acyl-activating enzyme (AAE) consensus motif; other site 1004788010467 AMP binding site [chemical binding]; other site 1004788010468 acetate binding site [chemical binding]; other site 1004788010469 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1004788010470 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1004788010471 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 1004788010472 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788010473 active site 1004788010474 catalytic tetrad [active] 1004788010475 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1004788010476 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004788010477 active site 1004788010478 catalytic residues [active] 1004788010479 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 1004788010480 phosphopeptide binding site; other site 1004788010481 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004788010482 GAF domain; Region: GAF_2; pfam13185 1004788010483 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1004788010484 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1004788010485 active site 1004788010486 ATP binding site [chemical binding]; other site 1004788010487 substrate binding site [chemical binding]; other site 1004788010488 activation loop (A-loop); other site 1004788010489 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 1004788010490 TPR motif; other site 1004788010491 binding surface 1004788010492 TPR repeat; Region: TPR_11; pfam13414 1004788010493 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 1004788010494 binding surface 1004788010495 TPR motif; other site 1004788010496 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 1004788010497 binding surface 1004788010498 TPR motif; other site 1004788010499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788010500 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1004788010501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1004788010502 Histidine kinase; Region: HisKA_3; pfam07730 1004788010503 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 1004788010504 ATP binding site [chemical binding]; other site 1004788010505 Mg2+ binding site [ion binding]; other site 1004788010506 G-X-G motif; other site 1004788010507 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788010508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010509 active site 1004788010510 phosphorylation site [posttranslational modification] 1004788010511 intermolecular recognition site; other site 1004788010512 dimerization interface [polypeptide binding]; other site 1004788010513 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 1004788010514 DNA binding residues [nucleotide binding] 1004788010515 dimerization interface [polypeptide binding]; other site 1004788010516 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1004788010517 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1004788010518 active site 1004788010519 catalytic residues [active] 1004788010520 S-layer homology domain; Region: SLH; pfam00395 1004788010521 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1004788010522 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 1004788010523 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1004788010524 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1004788010525 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1004788010526 tetramer interface [polypeptide binding]; other site 1004788010527 heme binding pocket [chemical binding]; other site 1004788010528 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1004788010529 elongation factor Tu; Reviewed; Region: PRK00049 1004788010530 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1004788010531 G1 box; other site 1004788010532 GEF interaction site [polypeptide binding]; other site 1004788010533 GTP/Mg2+ binding site [chemical binding]; other site 1004788010534 Switch I region; other site 1004788010535 G2 box; other site 1004788010536 G3 box; other site 1004788010537 Switch II region; other site 1004788010538 G4 box; other site 1004788010539 G5 box; other site 1004788010540 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 1004788010541 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1004788010542 Antibiotic Binding Site [chemical binding]; other site 1004788010543 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1004788010544 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 1004788010545 putative DNA binding site [nucleotide binding]; other site 1004788010546 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1004788010547 putative Zn2+ binding site [ion binding]; other site 1004788010548 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1004788010549 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1004788010550 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1004788010551 FAD binding domain; Region: FAD_binding_4; pfam01565 1004788010552 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1004788010553 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1004788010554 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788010555 dimer interface [polypeptide binding]; other site 1004788010556 putative CheW interface [polypeptide binding]; other site 1004788010557 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1004788010558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788010559 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 1004788010560 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788010561 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1004788010562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788010563 Walker A/P-loop; other site 1004788010564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788010565 Q-loop/lid; other site 1004788010566 Q-loop/lid; other site 1004788010567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788010568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788010569 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 1004788010570 dimerization interface [polypeptide binding]; other site 1004788010571 Flagellin N-methylase; Region: FliB; pfam03692 1004788010572 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1004788010573 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1004788010574 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1004788010575 Substrate binding site; other site 1004788010576 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1004788010577 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1004788010578 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1004788010579 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1004788010580 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1004788010581 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 1004788010582 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1004788010583 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1004788010584 Probable Catalytic site; other site 1004788010585 metal-binding site 1004788010586 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1004788010587 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1004788010588 NAD binding site [chemical binding]; other site 1004788010589 substrate binding site [chemical binding]; other site 1004788010590 homodimer interface [polypeptide binding]; other site 1004788010591 active site 1004788010592 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1004788010593 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1004788010594 NADP binding site [chemical binding]; other site 1004788010595 active site 1004788010596 putative substrate binding site [chemical binding]; other site 1004788010597 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1004788010598 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1004788010599 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1004788010600 substrate binding site; other site 1004788010601 tetramer interface; other site 1004788010602 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004788010603 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1004788010604 Probable Catalytic site; other site 1004788010605 metal-binding site 1004788010606 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 1004788010607 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788010608 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 1004788010609 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1004788010610 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1004788010611 Protein of unknown function (DUF616); Region: DUF616; pfam04765 1004788010612 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004788010613 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1004788010614 Probable Catalytic site; other site 1004788010615 metal-binding site 1004788010616 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1004788010617 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1004788010618 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1004788010619 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1004788010620 alphaNTD homodimer interface [polypeptide binding]; other site 1004788010621 alphaNTD - beta interaction site [polypeptide binding]; other site 1004788010622 alphaNTD - beta' interaction site [polypeptide binding]; other site 1004788010623 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1004788010624 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1004788010625 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1004788010626 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 1004788010627 RNA binding surface [nucleotide binding]; other site 1004788010628 30S ribosomal protein S11; Validated; Region: PRK05309 1004788010629 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1004788010630 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1004788010631 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1004788010632 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1004788010633 SecY translocase; Region: SecY; pfam00344 1004788010634 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1004788010635 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 1004788010636 23S rRNA binding site [nucleotide binding]; other site 1004788010637 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1004788010638 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1004788010639 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1004788010640 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 1004788010641 5S rRNA interface [nucleotide binding]; other site 1004788010642 23S rRNA interface [nucleotide binding]; other site 1004788010643 L5 interface [polypeptide binding]; other site 1004788010644 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1004788010645 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1004788010646 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1004788010647 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1004788010648 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1004788010649 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1004788010650 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1004788010651 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1004788010652 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1004788010653 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1004788010654 RNA binding site [nucleotide binding]; other site 1004788010655 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1004788010656 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788010657 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1004788010658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788010659 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 1004788010660 dimer interface [polypeptide binding]; other site 1004788010661 phosphorylation site [posttranslational modification] 1004788010662 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 1004788010663 ATP binding site [chemical binding]; other site 1004788010664 Mg2+ binding site [ion binding]; other site 1004788010665 G-X-G motif; other site 1004788010666 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788010667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010668 active site 1004788010669 phosphorylation site [posttranslational modification] 1004788010670 intermolecular recognition site; other site 1004788010671 dimerization interface [polypeptide binding]; other site 1004788010672 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1004788010673 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1004788010674 active site 1004788010675 catalytic residues [active] 1004788010676 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1004788010677 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1004788010678 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1004788010679 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1004788010680 ribonuclease R; Region: RNase_R; TIGR02063 1004788010681 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1004788010682 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 1004788010683 RNB domain; Region: RNB; pfam00773 1004788010684 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 1004788010685 RNA binding site [nucleotide binding]; other site 1004788010686 PhoD-like phosphatase; Region: PhoD; pfam09423 1004788010687 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1004788010688 putative active site [active] 1004788010689 putative metal binding site [ion binding]; other site 1004788010690 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1004788010691 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1004788010692 Predicted transcriptional regulator [Transcription]; Region: COG3905 1004788010693 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1004788010694 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788010695 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 1004788010696 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1004788010697 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 1004788010698 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1004788010699 Sel1-like repeats; Region: SEL1; smart00671 1004788010700 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1004788010701 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1004788010702 FMN reductase; Validated; Region: fre; PRK08051 1004788010703 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 1004788010704 FAD binding pocket [chemical binding]; other site 1004788010705 FAD binding motif [chemical binding]; other site 1004788010706 phosphate binding motif [ion binding]; other site 1004788010707 beta-alpha-beta structure motif; other site 1004788010708 NAD binding pocket [chemical binding]; other site 1004788010709 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1004788010710 Peptidase family M28; Region: Peptidase_M28; pfam04389 1004788010711 putative metal binding site [ion binding]; other site 1004788010712 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 1004788010713 Interdomain contacts; other site 1004788010714 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1004788010715 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 1004788010716 substrate binding pocket [chemical binding]; other site 1004788010717 membrane-bound complex binding site; other site 1004788010718 hinge residues; other site 1004788010719 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1004788010720 GAF domain; Region: GAF; pfam01590 1004788010721 Phytochrome region; Region: PHY; pfam00360 1004788010722 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 1004788010723 dimer interface [polypeptide binding]; other site 1004788010724 phosphorylation site [posttranslational modification] 1004788010725 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 1004788010726 ATP binding site [chemical binding]; other site 1004788010727 Mg2+ binding site [ion binding]; other site 1004788010728 G-X-G motif; other site 1004788010729 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788010730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010731 active site 1004788010732 phosphorylation site [posttranslational modification] 1004788010733 intermolecular recognition site; other site 1004788010734 dimerization interface [polypeptide binding]; other site 1004788010735 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1004788010736 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1004788010737 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1004788010738 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1004788010739 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 1004788010740 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1004788010741 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1004788010742 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1004788010743 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1004788010744 Predicted transcriptional regulators [Transcription]; Region: COG1510 1004788010745 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 1004788010746 putative DNA binding site [nucleotide binding]; other site 1004788010747 putative Zn2+ binding site [ion binding]; other site 1004788010748 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1004788010749 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1004788010750 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1004788010751 potential frameshift: common BLAST hit: gi|333895263|ref|YP_004469138.1| methyl-accepting chemotaxis sensory transducer 1004788010752 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1004788010753 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 1004788010754 putative DNA binding site [nucleotide binding]; other site 1004788010755 putative Zn2+ binding site [ion binding]; other site 1004788010756 AsnC family; Region: AsnC_trans_reg; pfam01037 1004788010757 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 1004788010758 DNA-binding site [nucleotide binding]; DNA binding site 1004788010759 RNA-binding motif; other site 1004788010760 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1004788010761 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1004788010762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1004788010763 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1004788010764 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1004788010765 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 1004788010766 S-adenosylmethionine binding site [chemical binding]; other site 1004788010767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1004788010768 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1004788010769 oligopeptidase A; Provisional; Region: PRK10911 1004788010770 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1004788010771 active site 1004788010772 Zn binding site [ion binding]; other site 1004788010773 Helix-turn-helix domain; Region: HTH_17; pfam12728 1004788010774 Response regulator receiver domain; Region: Response_reg; pfam00072 1004788010775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010776 active site 1004788010777 phosphorylation site [posttranslational modification] 1004788010778 intermolecular recognition site; other site 1004788010779 dimerization interface [polypeptide binding]; other site 1004788010780 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1004788010781 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 1004788010782 dimerization interface [polypeptide binding]; other site 1004788010783 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 1004788010784 dimer interface [polypeptide binding]; other site 1004788010785 phosphorylation site [posttranslational modification] 1004788010786 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 1004788010787 ATP binding site [chemical binding]; other site 1004788010788 Mg2+ binding site [ion binding]; other site 1004788010789 G-X-G motif; other site 1004788010790 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1004788010791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010792 active site 1004788010793 phosphorylation site [posttranslational modification] 1004788010794 intermolecular recognition site; other site 1004788010795 dimerization interface [polypeptide binding]; other site 1004788010796 HD domain; Region: HD_5; pfam13487 1004788010797 glutathione reductase; Validated; Region: PRK06116 1004788010798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1004788010799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788010800 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1004788010801 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1004788010802 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 1004788010803 putative [Fe4-S4] binding site [ion binding]; other site 1004788010804 putative molybdopterin cofactor binding site [chemical binding]; other site 1004788010805 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 1004788010806 putative molybdopterin cofactor binding site; other site 1004788010807 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788010808 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 1004788010809 N-terminal plug; other site 1004788010810 ligand-binding site [chemical binding]; other site 1004788010811 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788010812 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1004788010813 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1004788010814 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004788010815 Amidohydrolase; Region: Amidohydro_5; pfam13594 1004788010816 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 1004788010817 active site 1004788010818 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 1004788010819 PEGA domain; Region: PEGA; pfam08308 1004788010820 PEGA domain; Region: PEGA; pfam08308 1004788010821 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1004788010822 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1004788010823 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 1004788010824 metal ion-dependent adhesion site (MIDAS); other site 1004788010825 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 1004788010826 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1004788010827 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1004788010828 tetramerization interface [polypeptide binding]; other site 1004788010829 substrate binding pocket [chemical binding]; other site 1004788010830 catalytic residues [active] 1004788010831 inhibitor binding sites; inhibition site 1004788010832 NADP(H) binding site [chemical binding]; other site 1004788010833 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1004788010834 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788010835 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1004788010836 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 1004788010837 putative active site [active] 1004788010838 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788010839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788010840 Walker A/P-loop; other site 1004788010841 ATP binding site [chemical binding]; other site 1004788010842 Q-loop/lid; other site 1004788010843 ABC transporter signature motif; other site 1004788010844 Walker B; other site 1004788010845 D-loop; other site 1004788010846 H-loop/switch region; other site 1004788010847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1004788010848 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 1004788010849 DNA binding residues [nucleotide binding] 1004788010850 dimerization interface [polypeptide binding]; other site 1004788010851 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1004788010852 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1004788010853 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 1004788010854 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 1004788010855 non-specific DNA binding site [nucleotide binding]; other site 1004788010856 salt bridge; other site 1004788010857 sequence-specific DNA binding site [nucleotide binding]; other site 1004788010858 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1004788010859 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 1004788010860 Walker A motif; other site 1004788010861 ATP binding site [chemical binding]; other site 1004788010862 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1004788010863 Walker B motif; other site 1004788010864 arginine finger; other site 1004788010865 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1004788010866 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 1004788010867 active site 1004788010868 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 1004788010869 DNA-binding site [nucleotide binding]; DNA binding site 1004788010870 RNA-binding motif; other site 1004788010871 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1004788010872 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1004788010873 Sporulation related domain; Region: SPOR; pfam05036 1004788010874 primosome assembly protein PriA; Validated; Region: PRK05580 1004788010875 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 1004788010876 ATP binding site [chemical binding]; other site 1004788010877 putative Mg++ binding site [ion binding]; other site 1004788010878 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1004788010879 ATP-binding site [chemical binding]; other site 1004788010880 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1004788010881 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1004788010882 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1004788010883 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1004788010884 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1004788010885 putative NAD(P) binding site [chemical binding]; other site 1004788010886 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 1004788010887 dimerization interface [polypeptide binding]; other site 1004788010888 DNA binding site [nucleotide binding] 1004788010889 corepressor binding sites; other site 1004788010890 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 1004788010891 FAD binding site [chemical binding]; other site 1004788010892 hypothetical protein; Reviewed; Region: PRK01637 1004788010893 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1004788010894 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1004788010895 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 1004788010896 putative active site [active] 1004788010897 dimerization interface [polypeptide binding]; other site 1004788010898 putative tRNAtyr binding site [nucleotide binding]; other site 1004788010899 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1004788010900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788010901 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788010902 Coenzyme A binding pocket [chemical binding]; other site 1004788010903 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1004788010904 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1004788010905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788010906 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 1004788010907 DNA binding residues [nucleotide binding] 1004788010908 potential frameshift: common BLAST hit: gi|332143057|ref|YP_004428795.1| EAL domain-containing protein 1004788010909 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1004788010910 EAL domain; Region: EAL; pfam00563 1004788010911 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1004788010912 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1004788010913 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1004788010914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788010915 Walker A/P-loop; other site 1004788010916 ATP binding site [chemical binding]; other site 1004788010917 Q-loop/lid; other site 1004788010918 ABC transporter signature motif; other site 1004788010919 Walker B; other site 1004788010920 D-loop; other site 1004788010921 H-loop/switch region; other site 1004788010922 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1004788010923 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1004788010924 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 1004788010925 P loop; other site 1004788010926 GTP binding site [chemical binding]; other site 1004788010927 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 1004788010928 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1004788010929 S-adenosylmethionine binding site [chemical binding]; other site 1004788010930 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1004788010931 MarC family integral membrane protein; Region: MarC; cl00919 1004788010932 aminopeptidase B; Provisional; Region: PRK05015 1004788010933 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 1004788010934 interface (dimer of trimers) [polypeptide binding]; other site 1004788010935 Substrate-binding/catalytic site; other site 1004788010936 Zn-binding sites [ion binding]; other site 1004788010937 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1004788010938 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1004788010939 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1004788010940 active site 1004788010941 nucleotide binding site [chemical binding]; other site 1004788010942 HIGH motif; other site 1004788010943 KMSKS motif; other site 1004788010944 poly(A) polymerase; Region: pcnB; TIGR01942 1004788010945 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1004788010946 active site 1004788010947 NTP binding site [chemical binding]; other site 1004788010948 metal binding triad [ion binding]; metal-binding site 1004788010949 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1004788010950 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1004788010951 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 1004788010952 catalytic center binding site [active] 1004788010953 ATP binding site [chemical binding]; other site 1004788010954 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 1004788010955 oligomerization interface [polypeptide binding]; other site 1004788010956 active site 1004788010957 metal binding site [ion binding]; metal-binding site 1004788010958 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1004788010959 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1004788010960 active site 1004788010961 ATP-binding site [chemical binding]; other site 1004788010962 pantoate-binding site; other site 1004788010963 HXXH motif; other site 1004788010964 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 1004788010965 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1004788010966 catalytic residue [active] 1004788010967 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 1004788010968 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 1004788010969 S-adenosylmethionine binding site [chemical binding]; other site 1004788010970 inner membrane transport permease; Provisional; Region: PRK15066 1004788010971 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1004788010972 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1004788010973 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1004788010974 Walker A/P-loop; other site 1004788010975 ATP binding site [chemical binding]; other site 1004788010976 Q-loop/lid; other site 1004788010977 ABC transporter signature motif; other site 1004788010978 Walker B; other site 1004788010979 D-loop; other site 1004788010980 H-loop/switch region; other site 1004788010981 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1004788010982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788010983 active site 1004788010984 phosphorylation site [posttranslational modification] 1004788010985 intermolecular recognition site; other site 1004788010986 dimerization interface [polypeptide binding]; other site 1004788010987 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 1004788010988 DNA binding site [nucleotide binding] 1004788010989 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1004788010990 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 1004788010991 putative ligand binding site [chemical binding]; other site 1004788010992 HAMP domain; Region: HAMP; pfam00672 1004788010993 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 1004788010994 dimer interface [polypeptide binding]; other site 1004788010995 phosphorylation site [posttranslational modification] 1004788010996 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 1004788010997 ATP binding site [chemical binding]; other site 1004788010998 Mg2+ binding site [ion binding]; other site 1004788010999 G-X-G motif; other site 1004788011000 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1004788011001 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1004788011002 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788011003 Domain of unknown function DUF21; Region: DUF21; pfam01595 1004788011004 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 1004788011005 Predicted permeases [General function prediction only]; Region: COG0701 1004788011006 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1004788011007 Carbon starvation protein CstA; Region: CstA; pfam02554 1004788011008 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1004788011009 Flavodoxin; Region: Flavodoxin_1; pfam00258 1004788011010 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 1004788011011 FAD binding pocket [chemical binding]; other site 1004788011012 conserved FAD binding motif [chemical binding]; other site 1004788011013 phosphate binding motif [ion binding]; other site 1004788011014 beta-alpha-beta structure motif; other site 1004788011015 NAD binding pocket [chemical binding]; other site 1004788011016 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1004788011017 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1004788011018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1004788011019 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1004788011020 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1004788011021 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788011022 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004788011023 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 1004788011024 TPR motif; other site 1004788011025 binding surface 1004788011026 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 1004788011027 TPR motif; other site 1004788011028 binding surface 1004788011029 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 1004788011030 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004788011031 TPR motif; other site 1004788011032 binding surface 1004788011033 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1004788011034 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1004788011035 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1004788011036 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1004788011037 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1004788011038 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1004788011039 outer membrane receptor FepA; Provisional; Region: PRK13524 1004788011040 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 1004788011041 N-terminal plug; other site 1004788011042 ligand-binding site [chemical binding]; other site 1004788011043 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 1004788011044 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1004788011045 active site 1004788011046 substrate binding site [chemical binding]; other site 1004788011047 FMN binding site [chemical binding]; other site 1004788011048 putative catalytic residues [active] 1004788011049 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1004788011050 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1004788011051 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 1004788011052 N-terminal plug; other site 1004788011053 ligand-binding site [chemical binding]; other site 1004788011054 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1004788011055 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1004788011056 TraB family; Region: TraB; pfam01963 1004788011057 elongation factor Tu; Reviewed; Region: PRK00049 1004788011058 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1004788011059 G1 box; other site 1004788011060 GEF interaction site [polypeptide binding]; other site 1004788011061 GTP/Mg2+ binding site [chemical binding]; other site 1004788011062 Switch I region; other site 1004788011063 G2 box; other site 1004788011064 G3 box; other site 1004788011065 Switch II region; other site 1004788011066 G4 box; other site 1004788011067 G5 box; other site 1004788011068 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 1004788011069 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1004788011070 Antibiotic Binding Site [chemical binding]; other site 1004788011071 elongation factor G; Reviewed; Region: PRK00007 1004788011072 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1004788011073 G1 box; other site 1004788011074 putative GEF interaction site [polypeptide binding]; other site 1004788011075 GTP/Mg2+ binding site [chemical binding]; other site 1004788011076 Switch I region; other site 1004788011077 G2 box; other site 1004788011078 G3 box; other site 1004788011079 Switch II region; other site 1004788011080 G4 box; other site 1004788011081 G5 box; other site 1004788011082 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 1004788011083 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 1004788011084 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 1004788011085 30S ribosomal protein S7; Validated; Region: PRK05302 1004788011086 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 1004788011087 S17 interaction site [polypeptide binding]; other site 1004788011088 S8 interaction site; other site 1004788011089 16S rRNA interaction site [nucleotide binding]; other site 1004788011090 streptomycin interaction site [chemical binding]; other site 1004788011091 23S rRNA interaction site [nucleotide binding]; other site 1004788011092 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1004788011093 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1004788011094 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1004788011095 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1004788011096 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1004788011097 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1004788011098 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1004788011099 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1004788011100 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1004788011101 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1004788011102 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1004788011103 DNA binding site [nucleotide binding] 1004788011104 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1004788011105 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1004788011106 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 1004788011107 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1004788011108 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 1004788011109 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1004788011110 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 1004788011111 RPB3 interaction site [polypeptide binding]; other site 1004788011112 RPB1 interaction site [polypeptide binding]; other site 1004788011113 RPB11 interaction site [polypeptide binding]; other site 1004788011114 RPB10 interaction site [polypeptide binding]; other site 1004788011115 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 1004788011116 23S rRNA interface [nucleotide binding]; other site 1004788011117 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1004788011118 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 1004788011119 mRNA/rRNA interface [nucleotide binding]; other site 1004788011120 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1004788011121 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 1004788011122 23S rRNA interface [nucleotide binding]; other site 1004788011123 L7/L12 interface [polypeptide binding]; other site 1004788011124 putative thiostrepton binding site; other site 1004788011125 L25 interface [polypeptide binding]; other site 1004788011126 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1004788011127 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1004788011128 putative homodimer interface [polypeptide binding]; other site 1004788011129 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1004788011130 heterodimer interface [polypeptide binding]; other site 1004788011131 homodimer interface [polypeptide binding]; other site 1004788011132 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1004788011133 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1004788011134 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788011135 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1004788011136 Walker A/P-loop; other site 1004788011137 ATP binding site [chemical binding]; other site 1004788011138 Q-loop/lid; other site 1004788011139 ABC transporter signature motif; other site 1004788011140 Walker B; other site 1004788011141 D-loop; other site 1004788011142 H-loop/switch region; other site 1004788011143 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1004788011144 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1004788011145 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1004788011146 active site 1004788011147 Zn binding site [ion binding]; other site 1004788011148 YhhN-like protein; Region: YhhN; pfam07947 1004788011149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1004788011150 ACT domain; Region: ACT_3; pfam10000 1004788011151 Family description; Region: ACT_7; pfam13840 1004788011152 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 1004788011153 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1004788011154 ATP binding site [chemical binding]; other site 1004788011155 Mg++ binding site [ion binding]; other site 1004788011156 motif III; other site 1004788011157 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 1004788011158 nucleotide binding region [chemical binding]; other site 1004788011159 ATP-binding site [chemical binding]; other site 1004788011160 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1004788011161 putative RNA binding site [nucleotide binding]; other site 1004788011162 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1004788011163 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 1004788011164 active site 1004788011165 substrate binding pocket [chemical binding]; other site 1004788011166 dimer interface [polypeptide binding]; other site 1004788011167 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1004788011168 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1004788011169 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 1004788011170 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788011171 active site 1004788011172 catalytic tetrad [active] 1004788011173 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 1004788011174 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788011175 putative metal binding site [ion binding]; other site 1004788011176 Conserved TM helix; Region: TM_helix; pfam05552 1004788011177 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1004788011178 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788011179 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 1004788011180 putative substrate translocation pore; other site 1004788011181 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1004788011182 trehalose synthase; Region: treS_nterm; TIGR02456 1004788011183 active site 1004788011184 catalytic site [active] 1004788011185 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1004788011186 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1004788011187 active site 1004788011188 dihydromonapterin reductase; Provisional; Region: PRK06483 1004788011189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1004788011190 NAD(P) binding site [chemical binding]; other site 1004788011191 active site 1004788011192 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1004788011193 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1004788011194 potential frameshift: common BLAST hit: gi|333895367|ref|YP_004469242.1| glycoside hydrolase family protein 1004788011195 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1004788011196 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1004788011197 putative active site [active] 1004788011198 putative metal binding site [ion binding]; other site 1004788011199 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1004788011200 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 1004788011201 ATP binding site [chemical binding]; other site 1004788011202 putative Mg++ binding site [ion binding]; other site 1004788011203 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 1004788011204 nucleotide binding region [chemical binding]; other site 1004788011205 ATP-binding site [chemical binding]; other site 1004788011206 DEAD/H associated; Region: DEAD_assoc; pfam08494 1004788011207 Predicted membrane protein [Function unknown]; Region: COG2311 1004788011208 Protein of unknown function (DUF418); Region: DUF418; cl12135 1004788011209 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 1004788011210 substrate binding pocket [chemical binding]; other site 1004788011211 membrane-bound complex binding site; other site 1004788011212 hinge residues; other site 1004788011213 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1004788011214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004788011215 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1004788011216 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 1004788011217 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1004788011218 active site 1004788011219 DNA binding site [nucleotide binding] 1004788011220 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 1004788011221 DNA binding site [nucleotide binding] 1004788011222 elongation factor P; Provisional; Region: PRK04542 1004788011223 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1004788011224 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 1004788011225 RNA binding site [nucleotide binding]; other site 1004788011226 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 1004788011227 RNA binding site [nucleotide binding]; other site 1004788011228 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1004788011229 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 1004788011230 putative substrate binding site [chemical binding]; other site 1004788011231 putative ATP binding site [chemical binding]; other site 1004788011232 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 1004788011233 non-specific DNA interactions [nucleotide binding]; other site 1004788011234 DNA binding site [nucleotide binding] 1004788011235 sequence specific DNA binding site [nucleotide binding]; other site 1004788011236 putative cAMP binding site [chemical binding]; other site 1004788011237 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1004788011238 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1004788011239 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1004788011240 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1004788011241 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1004788011242 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 1004788011243 C-terminal domain interface [polypeptide binding]; other site 1004788011244 GSH binding site (G-site) [chemical binding]; other site 1004788011245 dimer interface [polypeptide binding]; other site 1004788011246 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004788011247 N-terminal domain interface [polypeptide binding]; other site 1004788011248 dimer interface [polypeptide binding]; other site 1004788011249 substrate binding pocket (H-site) [chemical binding]; other site 1004788011250 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788011251 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 1004788011252 putative C-terminal domain interface [polypeptide binding]; other site 1004788011253 putative GSH binding site (G-site) [chemical binding]; other site 1004788011254 putative dimer interface [polypeptide binding]; other site 1004788011255 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004788011256 N-terminal domain interface [polypeptide binding]; other site 1004788011257 dimer interface [polypeptide binding]; other site 1004788011258 substrate binding pocket (H-site) [chemical binding]; other site 1004788011259 lipase chaperone; Provisional; Region: PRK01294 1004788011260 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1004788011261 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1004788011262 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1004788011263 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1004788011264 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 1004788011265 S-adenosylmethionine binding site [chemical binding]; other site 1004788011266 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1004788011267 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1004788011268 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1004788011269 NAD(P) binding site [chemical binding]; other site 1004788011270 catalytic residues [active] 1004788011271 acetolactate synthase; Reviewed; Region: PRK08322 1004788011272 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1004788011273 PYR/PP interface [polypeptide binding]; other site 1004788011274 dimer interface [polypeptide binding]; other site 1004788011275 TPP binding site [chemical binding]; other site 1004788011276 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1004788011277 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 1004788011278 TPP-binding site [chemical binding]; other site 1004788011279 dimer interface [polypeptide binding]; other site 1004788011280 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 1004788011281 active site 1004788011282 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1004788011283 ferrochelatase; Reviewed; Region: hemH; PRK00035 1004788011284 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 1004788011285 C-terminal domain interface [polypeptide binding]; other site 1004788011286 active site 1004788011287 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 1004788011288 active site 1004788011289 N-terminal domain interface [polypeptide binding]; other site 1004788011290 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1004788011291 AbgT putative transporter family; Region: ABG_transport; pfam03806 1004788011292 FtsH protease regulator HflC; Provisional; Region: PRK11029 1004788011293 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 1004788011294 FtsH protease regulator HflK; Provisional; Region: PRK10930 1004788011295 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1004788011296 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 1004788011297 GTPase HflX; Provisional; Region: PRK11058 1004788011298 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1004788011299 HflX GTPase family; Region: HflX; cd01878 1004788011300 G1 box; other site 1004788011301 GTP/Mg2+ binding site [chemical binding]; other site 1004788011302 Switch I region; other site 1004788011303 G2 box; other site 1004788011304 G3 box; other site 1004788011305 Switch II region; other site 1004788011306 G4 box; other site 1004788011307 G5 box; other site 1004788011308 bacterial Hfq-like; Region: Hfq; cd01716 1004788011309 hexamer interface [polypeptide binding]; other site 1004788011310 Sm1 motif; other site 1004788011311 RNA binding site [nucleotide binding]; other site 1004788011312 Sm2 motif; other site 1004788011313 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1004788011314 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1004788011315 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1004788011316 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 1004788011317 ATP binding site [chemical binding]; other site 1004788011318 Mg2+ binding site [ion binding]; other site 1004788011319 G-X-G motif; other site 1004788011320 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 1004788011321 ATP binding site [chemical binding]; other site 1004788011322 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1004788011323 AMIN domain; Region: AMIN; pfam11741 1004788011324 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 1004788011325 active site 1004788011326 metal binding site [ion binding]; metal-binding site 1004788011327 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1004788011328 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1004788011329 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1004788011330 putative carbohydrate kinase; Provisional; Region: PRK10565 1004788011331 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1004788011332 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 1004788011333 putative substrate binding site [chemical binding]; other site 1004788011334 putative ATP binding site [chemical binding]; other site 1004788011335 epoxyqueuosine reductase; Region: TIGR00276 1004788011336 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1004788011337 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1004788011338 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 1004788011339 substrate binding site [chemical binding]; other site 1004788011340 active site 1004788011341 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1004788011342 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1004788011343 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1004788011344 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 1004788011345 putative NADH binding site [chemical binding]; other site 1004788011346 putative active site [active] 1004788011347 nudix motif; other site 1004788011348 putative metal binding site [ion binding]; other site 1004788011349 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1004788011350 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1004788011351 metal binding site 2 [ion binding]; metal-binding site 1004788011352 putative DNA binding helix; other site 1004788011353 metal binding site 1 [ion binding]; metal-binding site 1004788011354 dimer interface [polypeptide binding]; other site 1004788011355 structural Zn2+ binding site [ion binding]; other site 1004788011356 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1004788011357 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1004788011358 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1004788011359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788011360 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004788011361 ligand binding site [chemical binding]; other site 1004788011362 replicative DNA helicase; Region: DnaB; TIGR00665 1004788011363 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1004788011364 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 1004788011365 Walker A motif; other site 1004788011366 ATP binding site [chemical binding]; other site 1004788011367 Walker B motif; other site 1004788011368 DNA binding loops [nucleotide binding] 1004788011369 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1004788011370 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1004788011371 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788011372 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 1004788011373 DNA binding residues [nucleotide binding] 1004788011374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1004788011375 MOSC domain; Region: MOSC; pfam03473 1004788011376 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1004788011377 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1004788011378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1004788011379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788011380 active site 1004788011381 phosphorylation site [posttranslational modification] 1004788011382 intermolecular recognition site; other site 1004788011383 dimerization interface [polypeptide binding]; other site 1004788011384 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 1004788011385 DNA binding site [nucleotide binding] 1004788011386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788011387 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 1004788011388 dimerization interface [polypeptide binding]; other site 1004788011389 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 1004788011390 dimer interface [polypeptide binding]; other site 1004788011391 phosphorylation site [posttranslational modification] 1004788011392 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 1004788011393 ATP binding site [chemical binding]; other site 1004788011394 Mg2+ binding site [ion binding]; other site 1004788011395 G-X-G motif; other site 1004788011396 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1004788011397 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1004788011398 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1004788011399 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 1004788011400 N-terminal plug; other site 1004788011401 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1004788011402 ligand-binding site [chemical binding]; other site 1004788011403 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1004788011404 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1004788011405 HlyD family secretion protein; Region: HlyD_3; pfam13437 1004788011406 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1004788011407 Protein export membrane protein; Region: SecD_SecF; cl14618 1004788011408 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1004788011409 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1004788011410 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1004788011411 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1004788011412 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1004788011413 YebG protein; Region: YebG; pfam07130 1004788011414 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1004788011415 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1004788011416 Walker A/P-loop; other site 1004788011417 ATP binding site [chemical binding]; other site 1004788011418 Q-loop/lid; other site 1004788011419 ABC transporter signature motif; other site 1004788011420 Walker B; other site 1004788011421 D-loop; other site 1004788011422 H-loop/switch region; other site 1004788011423 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1004788011424 FtsX-like permease family; Region: FtsX; pfam02687 1004788011425 PAS domain; Region: PAS_9; pfam13426 1004788011426 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 1004788011427 putative active site [active] 1004788011428 heme pocket [chemical binding]; other site 1004788011429 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788011430 dimer interface [polypeptide binding]; other site 1004788011431 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1004788011432 putative CheW interface [polypeptide binding]; other site 1004788011433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788011434 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 1004788011435 ATP binding site [chemical binding]; other site 1004788011436 Mg2+ binding site [ion binding]; other site 1004788011437 G-X-G motif; other site 1004788011438 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1004788011439 dimer interface [polypeptide binding]; other site 1004788011440 putative CheW interface [polypeptide binding]; other site 1004788011441 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1004788011442 sulfite oxidase; Provisional; Region: PLN00177 1004788011443 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 1004788011444 Moco binding site; other site 1004788011445 metal coordination site [ion binding]; other site 1004788011446 dimerization interface [polypeptide binding]; other site 1004788011447 Predicted membrane protein [Function unknown]; Region: COG2855 1004788011448 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 1004788011449 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 1004788011450 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1004788011451 active site 1004788011452 catalytic tetrad [active] 1004788011453 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1004788011454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1004788011455 DNA-binding site [nucleotide binding]; DNA binding site 1004788011456 UTRA domain; Region: UTRA; pfam07702 1004788011457 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1004788011458 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1004788011459 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 1004788011460 active site 1004788011461 catalytic site [active] 1004788011462 putative transporter; Provisional; Region: PRK10484 1004788011463 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1004788011464 Na binding site [ion binding]; other site 1004788011465 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788011466 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 1004788011467 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 1004788011468 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1004788011469 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1004788011470 active site 1004788011471 catalytic residues [active] 1004788011472 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788011473 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 1004788011474 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 1004788011475 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788011476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788011477 metal binding site [ion binding]; metal-binding site 1004788011478 active site 1004788011479 I-site; other site 1004788011480 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1004788011481 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1004788011482 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1004788011483 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1004788011484 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1004788011485 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 1004788011486 putative substrate translocation pore; other site 1004788011487 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1004788011488 beta-galactosidase; Region: BGL; TIGR03356 1004788011489 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788011490 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788011491 DNA binding site [nucleotide binding] 1004788011492 domain linker motif; other site 1004788011493 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 1004788011494 dimerization interface (closed form) [polypeptide binding]; other site 1004788011495 ligand binding site [chemical binding]; other site 1004788011496 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1004788011497 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 1004788011498 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 1004788011499 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1004788011500 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1004788011501 Walker A/P-loop; other site 1004788011502 ATP binding site [chemical binding]; other site 1004788011503 Q-loop/lid; other site 1004788011504 ABC transporter signature motif; other site 1004788011505 Walker B; other site 1004788011506 D-loop; other site 1004788011507 H-loop/switch region; other site 1004788011508 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1004788011509 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 1004788011510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788011511 Walker A/P-loop; other site 1004788011512 ATP binding site [chemical binding]; other site 1004788011513 Q-loop/lid; other site 1004788011514 ABC transporter signature motif; other site 1004788011515 Walker B; other site 1004788011516 D-loop; other site 1004788011517 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1004788011518 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1004788011519 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1004788011520 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1004788011521 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1004788011522 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1004788011523 PAS fold; Region: PAS_4; pfam08448 1004788011524 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 1004788011525 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1004788011526 Walker A motif; other site 1004788011527 ATP binding site [chemical binding]; other site 1004788011528 Walker B motif; other site 1004788011529 arginine finger; other site 1004788011530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1004788011531 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 1004788011532 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1004788011533 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1004788011534 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1004788011535 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004788011536 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 1004788011537 Isochorismatase family; Region: Isochorismatase; pfam00857 1004788011538 catalytic triad [active] 1004788011539 dimer interface [polypeptide binding]; other site 1004788011540 conserved cis-peptide bond; other site 1004788011541 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1004788011542 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1004788011543 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 1004788011544 active site 1004788011545 Pirin-related protein [General function prediction only]; Region: COG1741 1004788011546 Pirin; Region: Pirin; pfam02678 1004788011547 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1004788011548 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1004788011549 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 1004788011550 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1004788011551 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1004788011552 MerC mercury resistance protein; Region: MerC; pfam03203 1004788011553 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1004788011554 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1004788011555 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1004788011556 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1004788011557 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1004788011558 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1004788011559 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1004788011560 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1004788011561 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1004788011562 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 1004788011563 FAD binding pocket [chemical binding]; other site 1004788011564 FAD binding motif [chemical binding]; other site 1004788011565 phosphate binding motif [ion binding]; other site 1004788011566 NAD binding pocket [chemical binding]; other site 1004788011567 CsbD-like; Region: CsbD; cl17424 1004788011568 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1004788011569 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004788011570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788011571 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 1004788011572 DNA binding residues [nucleotide binding] 1004788011573 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 1004788011574 active site 1004788011575 catalytic triad [active] 1004788011576 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1004788011577 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1004788011578 hypothetical protein; Provisional; Region: PRK09256 1004788011579 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1004788011580 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1004788011581 S-formylglutathione hydrolase; Region: PLN02442 1004788011582 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 1004788011583 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1004788011584 hypothetical protein; Provisional; Region: PRK03757 1004788011585 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1004788011586 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788011587 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1004788011588 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1004788011589 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 1004788011590 N-terminal plug; other site 1004788011591 ligand-binding site [chemical binding]; other site 1004788011592 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1004788011593 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1004788011594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1004788011595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788011596 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 1004788011597 dimerization interface [polypeptide binding]; other site 1004788011598 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1004788011599 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1004788011600 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1004788011601 NAD(P) binding site [chemical binding]; other site 1004788011602 substrate binding site [chemical binding]; other site 1004788011603 dimer interface [polypeptide binding]; other site 1004788011604 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788011605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788011606 metal binding site [ion binding]; metal-binding site 1004788011607 active site 1004788011608 I-site; other site 1004788011609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1004788011610 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 1004788011611 dimerization interface [polypeptide binding]; other site 1004788011612 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 1004788011613 dimer interface [polypeptide binding]; other site 1004788011614 phosphorylation site [posttranslational modification] 1004788011615 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 1004788011616 ATP binding site [chemical binding]; other site 1004788011617 Mg2+ binding site [ion binding]; other site 1004788011618 G-X-G motif; other site 1004788011619 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1004788011620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788011621 active site 1004788011622 phosphorylation site [posttranslational modification] 1004788011623 intermolecular recognition site; other site 1004788011624 dimerization interface [polypeptide binding]; other site 1004788011625 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1004788011626 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1004788011627 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1004788011628 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1004788011629 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1004788011630 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 1004788011631 glutaminase active site [active] 1004788011632 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 1004788011633 dimer interface [polypeptide binding]; other site 1004788011634 active site 1004788011635 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 1004788011636 dimer interface [polypeptide binding]; other site 1004788011637 active site 1004788011638 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1004788011639 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1004788011640 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1004788011641 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1004788011642 putative oxidoreductase; Provisional; Region: PRK11579 1004788011643 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1004788011644 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1004788011645 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1004788011646 Substrate binding site; other site 1004788011647 Mg++ binding site; other site 1004788011648 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 1004788011649 active site 1004788011650 substrate binding site [chemical binding]; other site 1004788011651 CoA binding site [chemical binding]; other site 1004788011652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788011653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788011654 metal binding site [ion binding]; metal-binding site 1004788011655 active site 1004788011656 I-site; other site 1004788011657 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1004788011658 EamA-like transporter family; Region: EamA; pfam00892 1004788011659 EamA-like transporter family; Region: EamA; pfam00892 1004788011660 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1004788011661 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 1004788011662 DNA binding site [nucleotide binding] 1004788011663 active site 1004788011664 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1004788011665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1004788011666 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1004788011667 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1004788011668 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1004788011669 minor groove reading motif; other site 1004788011670 helix-hairpin-helix signature motif; other site 1004788011671 substrate binding pocket [chemical binding]; other site 1004788011672 active site 1004788011673 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1004788011674 Beta-lactamase; Region: Beta-lactamase; pfam00144 1004788011675 arginine decarboxylase; Provisional; Region: PRK05354 1004788011676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1004788011677 dimer interface [polypeptide binding]; other site 1004788011678 active site 1004788011679 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1004788011680 catalytic residues [active] 1004788011681 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1004788011682 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1004788011683 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1004788011684 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1004788011685 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1004788011686 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1004788011687 ligand binding site [chemical binding]; other site 1004788011688 homodimer interface [polypeptide binding]; other site 1004788011689 NAD(P) binding site [chemical binding]; other site 1004788011690 trimer interface B [polypeptide binding]; other site 1004788011691 trimer interface A [polypeptide binding]; other site 1004788011692 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788011693 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 1004788011694 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 1004788011695 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788011696 SapC; Region: SapC; pfam07277 1004788011697 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1004788011698 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1004788011699 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1004788011700 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 1004788011701 N-terminal plug; other site 1004788011702 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1004788011703 ligand-binding site [chemical binding]; other site 1004788011704 Secretin and TonB N terminus short domain; Region: STN; smart00965 1004788011705 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788011706 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 1004788011707 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 1004788011708 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1004788011709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788011710 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 1004788011711 DNA binding residues [nucleotide binding] 1004788011712 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1004788011713 FecR protein; Region: FecR; pfam04773 1004788011714 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1004788011715 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1004788011716 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1004788011717 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004788011718 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1004788011719 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 1004788011720 Subunit I/III interface [polypeptide binding]; other site 1004788011721 Subunit III/IV interface [polypeptide binding]; other site 1004788011722 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1004788011723 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 1004788011724 D-pathway; other site 1004788011725 Putative ubiquinol binding site [chemical binding]; other site 1004788011726 Low-spin heme (heme b) binding site [chemical binding]; other site 1004788011727 Putative water exit pathway; other site 1004788011728 Binuclear center (heme o3/CuB) [ion binding]; other site 1004788011729 K-pathway; other site 1004788011730 Putative proton exit pathway; other site 1004788011731 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1004788011732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1004788011733 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1004788011734 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1004788011735 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1004788011736 Pectate lyase; Region: Pec_lyase_C; cl01593 1004788011737 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788011738 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 1004788011739 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 1004788011740 putative pectinesterase; Region: PLN02432; cl01911 1004788011741 Amb_all domain; Region: Amb_all; smart00656 1004788011742 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 1004788011743 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 1004788011744 active site 1004788011745 DNA binding site [nucleotide binding] 1004788011746 Int/Topo IB signature motif; other site 1004788011747 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1004788011748 RT_Bac_retron_I: 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_I; cd01646 1004788011749 putative active site [active] 1004788011750 putative NTP binding site [chemical binding]; other site 1004788011751 putative nucleic acid binding site [nucleotide binding]; other site 1004788011752 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 1004788011753 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1004788011754 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1004788011755 catalytic residues [active] 1004788011756 catalytic nucleophile [active] 1004788011757 Presynaptic Site I dimer interface [polypeptide binding]; other site 1004788011758 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1004788011759 Synaptic Flat tetramer interface [polypeptide binding]; other site 1004788011760 Synaptic Site I dimer interface [polypeptide binding]; other site 1004788011761 DNA binding site [nucleotide binding] 1004788011762 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1004788011763 DNA-binding interface [nucleotide binding]; DNA binding site 1004788011764 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 1004788011765 active site 1004788011766 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1004788011767 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 1004788011768 ring oligomerisation interface [polypeptide binding]; other site 1004788011769 ATP/Mg binding site [chemical binding]; other site 1004788011770 stacking interactions; other site 1004788011771 hinge regions; other site 1004788011772 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 1004788011773 oligomerisation interface [polypeptide binding]; other site 1004788011774 mobile loop; other site 1004788011775 roof hairpin; other site 1004788011776 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1004788011777 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 1004788011778 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1004788011779 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1004788011780 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1004788011781 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 1004788011782 DsbD alpha interface [polypeptide binding]; other site 1004788011783 catalytic residues [active] 1004788011784 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1004788011785 Peptidase family M23; Region: Peptidase_M23; pfam01551 1004788011786 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 1004788011787 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1004788011788 active site 1004788011789 trimer interface [polypeptide binding]; other site 1004788011790 dimer interface [polypeptide binding]; other site 1004788011791 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1004788011792 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 1004788011793 carboxyltransferase (CT) interaction site; other site 1004788011794 biotinylation site [posttranslational modification]; other site 1004788011795 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1004788011796 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1004788011797 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1004788011798 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1004788011799 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 1004788011800 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1004788011801 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1004788011802 active site 1004788011803 catalytic site [active] 1004788011804 substrate binding site [chemical binding]; other site 1004788011805 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1004788011806 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1004788011807 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1004788011808 amidase; Provisional; Region: PRK08137 1004788011809 Amidase; Region: Amidase; pfam01425 1004788011810 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1004788011811 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 1004788011812 substrate binding pocket [chemical binding]; other site 1004788011813 membrane-bound complex binding site; other site 1004788011814 hinge residues; other site 1004788011815 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1004788011816 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 1004788011817 S-adenosylmethionine binding site [chemical binding]; other site 1004788011818 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1004788011819 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 1004788011820 FMN binding site [chemical binding]; other site 1004788011821 active site 1004788011822 catalytic residues [active] 1004788011823 substrate binding site [chemical binding]; other site 1004788011824 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1004788011825 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1004788011826 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 1004788011827 purine monophosphate binding site [chemical binding]; other site 1004788011828 dimer interface [polypeptide binding]; other site 1004788011829 putative catalytic residues [active] 1004788011830 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1004788011831 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1004788011832 Predicted methyltransferase [General function prediction only]; Region: COG4798 1004788011833 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004788011834 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1004788011835 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1004788011836 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1004788011837 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1004788011838 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1004788011839 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 1004788011840 putative ligand binding site [chemical binding]; other site 1004788011841 Ion transport protein; Region: Ion_trans; pfam00520 1004788011842 Ion channel; Region: Ion_trans_2; pfam07885 1004788011843 phosphoribulokinase; Provisional; Region: PRK15453 1004788011844 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1004788011845 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1004788011846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1004788011847 active site 1004788011848 phosphorylation site [posttranslational modification] 1004788011849 intermolecular recognition site; other site 1004788011850 dimerization interface [polypeptide binding]; other site 1004788011851 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 1004788011852 DNA binding site [nucleotide binding] 1004788011853 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1004788011854 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 1004788011855 dimerization interface [polypeptide binding]; other site 1004788011856 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 1004788011857 dimer interface [polypeptide binding]; other site 1004788011858 phosphorylation site [posttranslational modification] 1004788011859 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 1004788011860 ATP binding site [chemical binding]; other site 1004788011861 Mg2+ binding site [ion binding]; other site 1004788011862 G-X-G motif; other site 1004788011863 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 1004788011864 putative substrate translocation pore; other site 1004788011865 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1004788011866 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1004788011867 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 1004788011868 putative active site [active] 1004788011869 putative catalytic site [active] 1004788011870 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 1004788011871 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1004788011872 active site 1004788011873 substrate-binding site [chemical binding]; other site 1004788011874 metal-binding site [ion binding] 1004788011875 ATP binding site [chemical binding]; other site 1004788011876 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1004788011877 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 1004788011878 dimerization interface [polypeptide binding]; other site 1004788011879 domain crossover interface; other site 1004788011880 redox-dependent activation switch; other site 1004788011881 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 1004788011882 RNA binding surface [nucleotide binding]; other site 1004788011883 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1004788011884 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1004788011885 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 1004788011886 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1004788011887 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004788011888 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004788011889 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1004788011890 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1004788011891 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1004788011892 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 1004788011893 Walker A motif; other site 1004788011894 ATP binding site [chemical binding]; other site 1004788011895 Walker B motif; other site 1004788011896 type II secretion system protein F; Region: GspF; TIGR02120 1004788011897 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788011898 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1004788011899 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1004788011900 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1004788011901 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1004788011902 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004788011903 type II secretion system protein I; Region: gspI; TIGR01707 1004788011904 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1004788011905 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1004788011906 type II secretion system protein J; Region: gspJ; TIGR01711 1004788011907 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1004788011908 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1004788011909 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1004788011910 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1004788011911 GspL periplasmic domain; Region: GspL_C; pfam12693 1004788011912 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1004788011913 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1004788011914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1004788011915 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1004788011916 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1004788011917 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1004788011918 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1004788011919 NAD(P) binding site [chemical binding]; other site 1004788011920 catalytic residues [active] 1004788011921 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1004788011922 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1004788011923 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 1004788011924 motif II; other site 1004788011925 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1004788011926 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 1004788011927 dimer interface [polypeptide binding]; other site 1004788011928 ADP-ribose binding site [chemical binding]; other site 1004788011929 active site 1004788011930 nudix motif; other site 1004788011931 metal binding site [ion binding]; metal-binding site 1004788011932 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 1004788011933 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1004788011934 active site 1004788011935 YceI-like domain; Region: YceI; pfam04264 1004788011936 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1004788011937 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1004788011938 Ligand binding site; other site 1004788011939 DXD motif; other site 1004788011940 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1004788011941 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1004788011942 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1004788011943 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 1004788011944 putative hydrolase; Provisional; Region: PRK10985 1004788011945 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1004788011946 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1004788011947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1004788011948 Walker A/P-loop; other site 1004788011949 ATP binding site [chemical binding]; other site 1004788011950 Q-loop/lid; other site 1004788011951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788011952 ABC transporter; Region: ABC_tran_2; pfam12848 1004788011953 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1004788011954 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1004788011955 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1004788011956 SlyX; Region: SlyX; pfam04102 1004788011957 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 1004788011958 structural tetrad; other site 1004788011959 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1004788011960 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1004788011961 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1004788011962 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1004788011963 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1004788011964 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1004788011965 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1004788011966 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1004788011967 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1004788011968 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1004788011969 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 1004788011970 RNA binding site [nucleotide binding]; other site 1004788011971 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 1004788011972 active site 1004788011973 SprA-related family; Region: SprA-related; pfam12118 1004788011974 PGAP1-like protein; Region: PGAP1; pfam07819 1004788011975 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1004788011976 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1004788011977 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788011978 active site 1004788011979 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1004788011980 putative active site [active] 1004788011981 Zn binding site [ion binding]; other site 1004788011982 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1004788011983 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1004788011984 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1004788011985 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1004788011986 aspartate racemase; Region: asp_race; TIGR00035 1004788011987 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 1004788011988 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1004788011989 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1004788011990 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 1004788011991 S-adenosylmethionine binding site [chemical binding]; other site 1004788011992 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1004788011993 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1004788011994 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 1004788011995 putative active site [active] 1004788011996 putative metal binding site [ion binding]; other site 1004788011997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1004788011998 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1004788011999 Coenzyme A binding pocket [chemical binding]; other site 1004788012000 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1004788012001 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 1004788012002 Cu(I) binding site [ion binding]; other site 1004788012003 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1004788012004 UbiA prenyltransferase family; Region: UbiA; pfam01040 1004788012005 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1004788012006 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1004788012007 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 1004788012008 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1004788012009 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 1004788012010 Subunit III/VIIa interface [polypeptide binding]; other site 1004788012011 Phospholipid binding site [chemical binding]; other site 1004788012012 Subunit I/III interface [polypeptide binding]; other site 1004788012013 Subunit III/VIb interface [polypeptide binding]; other site 1004788012014 Subunit III/VIa interface; other site 1004788012015 Subunit III/Vb interface [polypeptide binding]; other site 1004788012016 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1004788012017 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1004788012018 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 1004788012019 Subunit I/III interface [polypeptide binding]; other site 1004788012020 D-pathway; other site 1004788012021 Subunit I/VIIc interface [polypeptide binding]; other site 1004788012022 Subunit I/IV interface [polypeptide binding]; other site 1004788012023 Subunit I/II interface [polypeptide binding]; other site 1004788012024 Low-spin heme (heme a) binding site [chemical binding]; other site 1004788012025 Subunit I/VIIa interface [polypeptide binding]; other site 1004788012026 Subunit I/VIa interface [polypeptide binding]; other site 1004788012027 Dimer interface; other site 1004788012028 Putative water exit pathway; other site 1004788012029 Binuclear center (heme a3/CuB) [ion binding]; other site 1004788012030 K-pathway; other site 1004788012031 Subunit I/Vb interface [polypeptide binding]; other site 1004788012032 Putative proton exit pathway; other site 1004788012033 Subunit I/VIb interface; other site 1004788012034 Subunit I/VIc interface [polypeptide binding]; other site 1004788012035 Electron transfer pathway; other site 1004788012036 Subunit I/VIIIb interface [polypeptide binding]; other site 1004788012037 Subunit I/VIIb interface [polypeptide binding]; other site 1004788012038 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1004788012039 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1004788012040 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1004788012041 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1004788012042 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1004788012043 LexA repressor; Validated; Region: PRK00215 1004788012044 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1004788012045 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 1004788012046 Catalytic site [active] 1004788012047 GAF domain; Region: GAF; pfam01590 1004788012048 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1004788012049 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 1004788012050 PAS domain; Region: PAS_9; pfam13426 1004788012051 putative active site [active] 1004788012052 heme pocket [chemical binding]; other site 1004788012053 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 1004788012054 PAS fold; Region: PAS_3; pfam08447 1004788012055 putative active site [active] 1004788012056 heme pocket [chemical binding]; other site 1004788012057 GAF domain; Region: GAF; pfam01590 1004788012058 GAF domain; Region: GAF_2; pfam13185 1004788012059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1004788012060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1004788012061 metal binding site [ion binding]; metal-binding site 1004788012062 active site 1004788012063 I-site; other site 1004788012064 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1004788012065 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1004788012066 putative acyl-acceptor binding pocket; other site 1004788012067 threonine dehydratase; Reviewed; Region: PRK09224 1004788012068 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 1004788012069 tetramer interface [polypeptide binding]; other site 1004788012070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1004788012071 catalytic residue [active] 1004788012072 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1004788012073 putative Ile/Val binding site [chemical binding]; other site 1004788012074 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1004788012075 putative Ile/Val binding site [chemical binding]; other site 1004788012076 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1004788012077 UPF0126 domain; Region: UPF0126; pfam03458 1004788012078 Predicted membrane protein [Function unknown]; Region: COG2860 1004788012079 UPF0126 domain; Region: UPF0126; pfam03458 1004788012080 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1004788012081 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1004788012082 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 1004788012083 Walker A motif; other site 1004788012084 ATP binding site [chemical binding]; other site 1004788012085 Walker B motif; other site 1004788012086 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1004788012087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1004788012088 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1004788012089 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 1004788012090 putative dimerization interface [polypeptide binding]; other site 1004788012091 ketol-acid reductoisomerase; Validated; Region: PRK05225 1004788012092 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1004788012093 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1004788012094 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1004788012095 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 1004788012096 putative substrate translocation pore; other site 1004788012097 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1004788012098 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1004788012099 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1004788012100 Surface antigen; Region: Bac_surface_Ag; pfam01103 1004788012101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1004788012102 Family of unknown function (DUF490); Region: DUF490; pfam04357 1004788012103 Family of unknown function (DUF490); Region: DUF490; pfam04357 1004788012104 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1004788012105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1004788012106 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 1004788012107 DNA binding residues [nucleotide binding] 1004788012108 Phage shock protein B; Region: PspB; cl05946 1004788012109 EamA-like transporter family; Region: EamA; pfam00892 1004788012110 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1004788012111 EamA-like transporter family; Region: EamA; pfam00892 1004788012112 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1004788012113 glycerate dehydrogenase; Provisional; Region: PRK06487 1004788012114 putative ligand binding site [chemical binding]; other site 1004788012115 putative NAD binding site [chemical binding]; other site 1004788012116 catalytic site [active] 1004788012117 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 1004788012118 active site 1004788012119 gamma-glutamyl kinase; Provisional; Region: PRK05429 1004788012120 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 1004788012121 nucleotide binding site [chemical binding]; other site 1004788012122 homotetrameric interface [polypeptide binding]; other site 1004788012123 putative phosphate binding site [ion binding]; other site 1004788012124 putative allosteric binding site; other site 1004788012125 PUA domain; Region: PUA; pfam01472 1004788012126 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 1004788012127 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1004788012128 Zn binding site [ion binding]; other site 1004788012129 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1004788012130 ABC1 family; Region: ABC1; cl17513 1004788012131 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1004788012132 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1004788012133 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1004788012134 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 1004788012135 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 1004788012136 active site 1004788012137 Predicted membrane protein [Function unknown]; Region: COG1238 1004788012138 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 1004788012139 CPxP motif; other site 1004788012140 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1004788012141 active site 1004788012142 ribonuclease PH; Reviewed; Region: rph; PRK00173 1004788012143 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1004788012144 hexamer interface [polypeptide binding]; other site 1004788012145 active site 1004788012146 hypothetical protein; Provisional; Region: PRK11820 1004788012147 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1004788012148 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1004788012149 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788012150 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1004788012151 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1004788012152 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 1004788012153 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 1004788012154 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 1004788012155 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1004788012156 beta-galactosidase; Region: BGL; TIGR03356 1004788012157 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1004788012158 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1004788012159 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1004788012160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1004788012161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1004788012162 DNA binding site [nucleotide binding] 1004788012163 domain linker motif; other site 1004788012164 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 1004788012165 dimerization interface (closed form) [polypeptide binding]; other site 1004788012166 ligand binding site [chemical binding]; other site 1004788012167 Predicted membrane protein [Function unknown]; Region: COG3503 1004788012168 SnoaL-like domain; Region: SnoaL_3; pfam13474 1004788012169 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1004788012170 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1004788012171 ligand binding site [chemical binding]; other site 1004788012172 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1004788012173 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1004788012174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1004788012175 Zn2+ binding site [ion binding]; other site 1004788012176 Mg2+ binding site [ion binding]; other site 1004788012177 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 1004788012178 DNA binding site [nucleotide binding] 1004788012179 active site 1004788012180 DTW domain; Region: DTW; cl01221 1004788012181 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1004788012182 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 1004788012183 putative C-terminal domain interface [polypeptide binding]; other site 1004788012184 putative GSH binding site (G-site) [chemical binding]; other site 1004788012185 putative dimer interface [polypeptide binding]; other site 1004788012186 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1004788012187 N-terminal domain interface [polypeptide binding]; other site 1004788012188 dimer interface [polypeptide binding]; other site 1004788012189 substrate binding pocket (H-site) [chemical binding]; other site 1004788012190 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1004788012191 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1004788012192 gamma subunit interface [polypeptide binding]; other site 1004788012193 epsilon subunit interface [polypeptide binding]; other site 1004788012194 LBP interface [polypeptide binding]; other site 1004788012195 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1004788012196 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1004788012197 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 1004788012198 alpha subunit interaction interface [polypeptide binding]; other site 1004788012199 Walker A motif; other site 1004788012200 ATP binding site [chemical binding]; other site 1004788012201 Walker B motif; other site 1004788012202 inhibitor binding site; inhibition site 1004788012203 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1004788012204 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1004788012205 core domain interface [polypeptide binding]; other site 1004788012206 delta subunit interface [polypeptide binding]; other site 1004788012207 epsilon subunit interface [polypeptide binding]; other site 1004788012208 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1004788012209 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1004788012210 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 1004788012211 beta subunit interaction interface [polypeptide binding]; other site 1004788012212 Walker A motif; other site 1004788012213 ATP binding site [chemical binding]; other site 1004788012214 Walker B motif; other site 1004788012215 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1004788012216 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1004788012217 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1004788012218 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1004788012219 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1004788012220 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1004788012221 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1004788012222 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1004788012223 ATP synthase I chain; Region: ATP_synt_I; cl09170 1004788012224 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1004788012225 ParB-like nuclease domain; Region: ParBc; pfam02195 1004788012226 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1004788012227 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 1004788012228 P-loop; other site 1004788012229 Magnesium ion binding site [ion binding]; other site 1004788012230 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 1004788012231 Magnesium ion binding site [ion binding]; other site 1004788012232 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1004788012233 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 1004788012234 S-adenosylmethionine binding site [chemical binding]; other site 1004788012235 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1004788012236 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1004788012237 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1004788012238 DNA replication protein DnaC; Validated; Region: PRK07952 1004788012239 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 1004788012240 Walker A motif; other site 1004788012241 ATP binding site [chemical binding]; other site 1004788012242 primosomal protein DnaI; Provisional; Region: PRK02854 1004788012243 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1004788012244 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1004788012245 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1004788012246 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1004788012247 G4 box; other site 1004788012248 GTP/Mg2+ binding site [chemical binding]; other site 1004788012249 G5 box; other site 1004788012250 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1004788012251 G1 box; other site 1004788012252 G1 box; other site 1004788012253 GTP/Mg2+ binding site [chemical binding]; other site 1004788012254 Switch I region; other site 1004788012255 Switch I region; other site 1004788012256 G2 box; other site 1004788012257 G2 box; other site 1004788012258 Switch II region; other site 1004788012259 G3 box; other site 1004788012260 G3 box; other site 1004788012261 Switch II region; other site 1004788012262 G4 box; other site 1004788012263 G5 box; other site 1004788012264 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1004788012265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1004788012266 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1004788012267 membrane protein insertase; Provisional; Region: PRK01318 1004788012268 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1004788012269 Haemolytic domain; Region: Haemolytic; pfam01809 1004788012270 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1004788012271 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399