-- dump date 20140619_135932 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1163748000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1163748000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1163748000003 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 1163748000004 Walker A motif; other site 1163748000005 ATP binding site [chemical binding]; other site 1163748000006 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 1163748000007 Walker B motif; other site 1163748000008 arginine finger; other site 1163748000009 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 1163748000010 DnaA box-binding interface [nucleotide binding]; other site 1163748000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1163748000012 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 1163748000013 putative DNA binding surface [nucleotide binding]; other site 1163748000014 dimer interface [polypeptide binding]; other site 1163748000015 beta-clamp/clamp loader binding surface; other site 1163748000016 beta-clamp/translesion DNA polymerase binding surface; other site 1163748000017 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1163748000018 ABC1 family; Region: ABC1; cl17513 1163748000019 recombination protein F; Reviewed; Region: recF; PRK00064 1163748000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748000021 Walker A/P-loop; other site 1163748000022 ATP binding site [chemical binding]; other site 1163748000023 Q-loop/lid; other site 1163748000024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748000025 ABC transporter signature motif; other site 1163748000026 Walker B; other site 1163748000027 D-loop; other site 1163748000028 H-loop/switch region; other site 1163748000029 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1163748000030 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000031 Mg2+ binding site [ion binding]; other site 1163748000032 G-X-G motif; other site 1163748000033 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 1163748000034 anchoring element; other site 1163748000035 dimer interface [polypeptide binding]; other site 1163748000036 ATP binding site [chemical binding]; other site 1163748000037 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 1163748000038 active site 1163748000039 putative metal-binding site [ion binding]; other site 1163748000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163748000041 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1163748000042 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 1163748000043 inhibitor-cofactor binding pocket; inhibition site 1163748000044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748000045 catalytic residue [active] 1163748000046 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1163748000047 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748000048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748000049 Walker A/P-loop; other site 1163748000050 ATP binding site [chemical binding]; other site 1163748000051 Q-loop/lid; other site 1163748000052 ABC transporter signature motif; other site 1163748000053 Walker B; other site 1163748000054 D-loop; other site 1163748000055 H-loop/switch region; other site 1163748000056 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748000057 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1163748000058 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1163748000059 Walker A/P-loop; other site 1163748000060 ATP binding site [chemical binding]; other site 1163748000061 Q-loop/lid; other site 1163748000062 ABC transporter signature motif; other site 1163748000063 Walker B; other site 1163748000064 D-loop; other site 1163748000065 H-loop/switch region; other site 1163748000066 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1163748000067 AAA domain; Region: AAA_30; pfam13604 1163748000068 Family description; Region: UvrD_C_2; pfam13538 1163748000069 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1163748000070 Family description; Region: UvrD_C_2; pfam13538 1163748000071 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1163748000072 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1163748000073 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1163748000074 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1163748000075 DEAD_2; Region: DEAD_2; pfam06733 1163748000076 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1163748000077 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1163748000078 heme-binding site [chemical binding]; other site 1163748000079 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748000080 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748000081 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1163748000082 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163748000083 Walker A/P-loop; other site 1163748000084 ATP binding site [chemical binding]; other site 1163748000085 Q-loop/lid; other site 1163748000086 ABC transporter signature motif; other site 1163748000087 Walker B; other site 1163748000088 D-loop; other site 1163748000089 H-loop/switch region; other site 1163748000090 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163748000091 Walker A/P-loop; other site 1163748000092 ATP binding site [chemical binding]; other site 1163748000093 Q-loop/lid; other site 1163748000094 ABC transporter signature motif; other site 1163748000095 Walker B; other site 1163748000096 D-loop; other site 1163748000097 H-loop/switch region; other site 1163748000098 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163748000099 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163748000100 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1163748000101 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1163748000102 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163748000103 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163748000104 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 1163748000105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163748000106 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1163748000107 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1163748000108 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1163748000109 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1163748000110 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1163748000111 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1163748000112 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1163748000113 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163748000114 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 1163748000115 dimer interface [polypeptide binding]; other site 1163748000116 motif 1; other site 1163748000117 active site 1163748000118 motif 2; other site 1163748000119 motif 3; other site 1163748000120 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1163748000121 TrkA-N domain; Region: TrkA_N; pfam02254 1163748000122 TrkA-C domain; Region: TrkA_C; pfam02080 1163748000123 TrkA-N domain; Region: TrkA_N; pfam02254 1163748000124 TrkA-C domain; Region: TrkA_C; pfam02080 1163748000125 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 1163748000126 putative RNA binding site [nucleotide binding]; other site 1163748000127 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1163748000128 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 1163748000129 S-adenosylmethionine binding site [chemical binding]; other site 1163748000130 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1163748000131 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1163748000132 putative active site [active] 1163748000133 substrate binding site [chemical binding]; other site 1163748000134 putative cosubstrate binding site; other site 1163748000135 catalytic site [active] 1163748000136 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1163748000137 substrate binding site [chemical binding]; other site 1163748000138 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 1163748000139 active site 1163748000140 catalytic residues [active] 1163748000141 metal binding site [ion binding]; metal-binding site 1163748000142 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1163748000143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748000144 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1163748000145 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1163748000146 DNA protecting protein DprA; Region: dprA; TIGR00732 1163748000147 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1163748000148 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1163748000149 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1163748000150 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1163748000151 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1163748000152 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1163748000153 shikimate binding site; other site 1163748000154 NAD(P) binding site [chemical binding]; other site 1163748000155 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1163748000156 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163748000157 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1163748000158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748000159 ligand binding site [chemical binding]; other site 1163748000160 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1163748000161 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 1163748000162 trimer interface [polypeptide binding]; other site 1163748000163 putative metal binding site [ion binding]; other site 1163748000164 oligopeptidase A; Provisional; Region: PRK10911 1163748000165 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1163748000166 active site 1163748000167 Zn binding site [ion binding]; other site 1163748000168 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 1163748000169 Predicted permease [General function prediction only]; Region: COG2056 1163748000170 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1163748000171 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1163748000172 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748000173 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 1163748000174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000176 metal binding site [ion binding]; metal-binding site 1163748000177 active site 1163748000178 I-site; other site 1163748000179 DoxX; Region: DoxX; pfam07681 1163748000180 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1163748000181 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1163748000182 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1163748000183 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1163748000184 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1163748000185 Cytochrome c; Region: Cytochrom_C; cl11414 1163748000186 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748000187 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1163748000188 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 1163748000189 Subunit I/III interface [polypeptide binding]; other site 1163748000190 D-pathway; other site 1163748000191 Subunit I/VIIc interface [polypeptide binding]; other site 1163748000192 Subunit I/IV interface [polypeptide binding]; other site 1163748000193 Subunit I/II interface [polypeptide binding]; other site 1163748000194 Low-spin heme (heme a) binding site [chemical binding]; other site 1163748000195 Subunit I/VIIa interface [polypeptide binding]; other site 1163748000196 Subunit I/VIa interface [polypeptide binding]; other site 1163748000197 Dimer interface; other site 1163748000198 Putative water exit pathway; other site 1163748000199 Binuclear center (heme a3/CuB) [ion binding]; other site 1163748000200 K-pathway; other site 1163748000201 Subunit I/Vb interface [polypeptide binding]; other site 1163748000202 Putative proton exit pathway; other site 1163748000203 Subunit I/VIb interface; other site 1163748000204 Subunit I/VIc interface [polypeptide binding]; other site 1163748000205 Electron transfer pathway; other site 1163748000206 Subunit I/VIIIb interface [polypeptide binding]; other site 1163748000207 Subunit I/VIIb interface [polypeptide binding]; other site 1163748000208 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1163748000209 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 1163748000210 Subunit III/VIIa interface [polypeptide binding]; other site 1163748000211 Phospholipid binding site [chemical binding]; other site 1163748000212 Subunit I/III interface [polypeptide binding]; other site 1163748000213 Subunit III/VIb interface [polypeptide binding]; other site 1163748000214 Subunit III/VIa interface; other site 1163748000215 Subunit III/Vb interface [polypeptide binding]; other site 1163748000216 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1163748000217 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 1163748000218 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1163748000219 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1163748000220 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1163748000221 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163748000222 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1163748000223 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 1163748000224 Cu(I) binding site [ion binding]; other site 1163748000225 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 1163748000226 putative substrate translocation pore; other site 1163748000227 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1163748000228 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 1163748000229 ATP binding site [chemical binding]; other site 1163748000230 putative Mg++ binding site [ion binding]; other site 1163748000231 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 1163748000232 nucleotide binding region [chemical binding]; other site 1163748000233 ATP-binding site [chemical binding]; other site 1163748000234 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1163748000235 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1163748000236 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 1163748000237 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1163748000238 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163748000239 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1163748000240 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1163748000241 dimer interface [polypeptide binding]; other site 1163748000242 active site 1163748000243 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748000244 catalytic residues [active] 1163748000245 substrate binding site [chemical binding]; other site 1163748000246 cyanate transporter; Region: CynX; TIGR00896 1163748000247 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 1163748000248 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 1163748000249 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 1163748000250 G1 box; other site 1163748000251 GTP/Mg2+ binding site [chemical binding]; other site 1163748000252 G2 box; other site 1163748000253 Switch I region; other site 1163748000254 G3 box; other site 1163748000255 Switch II region; other site 1163748000256 G4 box; other site 1163748000257 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1163748000258 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1163748000259 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 1163748000260 PAS fold; Region: PAS_4; pfam08448 1163748000261 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 1163748000262 putative active site [active] 1163748000263 heme pocket [chemical binding]; other site 1163748000264 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1163748000265 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 1163748000266 Walker A motif; other site 1163748000267 ATP binding site [chemical binding]; other site 1163748000268 Walker B motif; other site 1163748000269 arginine finger; other site 1163748000270 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748000271 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1163748000272 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1163748000273 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1163748000274 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1163748000275 DctM-like transporters; Region: DctM; pfam06808 1163748000276 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1163748000277 classical (c) SDRs; Region: SDR_c; cd05233 1163748000278 NAD(P) binding site [chemical binding]; other site 1163748000279 active site 1163748000280 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1163748000281 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748000282 acyl-activating enzyme (AAE) consensus motif; other site 1163748000283 AMP binding site [chemical binding]; other site 1163748000284 active site 1163748000285 CoA binding site [chemical binding]; other site 1163748000286 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1163748000287 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1163748000288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1163748000289 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 1163748000290 putative deacylase active site [active] 1163748000291 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1163748000292 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 1163748000293 dimer interface [polypeptide binding]; other site 1163748000294 active site 1163748000295 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748000296 substrate binding site [chemical binding]; other site 1163748000297 catalytic residue [active] 1163748000298 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1163748000299 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748000300 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1163748000301 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1163748000302 PAS domain; Region: PAS_9; pfam13426 1163748000303 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 1163748000304 putative active site [active] 1163748000305 heme pocket [chemical binding]; other site 1163748000306 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000308 metal binding site [ion binding]; metal-binding site 1163748000309 active site 1163748000310 I-site; other site 1163748000311 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163748000312 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163748000313 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748000314 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748000315 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163748000316 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 1163748000317 putative active site [active] 1163748000318 heme pocket [chemical binding]; other site 1163748000319 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 1163748000320 dimer interface [polypeptide binding]; other site 1163748000321 phosphorylation site [posttranslational modification] 1163748000322 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000323 ATP binding site [chemical binding]; other site 1163748000324 Mg2+ binding site [ion binding]; other site 1163748000325 G-X-G motif; other site 1163748000326 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748000327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000328 active site 1163748000329 phosphorylation site [posttranslational modification] 1163748000330 intermolecular recognition site; other site 1163748000331 dimerization interface [polypeptide binding]; other site 1163748000332 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748000333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000334 active site 1163748000335 phosphorylation site [posttranslational modification] 1163748000336 intermolecular recognition site; other site 1163748000337 dimerization interface [polypeptide binding]; other site 1163748000338 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748000339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000340 active site 1163748000341 phosphorylation site [posttranslational modification] 1163748000342 intermolecular recognition site; other site 1163748000343 dimerization interface [polypeptide binding]; other site 1163748000344 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1163748000345 active site 1163748000346 catalytic site [active] 1163748000347 substrate binding site [chemical binding]; other site 1163748000348 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 1163748000349 Ligand Binding Site [chemical binding]; other site 1163748000350 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1163748000351 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1163748000352 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748000353 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748000354 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748000355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748000356 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 1163748000357 generic binding surface II; other site 1163748000358 generic binding surface I; other site 1163748000359 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1163748000360 putative active site [active] 1163748000361 putative catalytic site [active] 1163748000362 putative Mg binding site IVb [ion binding]; other site 1163748000363 putative phosphate binding site [ion binding]; other site 1163748000364 putative DNA binding site [nucleotide binding]; other site 1163748000365 putative Mg binding site IVa [ion binding]; other site 1163748000366 Predicted transcriptional regulator [Transcription]; Region: COG2378 1163748000367 WYL domain; Region: WYL; pfam13280 1163748000368 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 1163748000369 putative substrate translocation pore; other site 1163748000370 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163748000371 MarR family; Region: MarR_2; pfam12802 1163748000372 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 1163748000373 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163748000374 putative substrate translocation pore; other site 1163748000375 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 1163748000376 Predicted membrane protein [Function unknown]; Region: COG2119 1163748000377 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1163748000378 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1163748000379 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748000380 short chain dehydrogenase; Provisional; Region: PRK08251 1163748000381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748000382 NAD(P) binding site [chemical binding]; other site 1163748000383 active site 1163748000384 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1163748000385 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1163748000386 dimer interface [polypeptide binding]; other site 1163748000387 active site residues [active] 1163748000388 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1163748000389 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1163748000390 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1163748000391 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748000392 potassium/proton antiporter; Reviewed; Region: PRK05326 1163748000393 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1163748000394 TrkA-C domain; Region: TrkA_C; pfam02080 1163748000395 Transporter associated domain; Region: CorC_HlyC; smart01091 1163748000396 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1163748000397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000398 ATP binding site [chemical binding]; other site 1163748000399 Mg2+ binding site [ion binding]; other site 1163748000400 G-X-G motif; other site 1163748000401 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748000402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000403 active site 1163748000404 phosphorylation site [posttranslational modification] 1163748000405 intermolecular recognition site; other site 1163748000406 dimerization interface [polypeptide binding]; other site 1163748000407 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 1163748000408 DNA binding site [nucleotide binding] 1163748000409 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1163748000410 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1163748000411 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1163748000412 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1163748000413 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1163748000414 amino acid transporter; Region: 2A0306; TIGR00909 1163748000415 Uncharacterized conserved protein [Function unknown]; Region: COG3350 1163748000416 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1163748000417 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163748000418 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 1163748000419 motif II; other site 1163748000420 Outer membrane efflux protein; Region: OEP; pfam02321 1163748000421 Outer membrane efflux protein; Region: OEP; pfam02321 1163748000422 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1163748000423 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748000424 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 1163748000425 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163748000426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748000427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748000428 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 1163748000429 putative effector binding pocket; other site 1163748000430 dimerization interface [polypeptide binding]; other site 1163748000431 Predicted membrane protein [Function unknown]; Region: COG2259 1163748000432 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 1163748000433 putative active site [active] 1163748000434 metal binding site [ion binding]; metal-binding site 1163748000435 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1163748000436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748000437 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1163748000438 substrate binding site [chemical binding]; other site 1163748000439 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163748000440 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748000441 putative active site [active] 1163748000442 putative metal binding site [ion binding]; other site 1163748000443 Domain of unknown function DUF302; Region: DUF302; cl01364 1163748000444 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748000445 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1163748000446 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1163748000447 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1163748000448 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 1163748000449 motif II; other site 1163748000450 Putative zinc-finger; Region: zf-HC2; pfam13490 1163748000451 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1163748000452 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748000453 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 1163748000454 DNA binding residues [nucleotide binding] 1163748000455 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1163748000456 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1163748000457 mercuric reductase; Validated; Region: PRK06370 1163748000458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748000459 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748000460 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1163748000461 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 1163748000462 FeS/SAM binding site; other site 1163748000463 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1163748000464 Na binding site [ion binding]; other site 1163748000465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748000466 Coenzyme A binding pocket [chemical binding]; other site 1163748000467 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1163748000468 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 1163748000469 inhibitor-cofactor binding pocket; inhibition site 1163748000470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748000471 catalytic residue [active] 1163748000472 aspartate kinase; Validated; Region: PRK09181 1163748000473 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 1163748000474 putative catalytic residues [active] 1163748000475 putative nucleotide binding site [chemical binding]; other site 1163748000476 putative aspartate binding site [chemical binding]; other site 1163748000477 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 1163748000478 allosteric regulatory residue; other site 1163748000479 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 1163748000480 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 1163748000481 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748000482 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163748000483 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 1163748000484 DNA binding residues [nucleotide binding] 1163748000485 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1163748000486 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1163748000487 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1163748000488 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1163748000489 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1163748000490 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1163748000491 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1163748000492 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1163748000493 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1163748000494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748000495 Zn2+ binding site [ion binding]; other site 1163748000496 Mg2+ binding site [ion binding]; other site 1163748000497 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163748000498 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1163748000499 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1163748000500 NADP binding site [chemical binding]; other site 1163748000501 active site 1163748000502 steroid binding site; other site 1163748000503 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000504 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000505 metal binding site [ion binding]; metal-binding site 1163748000506 active site 1163748000507 I-site; other site 1163748000508 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1163748000509 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 1163748000510 putative active site [active] 1163748000511 putative dimer interface [polypeptide binding]; other site 1163748000512 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1163748000513 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1163748000514 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 1163748000515 DNA binding residues [nucleotide binding] 1163748000516 dimerization interface [polypeptide binding]; other site 1163748000517 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1163748000518 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1163748000519 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748000520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748000521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748000522 TM2 domain; Region: TM2; cl00984 1163748000523 TM2 domain; Region: TM2; cl00984 1163748000524 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1163748000525 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1163748000526 H+ Antiporter protein; Region: 2A0121; TIGR00900 1163748000527 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 1163748000528 putative substrate translocation pore; other site 1163748000529 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748000530 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163748000531 putative acyl-acceptor binding pocket; other site 1163748000532 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 1163748000533 putative FMN binding site [chemical binding]; other site 1163748000534 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 1163748000535 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1163748000536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748000537 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1163748000538 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1163748000539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1163748000540 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748000541 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748000542 Nitrate and nitrite sensing; Region: NIT; pfam08376 1163748000543 ANTAR domain; Region: ANTAR; pfam03861 1163748000544 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1163748000545 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1163748000546 Walker A/P-loop; other site 1163748000547 ATP binding site [chemical binding]; other site 1163748000548 Q-loop/lid; other site 1163748000549 ABC transporter signature motif; other site 1163748000550 Walker B; other site 1163748000551 D-loop; other site 1163748000552 H-loop/switch region; other site 1163748000553 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1163748000554 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 1163748000555 dimer interface [polypeptide binding]; other site 1163748000556 conserved gate region; other site 1163748000557 putative PBP binding loops; other site 1163748000558 ABC-ATPase subunit interface; other site 1163748000559 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1163748000560 NMT1-like family; Region: NMT1_2; pfam13379 1163748000561 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1163748000562 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 1163748000563 molybdopterin cofactor binding site; other site 1163748000564 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 1163748000565 molybdopterin cofactor binding site; other site 1163748000566 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1163748000567 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1163748000568 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1163748000569 active site 1163748000570 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1163748000571 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1163748000572 active site 1163748000573 ATP binding site [chemical binding]; other site 1163748000574 substrate binding site [chemical binding]; other site 1163748000575 activation loop (A-loop); other site 1163748000576 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1163748000577 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748000578 Cache domain; Region: Cache_1; pfam02743 1163748000579 HAMP domain; Region: HAMP; pfam00672 1163748000580 PAS domain S-box; Region: sensory_box; TIGR00229 1163748000581 PAS domain; Region: PAS; smart00091 1163748000582 putative active site [active] 1163748000583 heme pocket [chemical binding]; other site 1163748000584 PAS domain; Region: PAS; smart00091 1163748000585 PAS fold; Region: PAS; pfam00989 1163748000586 putative active site [active] 1163748000587 heme pocket [chemical binding]; other site 1163748000588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000590 metal binding site [ion binding]; metal-binding site 1163748000591 active site 1163748000592 I-site; other site 1163748000593 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163748000594 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1163748000595 Amidase; Region: Amidase; pfam01425 1163748000596 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748000597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000598 active site 1163748000599 phosphorylation site [posttranslational modification] 1163748000600 intermolecular recognition site; other site 1163748000601 dimerization interface [polypeptide binding]; other site 1163748000602 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163748000603 GAF domain; Region: GAF; cl17456 1163748000604 PAS domain; Region: PAS_9; pfam13426 1163748000605 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 1163748000606 putative active site [active] 1163748000607 heme pocket [chemical binding]; other site 1163748000608 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000609 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000610 metal binding site [ion binding]; metal-binding site 1163748000611 active site 1163748000612 I-site; other site 1163748000613 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 1163748000614 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748000615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000616 active site 1163748000617 phosphorylation site [posttranslational modification] 1163748000618 intermolecular recognition site; other site 1163748000619 dimerization interface [polypeptide binding]; other site 1163748000620 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 1163748000621 PAS domain; Region: PAS_9; pfam13426 1163748000622 putative active site [active] 1163748000623 heme pocket [chemical binding]; other site 1163748000624 PAS domain S-box; Region: sensory_box; TIGR00229 1163748000625 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 1163748000626 putative active site [active] 1163748000627 heme pocket [chemical binding]; other site 1163748000628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748000629 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 1163748000630 dimer interface [polypeptide binding]; other site 1163748000631 phosphorylation site [posttranslational modification] 1163748000632 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 1163748000633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000634 ATP binding site [chemical binding]; other site 1163748000635 Mg2+ binding site [ion binding]; other site 1163748000636 G-X-G motif; other site 1163748000637 HDOD domain; Region: HDOD; pfam08668 1163748000638 GAF domain; Region: GAF; cl17456 1163748000639 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1163748000640 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1163748000641 Walker A/P-loop; other site 1163748000642 ATP binding site [chemical binding]; other site 1163748000643 Q-loop/lid; other site 1163748000644 ABC transporter signature motif; other site 1163748000645 Walker B; other site 1163748000646 D-loop; other site 1163748000647 H-loop/switch region; other site 1163748000648 NIL domain; Region: NIL; pfam09383 1163748000649 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 1163748000650 dimer interface [polypeptide binding]; other site 1163748000651 conserved gate region; other site 1163748000652 ABC-ATPase subunit interface; other site 1163748000653 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1163748000654 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1163748000655 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163748000656 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1163748000657 dimer interface [polypeptide binding]; other site 1163748000658 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1163748000659 catalytic triad [active] 1163748000660 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163748000661 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1163748000662 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 1163748000663 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1163748000664 S-formylglutathione hydrolase; Region: PLN02442 1163748000665 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1163748000666 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748000667 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000669 metal binding site [ion binding]; metal-binding site 1163748000670 active site 1163748000671 I-site; other site 1163748000672 multidrug efflux protein; Reviewed; Region: PRK01766 1163748000673 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1163748000674 cation binding site [ion binding]; other site 1163748000675 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1163748000676 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 1163748000677 PAS fold; Region: PAS_3; pfam08447 1163748000678 putative active site [active] 1163748000679 heme pocket [chemical binding]; other site 1163748000680 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748000681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748000682 dimer interface [polypeptide binding]; other site 1163748000683 putative CheW interface [polypeptide binding]; other site 1163748000684 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163748000685 Na2 binding site [ion binding]; other site 1163748000686 putative substrate binding site 1 [chemical binding]; other site 1163748000687 Na binding site 1 [ion binding]; other site 1163748000688 putative substrate binding site 2 [chemical binding]; other site 1163748000689 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1163748000690 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1163748000691 active site 1163748000692 catalytic site [active] 1163748000693 substrate binding site [chemical binding]; other site 1163748000694 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1163748000695 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 1163748000696 ligand binding site [chemical binding]; other site 1163748000697 flexible hinge region; other site 1163748000698 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 1163748000699 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163748000700 metal binding triad; other site 1163748000701 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1163748000702 homotrimer interface [polypeptide binding]; other site 1163748000703 Walker A motif; other site 1163748000704 GTP binding site [chemical binding]; other site 1163748000705 Walker B motif; other site 1163748000706 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 1163748000707 catalytic core [active] 1163748000708 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1163748000709 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1163748000710 putative dimer interface [polypeptide binding]; other site 1163748000711 active site pocket [active] 1163748000712 putative cataytic base [active] 1163748000713 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1163748000714 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 1163748000715 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1163748000716 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748000717 catalytic residue [active] 1163748000718 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1163748000719 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 1163748000720 N-terminal plug; other site 1163748000721 ligand-binding site [chemical binding]; other site 1163748000722 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1163748000723 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 1163748000724 cobalamin binding residues [chemical binding]; other site 1163748000725 putative BtuC binding residues; other site 1163748000726 dimer interface [polypeptide binding]; other site 1163748000727 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163748000728 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 1163748000729 dimer interface [polypeptide binding]; other site 1163748000730 putative PBP binding regions; other site 1163748000731 ABC-ATPase subunit interface; other site 1163748000732 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1163748000733 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163748000734 Walker A/P-loop; other site 1163748000735 ATP binding site [chemical binding]; other site 1163748000736 Q-loop/lid; other site 1163748000737 ABC transporter signature motif; other site 1163748000738 Walker B; other site 1163748000739 D-loop; other site 1163748000740 H-loop/switch region; other site 1163748000741 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1163748000742 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 1163748000743 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1163748000744 catalytic triad [active] 1163748000745 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1163748000746 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1163748000747 homodimer interface [polypeptide binding]; other site 1163748000748 Walker A motif; other site 1163748000749 ATP binding site [chemical binding]; other site 1163748000750 hydroxycobalamin binding site [chemical binding]; other site 1163748000751 Walker B motif; other site 1163748000752 cobyric acid synthase; Provisional; Region: PRK00784 1163748000753 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1163748000754 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1163748000755 catalytic triad [active] 1163748000756 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1163748000757 putative FMN binding site [chemical binding]; other site 1163748000758 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 1163748000759 dimerization interface [polypeptide binding]; other site 1163748000760 putative DNA binding site [nucleotide binding]; other site 1163748000761 putative Zn2+ binding site [ion binding]; other site 1163748000762 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1163748000763 active site 1163748000764 NTP binding site [chemical binding]; other site 1163748000765 metal binding triad [ion binding]; metal-binding site 1163748000766 antibiotic binding site [chemical binding]; other site 1163748000767 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1163748000768 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1163748000769 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1163748000770 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1163748000771 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1163748000772 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1163748000773 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1163748000774 Ligand binding site; other site 1163748000775 Putative Catalytic site; other site 1163748000776 DXD motif; other site 1163748000777 sensor protein QseC; Provisional; Region: PRK10337 1163748000778 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 1163748000779 dimer interface [polypeptide binding]; other site 1163748000780 phosphorylation site [posttranslational modification] 1163748000781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000782 ATP binding site [chemical binding]; other site 1163748000783 Mg2+ binding site [ion binding]; other site 1163748000784 G-X-G motif; other site 1163748000785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748000786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000787 active site 1163748000788 phosphorylation site [posttranslational modification] 1163748000789 intermolecular recognition site; other site 1163748000790 dimerization interface [polypeptide binding]; other site 1163748000791 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 1163748000792 DNA binding site [nucleotide binding] 1163748000793 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1163748000794 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1163748000795 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1163748000796 Putative Catalytic site; other site 1163748000797 DXD motif; other site 1163748000798 GtrA-like protein; Region: GtrA; pfam04138 1163748000799 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1163748000800 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1163748000801 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1163748000802 acyl-activating enzyme (AAE) consensus motif; other site 1163748000803 putative AMP binding site [chemical binding]; other site 1163748000804 putative active site [active] 1163748000805 putative CoA binding site [chemical binding]; other site 1163748000806 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 1163748000807 heme binding pocket [chemical binding]; other site 1163748000808 heme ligand [chemical binding]; other site 1163748000809 short chain dehydrogenase; Provisional; Region: PRK09072 1163748000810 classical (c) SDRs; Region: SDR_c; cd05233 1163748000811 NAD(P) binding site [chemical binding]; other site 1163748000812 active site 1163748000813 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 1163748000814 TPR motif; other site 1163748000815 binding surface 1163748000816 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 1163748000817 PAS fold; Region: PAS_3; pfam08447 1163748000818 putative active site [active] 1163748000819 heme pocket [chemical binding]; other site 1163748000820 GAF domain; Region: GAF; pfam01590 1163748000821 GAF domain; Region: GAF_2; pfam13185 1163748000822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000824 metal binding site [ion binding]; metal-binding site 1163748000825 active site 1163748000826 I-site; other site 1163748000827 Protein of unknown function (DUF3091); Region: DUF3091; pfam11291 1163748000828 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1163748000829 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1163748000830 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1163748000831 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163748000832 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 1163748000833 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1163748000834 Predicted membrane protein [Function unknown]; Region: COG3235 1163748000835 PAS domain; Region: PAS_9; pfam13426 1163748000836 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 1163748000837 putative active site [active] 1163748000838 heme pocket [chemical binding]; other site 1163748000839 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 1163748000840 PAS domain; Region: PAS_9; pfam13426 1163748000841 putative active site [active] 1163748000842 heme pocket [chemical binding]; other site 1163748000843 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000844 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000845 metal binding site [ion binding]; metal-binding site 1163748000846 active site 1163748000847 I-site; other site 1163748000848 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 1163748000849 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1163748000850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748000851 active site 1163748000852 phosphorylation site [posttranslational modification] 1163748000853 intermolecular recognition site; other site 1163748000854 dimerization interface [polypeptide binding]; other site 1163748000855 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748000856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748000857 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748000858 ATP binding site [chemical binding]; other site 1163748000859 G-X-G motif; other site 1163748000860 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163748000861 glutamate dehydrogenase; Provisional; Region: PRK09414 1163748000862 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1163748000863 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1163748000864 NAD(P) binding site [chemical binding]; other site 1163748000865 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 1163748000866 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1163748000867 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748000868 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748000869 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748000870 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748000871 Protein export membrane protein; Region: SecD_SecF; cl14618 1163748000872 Ion channel; Region: Ion_trans_2; pfam07885 1163748000873 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748000874 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748000875 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748000876 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748000877 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163748000878 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748000879 Walker A/P-loop; other site 1163748000880 ATP binding site [chemical binding]; other site 1163748000881 Q-loop/lid; other site 1163748000882 ABC transporter signature motif; other site 1163748000883 Walker B; other site 1163748000884 D-loop; other site 1163748000885 H-loop/switch region; other site 1163748000886 FtsX-like permease family; Region: FtsX; pfam02687 1163748000887 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 1163748000888 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1163748000889 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1163748000890 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1163748000891 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748000892 ligand binding site [chemical binding]; other site 1163748000893 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1163748000894 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1163748000895 DTW domain; Region: DTW; cl01221 1163748000896 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1163748000897 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748000898 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1163748000899 DNA photolyase; Region: DNA_photolyase; pfam00875 1163748000900 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 1163748000901 PAS domain; Region: PAS_9; pfam13426 1163748000902 putative active site [active] 1163748000903 heme pocket [chemical binding]; other site 1163748000904 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 1163748000905 PAS domain; Region: PAS_9; pfam13426 1163748000906 putative active site [active] 1163748000907 heme pocket [chemical binding]; other site 1163748000908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748000909 dimer interface [polypeptide binding]; other site 1163748000910 putative CheW interface [polypeptide binding]; other site 1163748000911 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1163748000912 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1163748000913 substrate binding site [chemical binding]; other site 1163748000914 catalytic Zn binding site [ion binding]; other site 1163748000915 NAD binding site [chemical binding]; other site 1163748000916 structural Zn binding site [ion binding]; other site 1163748000917 dimer interface [polypeptide binding]; other site 1163748000918 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1163748000919 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1163748000920 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 1163748000921 dimer interface [polypeptide binding]; other site 1163748000922 active site 1163748000923 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1163748000924 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1163748000925 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1163748000926 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1163748000927 Bacterial transcriptional regulator; Region: IclR; pfam01614 1163748000928 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1163748000929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748000930 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 1163748000931 dimerization interface [polypeptide binding]; other site 1163748000932 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1163748000933 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1163748000934 octamer interface [polypeptide binding]; other site 1163748000935 active site 1163748000936 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1163748000937 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1163748000938 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 1163748000939 dimer interface [polypeptide binding]; other site 1163748000940 active site 1163748000941 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1163748000942 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 1163748000943 iron-sulfur cluster [ion binding]; other site 1163748000944 [2Fe-2S] cluster binding site [ion binding]; other site 1163748000945 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 1163748000946 putative alpha subunit interface [polypeptide binding]; other site 1163748000947 putative active site [active] 1163748000948 putative substrate binding site [chemical binding]; other site 1163748000949 Fe binding site [ion binding]; other site 1163748000950 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 1163748000951 inter-subunit interface; other site 1163748000952 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1163748000953 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 1163748000954 catalytic loop [active] 1163748000955 iron binding site [ion binding]; other site 1163748000956 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 1163748000957 FAD binding pocket [chemical binding]; other site 1163748000958 FAD binding motif [chemical binding]; other site 1163748000959 phosphate binding motif [ion binding]; other site 1163748000960 beta-alpha-beta structure motif; other site 1163748000961 NAD binding pocket [chemical binding]; other site 1163748000962 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1163748000963 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1163748000964 putative NAD(P) binding site [chemical binding]; other site 1163748000965 active site 1163748000966 benzoate transport; Region: 2A0115; TIGR00895 1163748000967 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 1163748000968 putative substrate translocation pore; other site 1163748000969 Benzoate membrane transport protein; Region: BenE; pfam03594 1163748000970 benzoate transporter; Region: benE; TIGR00843 1163748000971 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1163748000972 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1163748000973 potential catalytic triad [active] 1163748000974 conserved cys residue [active] 1163748000975 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748000976 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 1163748000977 substrate binding pocket [chemical binding]; other site 1163748000978 membrane-bound complex binding site; other site 1163748000979 hinge residues; other site 1163748000980 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 1163748000981 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1163748000982 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 1163748000983 CoenzymeA binding site [chemical binding]; other site 1163748000984 subunit interaction site [polypeptide binding]; other site 1163748000985 PHB binding site; other site 1163748000986 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 1163748000987 substrate binding pocket [chemical binding]; other site 1163748000988 membrane-bound complex binding site; other site 1163748000989 hinge residues; other site 1163748000990 PAS domain; Region: PAS_9; pfam13426 1163748000991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748000992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748000993 metal binding site [ion binding]; metal-binding site 1163748000994 active site 1163748000995 I-site; other site 1163748000996 hypothetical protein; Provisional; Region: PRK01617 1163748000997 SEC-C motif; Region: SEC-C; pfam02810 1163748000998 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1163748000999 active site residue [active] 1163748001000 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1163748001001 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1163748001002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748001003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748001004 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 1163748001005 dimerization interface [polypeptide binding]; other site 1163748001006 Cation efflux family; Region: Cation_efflux; cl00316 1163748001007 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 1163748001008 catalytic core [active] 1163748001009 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1163748001010 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 1163748001011 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 1163748001012 dimerization interface [polypeptide binding]; other site 1163748001013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748001014 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748001015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748001016 dimer interface [polypeptide binding]; other site 1163748001017 putative CheW interface [polypeptide binding]; other site 1163748001018 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1163748001019 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1163748001020 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1163748001021 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1163748001022 Walker A/P-loop; other site 1163748001023 ATP binding site [chemical binding]; other site 1163748001024 Q-loop/lid; other site 1163748001025 ABC transporter signature motif; other site 1163748001026 Walker B; other site 1163748001027 D-loop; other site 1163748001028 H-loop/switch region; other site 1163748001029 TOBE domain; Region: TOBE_2; pfam08402 1163748001030 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 1163748001031 dimer interface [polypeptide binding]; other site 1163748001032 conserved gate region; other site 1163748001033 putative PBP binding loops; other site 1163748001034 ABC-ATPase subunit interface; other site 1163748001035 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1163748001036 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 1163748001037 dimer interface [polypeptide binding]; other site 1163748001038 conserved gate region; other site 1163748001039 putative PBP binding loops; other site 1163748001040 ABC-ATPase subunit interface; other site 1163748001041 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1163748001042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748001043 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1163748001044 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748001045 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1163748001046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748001047 Walker A/P-loop; other site 1163748001048 ATP binding site [chemical binding]; other site 1163748001049 Q-loop/lid; other site 1163748001050 ABC transporter signature motif; other site 1163748001051 Walker B; other site 1163748001052 D-loop; other site 1163748001053 H-loop/switch region; other site 1163748001054 TOBE domain; Region: TOBE_2; pfam08402 1163748001055 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 1163748001056 dimer interface [polypeptide binding]; other site 1163748001057 conserved gate region; other site 1163748001058 putative PBP binding loops; other site 1163748001059 ABC-ATPase subunit interface; other site 1163748001060 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1163748001061 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 1163748001062 dimer interface [polypeptide binding]; other site 1163748001063 conserved gate region; other site 1163748001064 putative PBP binding loops; other site 1163748001065 ABC-ATPase subunit interface; other site 1163748001066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748001067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748001068 metal binding site [ion binding]; metal-binding site 1163748001069 active site 1163748001070 I-site; other site 1163748001071 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163748001072 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1163748001073 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 1163748001074 Ligand Binding Site [chemical binding]; other site 1163748001075 DctM-like transporters; Region: DctM; pfam06808 1163748001076 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1163748001077 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1163748001078 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1163748001079 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1163748001080 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163748001081 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1163748001082 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1163748001083 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1163748001084 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 1163748001085 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 1163748001086 active site 1163748001087 metal binding site [ion binding]; metal-binding site 1163748001088 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1163748001089 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1163748001090 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 1163748001091 generic binding surface II; other site 1163748001092 generic binding surface I; other site 1163748001093 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1163748001094 putative active site [active] 1163748001095 putative catalytic site [active] 1163748001096 putative Mg binding site IVb [ion binding]; other site 1163748001097 putative phosphate binding site [ion binding]; other site 1163748001098 putative DNA binding site [nucleotide binding]; other site 1163748001099 putative Mg binding site IVa [ion binding]; other site 1163748001100 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 1163748001101 catalytic residues [active] 1163748001102 dimer interface [polypeptide binding]; other site 1163748001103 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163748001104 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163748001105 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163748001106 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 1163748001107 S-adenosylmethionine binding site [chemical binding]; other site 1163748001108 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1163748001109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748001110 DNA-binding site [nucleotide binding]; DNA binding site 1163748001111 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1163748001112 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1163748001113 L-lactate permease; Region: Lactate_perm; cl00701 1163748001114 Cysteine-rich domain; Region: CCG; pfam02754 1163748001115 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163748001116 Cysteine-rich domain; Region: CCG; pfam02754 1163748001117 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1163748001118 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1163748001119 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 1163748001120 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1163748001121 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1163748001122 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1163748001123 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1163748001124 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1163748001125 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1163748001126 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1163748001127 ligand binding site [chemical binding]; other site 1163748001128 homodimer interface [polypeptide binding]; other site 1163748001129 NAD(P) binding site [chemical binding]; other site 1163748001130 trimer interface B [polypeptide binding]; other site 1163748001131 trimer interface A [polypeptide binding]; other site 1163748001132 malate:quinone oxidoreductase; Validated; Region: PRK05257 1163748001133 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1163748001134 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1163748001135 dimer interface [polypeptide binding]; other site 1163748001136 FMN binding site [chemical binding]; other site 1163748001137 NADPH bind site [chemical binding]; other site 1163748001138 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1163748001139 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1163748001140 active site residue [active] 1163748001141 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1163748001142 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1163748001143 gating phenylalanine in ion channel; other site 1163748001144 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 1163748001145 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 1163748001146 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1163748001147 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 1163748001148 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1163748001149 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1163748001150 Putative phosphatase (DUF442); Region: DUF442; cl17385 1163748001151 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748001152 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163748001153 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1163748001154 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 1163748001155 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1163748001156 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163748001157 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 1163748001158 S-adenosylmethionine binding site [chemical binding]; other site 1163748001159 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1163748001160 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1163748001161 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163748001162 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1163748001163 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 1163748001164 S-adenosylmethionine binding site [chemical binding]; other site 1163748001165 PAS domain; Region: PAS_9; pfam13426 1163748001166 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 1163748001167 putative active site [active] 1163748001168 heme pocket [chemical binding]; other site 1163748001169 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748001170 dimer interface [polypeptide binding]; other site 1163748001171 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1163748001172 putative CheW interface [polypeptide binding]; other site 1163748001173 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1163748001174 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163748001175 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 1163748001176 ATP binding site [chemical binding]; other site 1163748001177 putative Mg++ binding site [ion binding]; other site 1163748001178 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1163748001179 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1163748001180 Fic/DOC family; Region: Fic; pfam02661 1163748001181 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 1163748001182 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163748001183 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163748001184 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1163748001185 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163748001186 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163748001187 YaeQ protein; Region: YaeQ; pfam07152 1163748001188 LrgA family; Region: LrgA; pfam03788 1163748001189 LrgB-like family; Region: LrgB; pfam04172 1163748001190 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_2; cd08498 1163748001191 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1163748001192 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1163748001193 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 1163748001194 dimer interface [polypeptide binding]; other site 1163748001195 conserved gate region; other site 1163748001196 putative PBP binding loops; other site 1163748001197 ABC-ATPase subunit interface; other site 1163748001198 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1163748001199 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 1163748001200 dimer interface [polypeptide binding]; other site 1163748001201 conserved gate region; other site 1163748001202 putative PBP binding loops; other site 1163748001203 ABC-ATPase subunit interface; other site 1163748001204 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1163748001205 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163748001206 Walker A/P-loop; other site 1163748001207 ATP binding site [chemical binding]; other site 1163748001208 Q-loop/lid; other site 1163748001209 ABC transporter signature motif; other site 1163748001210 Walker B; other site 1163748001211 D-loop; other site 1163748001212 H-loop/switch region; other site 1163748001213 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1163748001214 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1163748001215 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163748001216 Walker A/P-loop; other site 1163748001217 ATP binding site [chemical binding]; other site 1163748001218 Q-loop/lid; other site 1163748001219 ABC transporter signature motif; other site 1163748001220 Walker B; other site 1163748001221 D-loop; other site 1163748001222 H-loop/switch region; other site 1163748001223 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1163748001224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748001225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748001226 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1163748001227 proline dipeptidase; Provisional; Region: PRK13607 1163748001228 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 1163748001229 active site 1163748001230 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1163748001231 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1163748001232 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1163748001233 heme binding site [chemical binding]; other site 1163748001234 ferroxidase pore; other site 1163748001235 ferroxidase diiron center [ion binding]; other site 1163748001236 phosphomannomutase CpsG; Provisional; Region: PRK15414 1163748001237 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 1163748001238 active site 1163748001239 substrate binding site [chemical binding]; other site 1163748001240 metal binding site [ion binding]; metal-binding site 1163748001241 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 1163748001242 substrate binding site [chemical binding]; other site 1163748001243 dimerization interface [polypeptide binding]; other site 1163748001244 active site 1163748001245 calcium binding site [ion binding]; other site 1163748001246 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1163748001247 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1163748001248 Part of AAA domain; Region: AAA_19; pfam13245 1163748001249 Family description; Region: UvrD_C_2; pfam13538 1163748001250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748001251 metal binding site [ion binding]; metal-binding site 1163748001252 active site 1163748001253 I-site; other site 1163748001254 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 1163748001255 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1163748001256 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1163748001257 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1163748001258 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 1163748001259 RNA binding site [nucleotide binding]; other site 1163748001260 glutamate--cysteine ligase; Provisional; Region: PRK02107 1163748001261 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1163748001262 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1163748001263 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 1163748001264 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1163748001265 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1163748001266 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748001267 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1163748001268 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1163748001269 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748001270 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748001271 ABC transporter; Region: ABC_tran_2; pfam12848 1163748001272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748001273 Orthopoxvirus A5L protein-like; Region: Orthopox_A5L; cl17688 1163748001274 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1163748001275 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1163748001276 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 1163748001277 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163748001278 catalytic residues [active] 1163748001279 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1163748001280 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1163748001281 GTP binding site; other site 1163748001282 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 1163748001283 MoaE homodimer interface [polypeptide binding]; other site 1163748001284 MoaD interaction [polypeptide binding]; other site 1163748001285 active site residues [active] 1163748001286 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1163748001287 MoaE interaction surface [polypeptide binding]; other site 1163748001288 MoeB interaction surface [polypeptide binding]; other site 1163748001289 thiocarboxylated glycine; other site 1163748001290 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1163748001291 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1163748001292 dimer interface [polypeptide binding]; other site 1163748001293 putative functional site; other site 1163748001294 putative MPT binding site; other site 1163748001295 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 1163748001296 MPT binding site; other site 1163748001297 trimer interface [polypeptide binding]; other site 1163748001298 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1163748001299 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1163748001300 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 1163748001301 RNA binding site [nucleotide binding]; other site 1163748001302 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 1163748001303 multimer interface [polypeptide binding]; other site 1163748001304 Walker A motif; other site 1163748001305 ATP binding site [chemical binding]; other site 1163748001306 Walker B motif; other site 1163748001307 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1163748001308 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1163748001309 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1163748001310 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 1163748001311 FAD binding pocket [chemical binding]; other site 1163748001312 FAD binding motif [chemical binding]; other site 1163748001313 phosphate binding motif [ion binding]; other site 1163748001314 beta-alpha-beta structure motif; other site 1163748001315 NAD binding pocket [chemical binding]; other site 1163748001316 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1163748001317 HemY protein N-terminus; Region: HemY_N; pfam07219 1163748001318 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1163748001319 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 1163748001320 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1163748001321 active site 1163748001322 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1163748001323 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 1163748001324 domain interfaces; other site 1163748001325 active site 1163748001326 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1163748001327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748001328 active site 1163748001329 phosphorylation site [posttranslational modification] 1163748001330 intermolecular recognition site; other site 1163748001331 dimerization interface [polypeptide binding]; other site 1163748001332 LytTr DNA-binding domain; Region: LytTR; smart00850 1163748001333 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1163748001334 Histidine kinase; Region: His_kinase; pfam06580 1163748001335 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1163748001336 argininosuccinate lyase; Provisional; Region: PRK00855 1163748001337 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1163748001338 active sites [active] 1163748001339 tetramer interface [polypeptide binding]; other site 1163748001340 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1163748001341 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1163748001342 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 1163748001343 PAS domain; Region: PAS_9; pfam13426 1163748001344 putative active site [active] 1163748001345 heme pocket [chemical binding]; other site 1163748001346 PAS domain; Region: PAS_9; pfam13426 1163748001347 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748001348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748001349 metal binding site [ion binding]; metal-binding site 1163748001350 active site 1163748001351 I-site; other site 1163748001352 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 1163748001353 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1163748001354 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1163748001355 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1163748001356 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1163748001357 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1163748001358 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1163748001359 active site 1163748001360 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748001361 substrate binding site [chemical binding]; other site 1163748001362 catalytic residues [active] 1163748001363 dimer interface [polypeptide binding]; other site 1163748001364 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163748001365 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1163748001366 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163748001367 Protein of unknown function, DUF484; Region: DUF484; cl17449 1163748001368 GAF domain; Region: GAF_2; pfam13185 1163748001369 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1163748001370 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 1163748001371 active site 1163748001372 Int/Topo IB signature motif; other site 1163748001373 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748001374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748001375 metal binding site [ion binding]; metal-binding site 1163748001376 active site 1163748001377 I-site; other site 1163748001378 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1163748001379 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 1163748001380 substrate binding pocket [chemical binding]; other site 1163748001381 membrane-bound complex binding site; other site 1163748001382 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748001383 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 1163748001384 substrate binding pocket [chemical binding]; other site 1163748001385 membrane-bound complex binding site; other site 1163748001386 hinge residues; other site 1163748001387 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 1163748001388 dimer interface [polypeptide binding]; other site 1163748001389 phosphorylation site [posttranslational modification] 1163748001390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748001391 ATP binding site [chemical binding]; other site 1163748001392 Mg2+ binding site [ion binding]; other site 1163748001393 G-X-G motif; other site 1163748001394 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1163748001395 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1163748001396 nucleophile elbow; other site 1163748001397 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748001398 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163748001399 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1163748001400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748001401 DNA-binding site [nucleotide binding]; DNA binding site 1163748001402 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1163748001403 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1163748001404 putative active site [active] 1163748001405 catalytic site [active] 1163748001406 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1163748001407 putative active site [active] 1163748001408 catalytic site [active] 1163748001409 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748001410 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748001411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748001412 PGAP1-like protein; Region: PGAP1; pfam07819 1163748001413 acyl-CoA esterase; Provisional; Region: PRK10673 1163748001414 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1163748001415 Strictosidine synthase; Region: Str_synth; pfam03088 1163748001416 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 1163748001417 active site 1163748001418 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1163748001419 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1163748001420 putative NAD(P) binding site [chemical binding]; other site 1163748001421 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1163748001422 TrkA-N domain; Region: TrkA_N; pfam02254 1163748001423 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1163748001424 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 1163748001425 putative ATP binding site [chemical binding]; other site 1163748001426 putative substrate interface [chemical binding]; other site 1163748001427 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1163748001428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748001429 DNA binding residues [nucleotide binding] 1163748001430 dimerization interface [polypeptide binding]; other site 1163748001431 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163748001432 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163748001433 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1163748001434 FAD binding site [chemical binding]; other site 1163748001435 substrate binding site [chemical binding]; other site 1163748001436 catalytic residues [active] 1163748001437 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163748001438 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1163748001439 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1163748001440 NADP binding site [chemical binding]; other site 1163748001441 homodimer interface [polypeptide binding]; other site 1163748001442 active site 1163748001443 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1163748001444 Putative zinc-finger; Region: zf-HC2; pfam13490 1163748001445 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163748001446 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1163748001447 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748001448 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 1163748001449 DNA binding residues [nucleotide binding] 1163748001450 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748001451 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748001452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748001453 arginine decarboxylase; Provisional; Region: PRK05354 1163748001454 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1163748001455 dimer interface [polypeptide binding]; other site 1163748001456 active site 1163748001457 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748001458 catalytic residues [active] 1163748001459 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1163748001460 spermidine synthase; Provisional; Region: PRK00811 1163748001461 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 1163748001462 S-adenosylmethionine binding site [chemical binding]; other site 1163748001463 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1163748001464 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1163748001465 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1163748001466 Membrane fusogenic activity; Region: BMFP; pfam04380 1163748001467 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1163748001468 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163748001469 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163748001470 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1163748001471 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 1163748001472 S-adenosylmethionine binding site [chemical binding]; other site 1163748001473 HemN family oxidoreductase; Provisional; Region: PRK05660 1163748001474 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 1163748001475 FeS/SAM binding site; other site 1163748001476 HemN C-terminal domain; Region: HemN_C; pfam06969 1163748001477 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 1163748001478 active site 1163748001479 dimerization interface [polypeptide binding]; other site 1163748001480 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1163748001481 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 1163748001482 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1163748001483 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1163748001484 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163748001485 Dynamin family; Region: Dynamin_N; pfam00350 1163748001486 G1 box; other site 1163748001487 GTP/Mg2+ binding site [chemical binding]; other site 1163748001488 G2 box; other site 1163748001489 Switch I region; other site 1163748001490 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163748001491 G3 box; other site 1163748001492 Switch II region; other site 1163748001493 GTP/Mg2+ binding site [chemical binding]; other site 1163748001494 G4 box; other site 1163748001495 G5 box; other site 1163748001496 YGGT family; Region: YGGT; pfam02325 1163748001497 YGGT family; Region: YGGT; pfam02325 1163748001498 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1163748001499 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1163748001500 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1163748001501 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748001502 catalytic residue [active] 1163748001503 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1163748001504 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 1163748001505 Walker A motif; other site 1163748001506 ATP binding site [chemical binding]; other site 1163748001507 Walker B motif; other site 1163748001508 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 1163748001509 Walker A motif; other site 1163748001510 ATP binding site [chemical binding]; other site 1163748001511 Walker B motif; other site 1163748001512 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1163748001513 DNA polymerase I; Provisional; Region: PRK05755 1163748001514 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1163748001515 active site 1163748001516 metal binding site 1 [ion binding]; metal-binding site 1163748001517 putative 5' ssDNA interaction site; other site 1163748001518 metal binding site 3; metal-binding site 1163748001519 metal binding site 2 [ion binding]; metal-binding site 1163748001520 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163748001521 putative DNA binding site [nucleotide binding]; other site 1163748001522 putative metal binding site [ion binding]; other site 1163748001523 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 1163748001524 active site 1163748001525 catalytic site [active] 1163748001526 substrate binding site [chemical binding]; other site 1163748001527 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1163748001528 active site 1163748001529 DNA binding site [nucleotide binding] 1163748001530 catalytic site [active] 1163748001531 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1163748001532 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 1163748001533 Interdomain contacts; other site 1163748001534 Cytokine receptor motif; other site 1163748001535 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163748001536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748001537 active site 1163748001538 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1163748001539 putative active site [active] 1163748001540 putative catalytic site [active] 1163748001541 putative DNA binding site [nucleotide binding]; other site 1163748001542 putative phosphate binding site [ion binding]; other site 1163748001543 metal binding site A [ion binding]; metal-binding site 1163748001544 putative AP binding site [nucleotide binding]; other site 1163748001545 putative metal binding site B [ion binding]; other site 1163748001546 ribonuclease PH; Reviewed; Region: rph; PRK00173 1163748001547 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1163748001548 hexamer interface [polypeptide binding]; other site 1163748001549 active site 1163748001550 hypothetical protein; Provisional; Region: PRK11820 1163748001551 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1163748001552 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1163748001553 universal stress protein UspE; Provisional; Region: PRK11175 1163748001554 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 1163748001555 Ligand Binding Site [chemical binding]; other site 1163748001556 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 1163748001557 Ligand Binding Site [chemical binding]; other site 1163748001558 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1163748001559 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 1163748001560 catalytic site [active] 1163748001561 G-X2-G-X-G-K; other site 1163748001562 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1163748001563 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1163748001564 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748001565 Zn2+ binding site [ion binding]; other site 1163748001566 Mg2+ binding site [ion binding]; other site 1163748001567 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163748001568 synthetase active site [active] 1163748001569 NTP binding site [chemical binding]; other site 1163748001570 metal binding site [ion binding]; metal-binding site 1163748001571 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 1163748001572 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1163748001573 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 1163748001574 homotrimer interaction site [polypeptide binding]; other site 1163748001575 putative active site [active] 1163748001576 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163748001577 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1163748001578 putative NAD(P) binding site [chemical binding]; other site 1163748001579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748001580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748001581 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 1163748001582 dimerization interface [polypeptide binding]; other site 1163748001583 Pathogenicity locus; Region: Cdd1; pfam11731 1163748001584 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1163748001585 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 1163748001586 generic binding surface II; other site 1163748001587 ssDNA binding site; other site 1163748001588 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 1163748001589 ATP binding site [chemical binding]; other site 1163748001590 putative Mg++ binding site [ion binding]; other site 1163748001591 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 1163748001592 nucleotide binding region [chemical binding]; other site 1163748001593 ATP-binding site [chemical binding]; other site 1163748001594 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1163748001595 putative deacylase active site [active] 1163748001596 HDOD domain; Region: HDOD; pfam08668 1163748001597 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1163748001598 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 1163748001599 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1163748001600 putative [Fe4-S4] binding site [ion binding]; other site 1163748001601 putative molybdopterin cofactor binding site [chemical binding]; other site 1163748001602 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 1163748001603 putative molybdopterin cofactor binding site; other site 1163748001604 Bacterial Ig-like domain; Region: Big_5; pfam13205 1163748001605 Bacterial Ig-like domain; Region: Big_5; pfam13205 1163748001606 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1163748001607 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1163748001608 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163748001609 cofactor binding site; other site 1163748001610 DNA binding site [nucleotide binding] 1163748001611 substrate interaction site [chemical binding]; other site 1163748001612 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1163748001613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748001614 Walker A/P-loop; other site 1163748001615 ATP binding site [chemical binding]; other site 1163748001616 AAA domain; Region: AAA_21; pfam13304 1163748001617 Q-loop/lid; other site 1163748001618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748001619 ABC transporter signature motif; other site 1163748001620 Walker B; other site 1163748001621 D-loop; other site 1163748001622 H-loop/switch region; other site 1163748001623 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 1163748001624 Predicted transcriptional regulator [Transcription]; Region: COG2932 1163748001625 non-specific DNA binding site [nucleotide binding]; other site 1163748001626 salt bridge; other site 1163748001627 sequence-specific DNA binding site [nucleotide binding]; other site 1163748001628 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 1163748001629 Catalytic site [active] 1163748001630 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 1163748001631 hypothetical protein; Region: PHA01159 1163748001632 putative assembly protein; Region: PHA00350 1163748001633 Zonular occludens toxin (Zot); Region: Zot; cl17485 1163748001634 Replication initiation factor; Region: Rep_trans; pfam02486 1163748001635 integrase; Provisional; Region: int; PHA02601 1163748001636 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 1163748001637 active site 1163748001638 DNA binding site [nucleotide binding] 1163748001639 Int/Topo IB signature motif; other site 1163748001640 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1163748001641 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1163748001642 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163748001643 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1163748001644 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748001645 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163748001646 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 1163748001647 DNA binding residues [nucleotide binding] 1163748001648 DNA primase, catalytic core; Region: dnaG; TIGR01391 1163748001649 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1163748001650 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1163748001651 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 1163748001652 active site 1163748001653 metal binding site [ion binding]; metal-binding site 1163748001654 interdomain interaction site; other site 1163748001655 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1163748001656 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1163748001657 UGMP family protein; Validated; Region: PRK09604 1163748001658 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1163748001659 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1163748001660 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 1163748001661 active site 1163748001662 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 1163748001663 catalytic center binding site [active] 1163748001664 ATP binding site [chemical binding]; other site 1163748001665 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1163748001666 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 1163748001667 active site 1163748001668 dimer interface [polypeptide binding]; other site 1163748001669 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 1163748001670 dimer interface [polypeptide binding]; other site 1163748001671 active site 1163748001672 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1163748001673 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1163748001674 active site 1163748001675 ATP-binding site [chemical binding]; other site 1163748001676 pantoate-binding site; other site 1163748001677 HXXH motif; other site 1163748001678 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 1163748001679 oligomerization interface [polypeptide binding]; other site 1163748001680 active site 1163748001681 metal binding site [ion binding]; metal-binding site 1163748001682 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 1163748001683 catalytic center binding site [active] 1163748001684 ATP binding site [chemical binding]; other site 1163748001685 poly(A) polymerase; Region: pcnB; TIGR01942 1163748001686 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163748001687 active site 1163748001688 NTP binding site [chemical binding]; other site 1163748001689 metal binding triad [ion binding]; metal-binding site 1163748001690 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163748001691 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1163748001692 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748001693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748001694 active site 1163748001695 phosphorylation site [posttranslational modification] 1163748001696 intermolecular recognition site; other site 1163748001697 dimerization interface [polypeptide binding]; other site 1163748001698 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 1163748001699 Walker A motif; other site 1163748001700 ATP binding site [chemical binding]; other site 1163748001701 Walker B motif; other site 1163748001702 arginine finger; other site 1163748001703 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1163748001704 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 1163748001705 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163748001706 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 1163748001707 putative active site [active] 1163748001708 heme pocket [chemical binding]; other site 1163748001709 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 1163748001710 dimer interface [polypeptide binding]; other site 1163748001711 phosphorylation site [posttranslational modification] 1163748001712 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748001713 ATP binding site [chemical binding]; other site 1163748001714 Mg2+ binding site [ion binding]; other site 1163748001715 G-X-G motif; other site 1163748001716 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1163748001717 active site 1163748001718 HIGH motif; other site 1163748001719 nucleotide binding site [chemical binding]; other site 1163748001720 KMSKS motif; other site 1163748001721 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1163748001722 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1163748001723 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; cd03467 1163748001724 iron-sulfur cluster [ion binding]; other site 1163748001725 [2Fe-2S] cluster binding site [ion binding]; other site 1163748001726 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1163748001727 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748001728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1163748001729 Predicted kinase [General function prediction only]; Region: COG0645 1163748001730 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 1163748001731 active site 1163748001732 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1163748001733 Transglycosylase; Region: Transgly; pfam00912 1163748001734 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163748001735 TPR repeat; Region: TPR_11; pfam13414 1163748001736 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 1163748001737 TPR motif; other site 1163748001738 binding surface 1163748001739 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1163748001740 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163748001741 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748001742 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 1163748001743 DNA binding residues [nucleotide binding] 1163748001744 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 1163748001745 binding surface 1163748001746 TPR motif; other site 1163748001747 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1163748001748 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1163748001749 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 1163748001750 inhibitor-cofactor binding pocket; inhibition site 1163748001751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748001752 catalytic residue [active] 1163748001753 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 1163748001754 thiamine phosphate binding site [chemical binding]; other site 1163748001755 active site 1163748001756 pyrophosphate binding site [ion binding]; other site 1163748001757 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1163748001758 dimer interface [polypeptide binding]; other site 1163748001759 substrate binding site [chemical binding]; other site 1163748001760 ATP binding site [chemical binding]; other site 1163748001761 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1163748001762 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 1163748001763 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1163748001764 Cl- selectivity filter; other site 1163748001765 Cl- binding residues [ion binding]; other site 1163748001766 pore gating glutamate residue; other site 1163748001767 dimer interface [polypeptide binding]; other site 1163748001768 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1163748001769 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163748001770 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1163748001771 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1163748001772 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1163748001773 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1163748001774 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1163748001775 putative peptidase; Provisional; Region: PRK11649 1163748001776 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163748001777 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1163748001778 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1163748001779 active site 1163748001780 HIGH motif; other site 1163748001781 dimer interface [polypeptide binding]; other site 1163748001782 KMSKS motif; other site 1163748001783 potential protein location (hypothetical protein MARHY0553 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (ribosomal RNA 16S) 1163748001784 potential protein location (hypothetical protein MARHY0556 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (ribosomal RNA 23S) 1163748001785 potential protein location (hypothetical protein MARHY0558 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (ribosomal RNA 5S) 1163748001786 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1163748001787 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 1163748001788 dimerization interface [polypeptide binding]; other site 1163748001789 putative Zn2+ binding site [ion binding]; other site 1163748001790 putative DNA binding site [nucleotide binding]; other site 1163748001791 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1163748001792 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1163748001793 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 1163748001794 potential protein location (hypothetical protein MARHY0566 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (tRNA-Y) 1163748001795 elongation factor Tu; Reviewed; Region: PRK00049 1163748001796 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163748001797 G1 box; other site 1163748001798 GEF interaction site [polypeptide binding]; other site 1163748001799 GTP/Mg2+ binding site [chemical binding]; other site 1163748001800 Switch I region; other site 1163748001801 G2 box; other site 1163748001802 G3 box; other site 1163748001803 Switch II region; other site 1163748001804 G4 box; other site 1163748001805 G5 box; other site 1163748001806 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 1163748001807 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 1163748001808 Antibiotic Binding Site [chemical binding]; other site 1163748001809 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1163748001810 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1163748001811 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1163748001812 putative homodimer interface [polypeptide binding]; other site 1163748001813 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1163748001814 heterodimer interface [polypeptide binding]; other site 1163748001815 homodimer interface [polypeptide binding]; other site 1163748001816 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1163748001817 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 1163748001818 23S rRNA interface [nucleotide binding]; other site 1163748001819 L7/L12 interface [polypeptide binding]; other site 1163748001820 putative thiostrepton binding site; other site 1163748001821 L25 interface [polypeptide binding]; other site 1163748001822 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 1163748001823 mRNA/rRNA interface [nucleotide binding]; other site 1163748001824 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 1163748001825 23S rRNA interface [nucleotide binding]; other site 1163748001826 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1163748001827 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1163748001828 L11 interface [polypeptide binding]; other site 1163748001829 putative EF-Tu interaction site [polypeptide binding]; other site 1163748001830 putative EF-G interaction site [polypeptide binding]; other site 1163748001831 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1163748001832 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 1163748001833 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1163748001834 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 1163748001835 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1163748001836 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 1163748001837 RPB3 interaction site [polypeptide binding]; other site 1163748001838 RPB1 interaction site [polypeptide binding]; other site 1163748001839 RPB11 interaction site [polypeptide binding]; other site 1163748001840 RPB10 interaction site [polypeptide binding]; other site 1163748001841 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1163748001842 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1163748001843 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1163748001844 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1163748001845 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1163748001846 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1163748001847 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163748001848 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1163748001849 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163748001850 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1163748001851 DNA binding site [nucleotide binding] 1163748001852 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1163748001853 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 1163748001854 S17 interaction site [polypeptide binding]; other site 1163748001855 S8 interaction site; other site 1163748001856 16S rRNA interaction site [nucleotide binding]; other site 1163748001857 streptomycin interaction site [chemical binding]; other site 1163748001858 23S rRNA interaction site [nucleotide binding]; other site 1163748001859 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1163748001860 30S ribosomal protein S7; Validated; Region: PRK05302 1163748001861 elongation factor G; Reviewed; Region: PRK00007 1163748001862 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1163748001863 G1 box; other site 1163748001864 putative GEF interaction site [polypeptide binding]; other site 1163748001865 GTP/Mg2+ binding site [chemical binding]; other site 1163748001866 Switch I region; other site 1163748001867 G2 box; other site 1163748001868 G3 box; other site 1163748001869 Switch II region; other site 1163748001870 G4 box; other site 1163748001871 G5 box; other site 1163748001872 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 1163748001873 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 1163748001874 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 1163748001875 elongation factor Tu; Reviewed; Region: PRK00049 1163748001876 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163748001877 G1 box; other site 1163748001878 GEF interaction site [polypeptide binding]; other site 1163748001879 GTP/Mg2+ binding site [chemical binding]; other site 1163748001880 Switch I region; other site 1163748001881 G2 box; other site 1163748001882 G3 box; other site 1163748001883 Switch II region; other site 1163748001884 G4 box; other site 1163748001885 G5 box; other site 1163748001886 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 1163748001887 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 1163748001888 Antibiotic Binding Site [chemical binding]; other site 1163748001889 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1163748001890 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1163748001891 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1163748001892 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1163748001893 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1163748001894 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1163748001895 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1163748001896 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1163748001897 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 1163748001898 protein-rRNA interface [nucleotide binding]; other site 1163748001899 putative translocon binding site; other site 1163748001900 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1163748001901 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 1163748001902 G-X-X-G motif; other site 1163748001903 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1163748001904 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 1163748001905 5S rRNA interface [nucleotide binding]; other site 1163748001906 23S rRNA interface [nucleotide binding]; other site 1163748001907 putative antibiotic binding site [chemical binding]; other site 1163748001908 L25 interface [polypeptide binding]; other site 1163748001909 L27 interface [polypeptide binding]; other site 1163748001910 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 1163748001911 23S rRNA interface [nucleotide binding]; other site 1163748001912 putative translocon interaction site; other site 1163748001913 signal recognition particle (SRP54) interaction site; other site 1163748001914 L23 interface [polypeptide binding]; other site 1163748001915 trigger factor interaction site; other site 1163748001916 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1163748001917 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1163748001918 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1163748001919 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1163748001920 RNA binding site [nucleotide binding]; other site 1163748001921 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1163748001922 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1163748001923 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1163748001924 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1163748001925 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1163748001926 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1163748001927 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163748001928 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163748001929 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 1163748001930 5S rRNA interface [nucleotide binding]; other site 1163748001931 23S rRNA interface [nucleotide binding]; other site 1163748001932 L5 interface [polypeptide binding]; other site 1163748001933 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1163748001934 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1163748001935 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1163748001936 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 1163748001937 23S rRNA binding site [nucleotide binding]; other site 1163748001938 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1163748001939 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1163748001940 SecY translocase; Region: SecY; pfam00344 1163748001941 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1163748001942 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1163748001943 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1163748001944 30S ribosomal protein S11; Validated; Region: PRK05309 1163748001945 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1163748001946 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1163748001947 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 1163748001948 RNA binding surface [nucleotide binding]; other site 1163748001949 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1163748001950 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1163748001951 alphaNTD homodimer interface [polypeptide binding]; other site 1163748001952 alphaNTD - beta interaction site [polypeptide binding]; other site 1163748001953 alphaNTD - beta' interaction site [polypeptide binding]; other site 1163748001954 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1163748001955 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1163748001956 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1163748001957 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163748001958 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163748001959 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1163748001960 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 1163748001961 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163748001962 putative substrate translocation pore; other site 1163748001963 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1163748001964 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 1163748001965 dimer interface [polypeptide binding]; other site 1163748001966 ssDNA binding site [nucleotide binding]; other site 1163748001967 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163748001968 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1163748001969 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1163748001970 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1163748001971 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1163748001972 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163748001973 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1163748001974 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 1163748001975 Walker A motif; other site 1163748001976 ATP binding site [chemical binding]; other site 1163748001977 Walker B motif; other site 1163748001978 arginine finger; other site 1163748001979 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163748001980 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1163748001981 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 1163748001982 Walker A motif; other site 1163748001983 ATP binding site [chemical binding]; other site 1163748001984 Walker B motif; other site 1163748001985 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1163748001986 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748001987 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748001988 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1163748001989 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1163748001990 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1163748001991 PilX N-terminal; Region: PilX_N; pfam14341 1163748001992 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1163748001993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748001994 active site 1163748001995 phosphorylation site [posttranslational modification] 1163748001996 intermolecular recognition site; other site 1163748001997 dimerization interface [polypeptide binding]; other site 1163748001998 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 1163748001999 Walker A motif; other site 1163748002000 ATP binding site [chemical binding]; other site 1163748002001 Walker B motif; other site 1163748002002 arginine finger; other site 1163748002003 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748002004 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163748002005 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 1163748002006 dimer interface [polypeptide binding]; other site 1163748002007 phosphorylation site [posttranslational modification] 1163748002008 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748002009 ATP binding site [chemical binding]; other site 1163748002010 G-X-G motif; other site 1163748002011 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163748002012 glutamine synthetase; Provisional; Region: glnA; PRK09469 1163748002013 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1163748002014 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1163748002015 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1163748002016 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1163748002017 G1 box; other site 1163748002018 putative GEF interaction site [polypeptide binding]; other site 1163748002019 GTP/Mg2+ binding site [chemical binding]; other site 1163748002020 Switch I region; other site 1163748002021 G2 box; other site 1163748002022 G3 box; other site 1163748002023 Switch II region; other site 1163748002024 G4 box; other site 1163748002025 G5 box; other site 1163748002026 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 1163748002027 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 1163748002028 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1163748002029 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163748002030 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 1163748002031 putative active site [active] 1163748002032 dimerization interface [polypeptide binding]; other site 1163748002033 putative tRNAtyr binding site [nucleotide binding]; other site 1163748002034 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1163748002035 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1163748002036 eyelet of channel; other site 1163748002037 trimer interface [polypeptide binding]; other site 1163748002038 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1163748002039 putative active site [active] 1163748002040 putative metal binding residues [ion binding]; other site 1163748002041 signature motif; other site 1163748002042 putative triphosphate binding site [ion binding]; other site 1163748002043 Ion channel; Region: Ion_trans_2; pfam07885 1163748002044 Ion transport protein; Region: Ion_trans; pfam00520 1163748002045 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1163748002046 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163748002047 metal binding triad; other site 1163748002048 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1163748002049 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163748002050 metal binding triad; other site 1163748002051 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1163748002052 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 1163748002053 homodimer interface [polypeptide binding]; other site 1163748002054 substrate-cofactor binding pocket; other site 1163748002055 catalytic residue [active] 1163748002056 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 1163748002057 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163748002058 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1163748002059 putative active site [active] 1163748002060 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1163748002061 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 1163748002062 active site 1163748002063 substrate binding site [chemical binding]; other site 1163748002064 ATP binding site [chemical binding]; other site 1163748002065 O-Antigen ligase; Region: Wzy_C; pfam04932 1163748002066 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1163748002067 active site 1163748002068 catalytic residues [active] 1163748002069 metal binding site [ion binding]; metal-binding site 1163748002070 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1163748002071 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 1163748002072 active site 1163748002073 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 1163748002074 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748002075 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 1163748002076 putative ADP-binding pocket [chemical binding]; other site 1163748002077 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163748002078 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 1163748002079 motif II; other site 1163748002080 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 1163748002081 active site 1163748002082 hypothetical protein; Provisional; Region: PRK05849 1163748002083 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163748002084 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163748002085 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1163748002086 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1163748002087 catalytic triad [active] 1163748002088 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1163748002089 active site 1163748002090 metal-binding site 1163748002091 Orthopoxvirus A5L protein-like; Region: Orthopox_A5L; cl17688 1163748002092 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748002093 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 1163748002094 putative ADP-binding pocket [chemical binding]; other site 1163748002095 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748002096 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 1163748002097 Substrate binding site; other site 1163748002098 metal-binding site 1163748002099 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 1163748002100 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163748002101 putative acyl-acceptor binding pocket; other site 1163748002102 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1163748002103 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1163748002104 Substrate binding site; other site 1163748002105 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1163748002106 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 1163748002107 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748002108 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 1163748002109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748002110 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 1163748002111 putative ADP-binding pocket [chemical binding]; other site 1163748002112 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1163748002113 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1163748002114 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163748002115 putative acyl-acceptor binding pocket; other site 1163748002116 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1163748002117 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1163748002118 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 1163748002119 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1163748002120 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1163748002121 ThiC-associated domain; Region: ThiC-associated; pfam13667 1163748002122 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1163748002123 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1163748002124 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 1163748002125 dimer interface [polypeptide binding]; other site 1163748002126 ADP-ribose binding site [chemical binding]; other site 1163748002127 active site 1163748002128 nudix motif; other site 1163748002129 metal binding site [ion binding]; metal-binding site 1163748002130 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1163748002131 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1163748002132 active site 1163748002133 metal binding site [ion binding]; metal-binding site 1163748002134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748002135 hexamer interface [polypeptide binding]; other site 1163748002136 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1163748002137 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1163748002138 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1163748002139 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1163748002140 THF binding site; other site 1163748002141 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 1163748002142 substrate binding site [chemical binding]; other site 1163748002143 THF binding site; other site 1163748002144 zinc-binding site [ion binding]; other site 1163748002145 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1163748002146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748002147 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 1163748002148 putative dimerization interface [polypeptide binding]; other site 1163748002149 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 1163748002150 lipoyl attachment site [posttranslational modification]; other site 1163748002151 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1163748002152 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1163748002153 putative RNA binding site [nucleotide binding]; other site 1163748002154 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 1163748002155 S-adenosylmethionine binding site [chemical binding]; other site 1163748002156 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1163748002157 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163748002158 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 1163748002159 motif II; other site 1163748002160 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 1163748002161 putative active site [active] 1163748002162 Ap4A binding site [chemical binding]; other site 1163748002163 nudix motif; other site 1163748002164 putative metal binding site [ion binding]; other site 1163748002165 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1163748002166 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1163748002167 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1163748002168 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163748002169 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163748002170 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1163748002171 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1163748002172 nucleophile elbow; other site 1163748002173 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1163748002174 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 1163748002175 Walker A motif; other site 1163748002176 ATP binding site [chemical binding]; other site 1163748002177 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 1163748002178 Walker B motif; other site 1163748002179 arginine finger; other site 1163748002180 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163748002181 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1163748002182 active site 1163748002183 HslU subunit interaction site [polypeptide binding]; other site 1163748002184 Sporulation related domain; Region: SPOR; pfam05036 1163748002185 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1163748002186 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1163748002187 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1163748002188 active site 1163748002189 HIGH motif; other site 1163748002190 KMSK motif region; other site 1163748002191 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1163748002192 tRNA binding surface [nucleotide binding]; other site 1163748002193 anticodon binding site; other site 1163748002194 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1163748002195 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1163748002196 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1163748002197 primosome assembly protein PriA; Validated; Region: PRK05580 1163748002198 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 1163748002199 ATP binding site [chemical binding]; other site 1163748002200 putative Mg++ binding site [ion binding]; other site 1163748002201 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1163748002202 ATP-binding site [chemical binding]; other site 1163748002203 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1163748002204 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1163748002205 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1163748002206 putative NAD(P) binding site [chemical binding]; other site 1163748002207 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1163748002208 Transglycosylase; Region: Transgly; pfam00912 1163748002209 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163748002210 Competence protein A; Region: Competence_A; pfam11104 1163748002211 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163748002212 nucleotide binding site [chemical binding]; other site 1163748002213 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1163748002214 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1163748002215 Pilus assembly protein, PilO; Region: PilO; pfam04350 1163748002216 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1163748002217 Pilus assembly protein, PilP; Region: PilP; pfam04351 1163748002218 AMIN domain; Region: AMIN; pfam11741 1163748002219 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1163748002220 Secretin and TonB N terminus short domain; Region: STN; smart00965 1163748002221 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163748002222 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163748002223 shikimate kinase; Reviewed; Region: aroK; PRK00131 1163748002224 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 1163748002225 ADP binding site [chemical binding]; other site 1163748002226 magnesium binding site [ion binding]; other site 1163748002227 putative shikimate binding site; other site 1163748002228 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1163748002229 active site 1163748002230 dimer interface [polypeptide binding]; other site 1163748002231 metal binding site [ion binding]; metal-binding site 1163748002232 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 1163748002233 AAA domain; Region: AAA_22; pfam13401 1163748002234 Walker A motif; other site 1163748002235 ATP binding site [chemical binding]; other site 1163748002236 Walker B motif; other site 1163748002237 arginine finger; other site 1163748002238 Sporulation related domain; Region: SPOR; pfam05036 1163748002239 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1163748002240 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 1163748002241 active site 1163748002242 dimer interface [polypeptide binding]; other site 1163748002243 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1163748002244 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 1163748002245 active site 1163748002246 FMN binding site [chemical binding]; other site 1163748002247 substrate binding site [chemical binding]; other site 1163748002248 3Fe-4S cluster binding site [ion binding]; other site 1163748002249 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 1163748002250 domain interface; other site 1163748002251 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1163748002252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748002253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748002254 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 1163748002255 substrate binding site [chemical binding]; other site 1163748002256 active site 1163748002257 PilZ domain; Region: PilZ; pfam07238 1163748002258 DNA repair protein RadA; Provisional; Region: PRK11823 1163748002259 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 1163748002260 Walker A motif/ATP binding site; other site 1163748002261 ATP binding site [chemical binding]; other site 1163748002262 Walker B motif; other site 1163748002263 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163748002264 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1163748002265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748002266 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748002267 ABC transporter; Region: ABC_tran_2; pfam12848 1163748002268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748002269 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1163748002270 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 1163748002271 dimer interface [polypeptide binding]; other site 1163748002272 active site 1163748002273 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1163748002274 folate binding site [chemical binding]; other site 1163748002275 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1163748002276 ATP cone domain; Region: ATP-cone; pfam03477 1163748002277 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1163748002278 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 1163748002279 catalytic motif [active] 1163748002280 Zn binding site [ion binding]; other site 1163748002281 RibD C-terminal domain; Region: RibD_C; cl17279 1163748002282 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1163748002283 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1163748002284 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1163748002285 dimerization interface [polypeptide binding]; other site 1163748002286 active site 1163748002287 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 1163748002288 homopentamer interface [polypeptide binding]; other site 1163748002289 active site 1163748002290 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 1163748002291 putative RNA binding site [nucleotide binding]; other site 1163748002292 thiamine monophosphate kinase; Provisional; Region: PRK05731 1163748002293 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 1163748002294 ATP binding site [chemical binding]; other site 1163748002295 dimerization interface [polypeptide binding]; other site 1163748002296 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1163748002297 tetramer interfaces [polypeptide binding]; other site 1163748002298 binuclear metal-binding site [ion binding]; other site 1163748002299 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 1163748002300 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1163748002301 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1163748002302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748002303 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1163748002304 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 1163748002305 dimerization interface [polypeptide binding]; other site 1163748002306 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1163748002307 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748002308 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1163748002309 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1163748002310 putative dimer interface [polypeptide binding]; other site 1163748002311 N-terminal domain interface [polypeptide binding]; other site 1163748002312 putative substrate binding pocket (H-site) [chemical binding]; other site 1163748002313 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163748002314 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163748002315 substrate binding pocket [chemical binding]; other site 1163748002316 chain length determination region; other site 1163748002317 substrate-Mg2+ binding site; other site 1163748002318 catalytic residues [active] 1163748002319 aspartate-rich region 1; other site 1163748002320 active site lid residues [active] 1163748002321 aspartate-rich region 2; other site 1163748002322 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1163748002323 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1163748002324 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1163748002325 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 1163748002326 GTP1/OBG; Region: GTP1_OBG; pfam01018 1163748002327 Obg GTPase; Region: Obg; cd01898 1163748002328 G1 box; other site 1163748002329 GTP/Mg2+ binding site [chemical binding]; other site 1163748002330 Switch I region; other site 1163748002331 G2 box; other site 1163748002332 G3 box; other site 1163748002333 Switch II region; other site 1163748002334 G4 box; other site 1163748002335 G5 box; other site 1163748002336 gamma-glutamyl kinase; Provisional; Region: PRK05429 1163748002337 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 1163748002338 nucleotide binding site [chemical binding]; other site 1163748002339 homotetrameric interface [polypeptide binding]; other site 1163748002340 putative phosphate binding site [ion binding]; other site 1163748002341 putative allosteric binding site; other site 1163748002342 PUA domain; Region: PUA; pfam01472 1163748002343 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1163748002344 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1163748002345 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1163748002346 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1163748002347 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1163748002348 active site 1163748002349 Riboflavin kinase; Region: Flavokinase; smart00904 1163748002350 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1163748002351 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163748002352 active site 1163748002353 HIGH motif; other site 1163748002354 nucleotide binding site [chemical binding]; other site 1163748002355 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163748002356 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1163748002357 active site 1163748002358 KMSKS motif; other site 1163748002359 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1163748002360 tRNA binding surface [nucleotide binding]; other site 1163748002361 anticodon binding site; other site 1163748002362 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1163748002363 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1163748002364 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1163748002365 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748002366 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1163748002367 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1163748002368 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1163748002369 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1163748002370 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1163748002371 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1163748002372 PilX N-terminal; Region: PilX_N; pfam14341 1163748002373 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1163748002374 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1163748002375 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1163748002376 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163748002377 Type II transport protein GspH; Region: GspH; pfam12019 1163748002378 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1163748002379 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1163748002380 Type II transport protein GspH; Region: GspH; pfam12019 1163748002381 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748002382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748002383 active site 1163748002384 phosphorylation site [posttranslational modification] 1163748002385 intermolecular recognition site; other site 1163748002386 dimerization interface [polypeptide binding]; other site 1163748002387 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 1163748002388 Walker A motif; other site 1163748002389 ATP binding site [chemical binding]; other site 1163748002390 Walker B motif; other site 1163748002391 arginine finger; other site 1163748002392 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748002393 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163748002394 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 1163748002395 dimer interface [polypeptide binding]; other site 1163748002396 phosphorylation site [posttranslational modification] 1163748002397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748002398 ATP binding site [chemical binding]; other site 1163748002399 Mg2+ binding site [ion binding]; other site 1163748002400 G-X-G motif; other site 1163748002401 NAD synthetase; Provisional; Region: PRK13981 1163748002402 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1163748002403 multimer interface [polypeptide binding]; other site 1163748002404 active site 1163748002405 catalytic triad [active] 1163748002406 protein interface 1 [polypeptide binding]; other site 1163748002407 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 1163748002408 homodimer interface [polypeptide binding]; other site 1163748002409 NAD binding pocket [chemical binding]; other site 1163748002410 ATP binding pocket [chemical binding]; other site 1163748002411 Mg binding site [ion binding]; other site 1163748002412 active-site loop [active] 1163748002413 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1163748002414 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1163748002415 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 1163748002416 RNA binding surface [nucleotide binding]; other site 1163748002417 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163748002418 active site 1163748002419 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1163748002420 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1163748002421 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1163748002422 Clp amino terminal domain; Region: Clp_N; pfam02861 1163748002423 Clp amino terminal domain; Region: Clp_N; pfam02861 1163748002424 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 1163748002425 Walker A motif; other site 1163748002426 ATP binding site [chemical binding]; other site 1163748002427 Walker B motif; other site 1163748002428 arginine finger; other site 1163748002429 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 1163748002430 Walker A motif; other site 1163748002431 ATP binding site [chemical binding]; other site 1163748002432 Walker B motif; other site 1163748002433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163748002434 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163748002435 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1163748002436 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163748002437 PYR/PP interface [polypeptide binding]; other site 1163748002438 dimer interface [polypeptide binding]; other site 1163748002439 TPP binding site [chemical binding]; other site 1163748002440 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163748002441 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 1163748002442 TPP-binding site [chemical binding]; other site 1163748002443 dimer interface [polypeptide binding]; other site 1163748002444 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1163748002445 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1163748002446 putative valine binding site [chemical binding]; other site 1163748002447 dimer interface [polypeptide binding]; other site 1163748002448 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1163748002449 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1163748002450 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1163748002451 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1163748002452 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1163748002453 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1163748002454 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1163748002455 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 1163748002456 Moco binding site; other site 1163748002457 metal coordination site [ion binding]; other site 1163748002458 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1163748002459 potential protein location (hypothetical protein MARHY0761 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (ribosomal RNA 16S) 1163748002460 2-isopropylmalate synthase; Validated; Region: PRK00915 1163748002461 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1163748002462 active site 1163748002463 catalytic residues [active] 1163748002464 metal binding site [ion binding]; metal-binding site 1163748002465 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1163748002466 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1163748002467 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748002468 Coenzyme A binding pocket [chemical binding]; other site 1163748002469 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1163748002470 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1163748002471 G1 box; other site 1163748002472 putative GEF interaction site [polypeptide binding]; other site 1163748002473 GTP/Mg2+ binding site [chemical binding]; other site 1163748002474 Switch I region; other site 1163748002475 G2 box; other site 1163748002476 G3 box; other site 1163748002477 Switch II region; other site 1163748002478 G4 box; other site 1163748002479 G5 box; other site 1163748002480 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 1163748002481 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163748002482 active site 1163748002483 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 1163748002484 23S rRNA interface [nucleotide binding]; other site 1163748002485 L3 interface [polypeptide binding]; other site 1163748002486 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1163748002487 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1163748002488 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1163748002489 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 1163748002490 [2Fe-2S] cluster binding site [ion binding]; other site 1163748002491 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1163748002492 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 1163748002493 Qi binding site; other site 1163748002494 intrachain domain interface; other site 1163748002495 interchain domain interface [polypeptide binding]; other site 1163748002496 heme bH binding site [chemical binding]; other site 1163748002497 heme bL binding site [chemical binding]; other site 1163748002498 Qo binding site; other site 1163748002499 interchain domain interface [polypeptide binding]; other site 1163748002500 intrachain domain interface; other site 1163748002501 Qi binding site; other site 1163748002502 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1163748002503 Qo binding site; other site 1163748002504 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1163748002505 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1163748002506 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748002507 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1163748002508 dimer interface [polypeptide binding]; other site 1163748002509 N-terminal domain interface [polypeptide binding]; other site 1163748002510 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1163748002511 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 1163748002512 dimer interface [polypeptide binding]; other site 1163748002513 active site 1163748002514 hypothetical protein; Reviewed; Region: PRK12497 1163748002515 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1163748002516 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1163748002517 putative ligand binding site [chemical binding]; other site 1163748002518 Predicted methyltransferases [General function prediction only]; Region: COG0313 1163748002519 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1163748002520 putative SAM binding site [chemical binding]; other site 1163748002521 putative homodimer interface [polypeptide binding]; other site 1163748002522 cell division protein MraZ; Reviewed; Region: PRK00326 1163748002523 MraZ protein; Region: MraZ; pfam02381 1163748002524 MraZ protein; Region: MraZ; pfam02381 1163748002525 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1163748002526 MraW methylase family; Region: Methyltransf_5; cl17771 1163748002527 Cell division protein FtsL; Region: FtsL; pfam04999 1163748002528 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1163748002529 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163748002530 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163748002531 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1163748002532 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163748002533 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748002534 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748002535 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1163748002536 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163748002537 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748002538 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748002539 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1163748002540 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 1163748002541 Mg++ binding site [ion binding]; other site 1163748002542 putative catalytic motif [active] 1163748002543 putative substrate binding site [chemical binding]; other site 1163748002544 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1163748002545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748002546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748002547 cell division protein FtsW; Region: ftsW; TIGR02614 1163748002548 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1163748002549 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 1163748002550 active site 1163748002551 homodimer interface [polypeptide binding]; other site 1163748002552 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1163748002553 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163748002554 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748002555 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748002556 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1163748002557 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1163748002558 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163748002559 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1163748002560 Cell division protein FtsQ; Region: FtsQ; pfam03799 1163748002561 cell division protein FtsA; Region: ftsA; TIGR01174 1163748002562 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163748002563 nucleotide binding site [chemical binding]; other site 1163748002564 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1163748002565 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163748002566 Cell division protein FtsA; Region: FtsA; pfam14450 1163748002567 cell division protein FtsZ; Validated; Region: PRK09330 1163748002568 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 1163748002569 nucleotide binding site [chemical binding]; other site 1163748002570 SulA interaction site; other site 1163748002571 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1163748002572 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1163748002573 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1163748002574 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1163748002575 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163748002576 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163748002577 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1163748002578 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 1163748002579 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1163748002580 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; cl17351 1163748002581 nucleotide binding region [chemical binding]; other site 1163748002582 ATP-binding site [chemical binding]; other site 1163748002583 SEC-C motif; Region: SEC-C; pfam02810 1163748002584 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1163748002585 heterotetramer interface [polypeptide binding]; other site 1163748002586 active site pocket [active] 1163748002587 cleavage site 1163748002588 hypothetical protein; Provisional; Region: PRK08999 1163748002589 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 1163748002590 active site 1163748002591 8-oxo-dGMP binding site [chemical binding]; other site 1163748002592 nudix motif; other site 1163748002593 metal binding site [ion binding]; metal-binding site 1163748002594 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 1163748002595 active site 1163748002596 thiamine phosphate binding site [chemical binding]; other site 1163748002597 pyrophosphate binding site [ion binding]; other site 1163748002598 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 1163748002599 trimer interface [polypeptide binding]; other site 1163748002600 dimer interface [polypeptide binding]; other site 1163748002601 putative active site [active] 1163748002602 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 1163748002603 dimerization interface [polypeptide binding]; other site 1163748002604 active site 1163748002605 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1163748002606 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 1163748002607 TPP-binding site; other site 1163748002608 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 1163748002609 PYR/PP interface [polypeptide binding]; other site 1163748002610 dimer interface [polypeptide binding]; other site 1163748002611 TPP binding site [chemical binding]; other site 1163748002612 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163748002613 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163748002614 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163748002615 substrate binding pocket [chemical binding]; other site 1163748002616 chain length determination region; other site 1163748002617 substrate-Mg2+ binding site; other site 1163748002618 catalytic residues [active] 1163748002619 aspartate-rich region 1; other site 1163748002620 active site lid residues [active] 1163748002621 aspartate-rich region 2; other site 1163748002622 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1163748002623 NRDE protein; Region: NRDE; cl01315 1163748002624 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163748002625 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1163748002626 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1163748002627 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 1163748002628 dimerization interface [polypeptide binding]; other site 1163748002629 active site 1163748002630 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1163748002631 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 1163748002632 folate binding site [chemical binding]; other site 1163748002633 NADP+ binding site [chemical binding]; other site 1163748002634 helicase 45; Provisional; Region: PTZ00424 1163748002635 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 1163748002636 ATP binding site [chemical binding]; other site 1163748002637 Mg++ binding site [ion binding]; other site 1163748002638 motif III; other site 1163748002639 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 1163748002640 nucleotide binding region [chemical binding]; other site 1163748002641 ATP-binding site [chemical binding]; other site 1163748002642 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1163748002643 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 1163748002644 active site 1163748002645 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 1163748002646 catalytic triad [active] 1163748002647 dimer interface [polypeptide binding]; other site 1163748002648 haloalkane dehalogenase; Provisional; Region: PRK00870 1163748002649 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163748002650 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163748002651 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163748002652 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1163748002653 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163748002654 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 1163748002655 ligand binding site [chemical binding]; other site 1163748002656 flexible hinge region; other site 1163748002657 HDOD domain; Region: HDOD; pfam08668 1163748002658 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748002659 Zn2+ binding site [ion binding]; other site 1163748002660 Mg2+ binding site [ion binding]; other site 1163748002661 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1163748002662 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163748002663 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1163748002664 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 1163748002665 active site 1163748002666 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748002667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748002668 metal binding site [ion binding]; metal-binding site 1163748002669 active site 1163748002670 I-site; other site 1163748002671 CCC1-related family of proteins; Region: CCC1_like; cl00278 1163748002672 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748002673 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748002674 metal binding site [ion binding]; metal-binding site 1163748002675 active site 1163748002676 I-site; other site 1163748002677 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1163748002678 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1163748002679 putative catalytic cysteine [active] 1163748002680 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1163748002681 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1163748002682 active site 1163748002683 (T/H)XGH motif; other site 1163748002684 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1163748002685 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1163748002686 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1163748002687 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163748002688 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163748002689 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1163748002690 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1163748002691 rare lipoprotein A; Region: rlpA; TIGR00413 1163748002692 Sporulation related domain; Region: SPOR; pfam05036 1163748002693 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1163748002694 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1163748002695 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1163748002696 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1163748002697 lipoate-protein ligase B; Provisional; Region: PRK14342 1163748002698 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748002699 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748002700 metal binding site [ion binding]; metal-binding site 1163748002701 active site 1163748002702 I-site; other site 1163748002703 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1163748002704 ABC1 family; Region: ABC1; pfam03109 1163748002705 Predicted membrane protein [Function unknown]; Region: COG1238 1163748002706 Cache domain; Region: Cache_1; pfam02743 1163748002707 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 1163748002708 dimerization interface [polypeptide binding]; other site 1163748002709 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748002710 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748002711 dimer interface [polypeptide binding]; other site 1163748002712 putative CheW interface [polypeptide binding]; other site 1163748002713 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1163748002714 GSH binding site [chemical binding]; other site 1163748002715 catalytic residues [active] 1163748002716 6-phosphofructokinase; Provisional; Region: PRK14072 1163748002717 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1163748002718 active site 1163748002719 ADP/pyrophosphate binding site [chemical binding]; other site 1163748002720 dimerization interface [polypeptide binding]; other site 1163748002721 allosteric effector site; other site 1163748002722 fructose-1,6-bisphosphate binding site; other site 1163748002723 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1163748002724 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163748002725 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748002726 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748002727 aromatic acid decarboxylase; Validated; Region: PRK05920 1163748002728 Flavoprotein; Region: Flavoprotein; pfam02441 1163748002729 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748002730 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748002731 active site 1163748002732 ribonuclease R; Region: RNase_R; TIGR02063 1163748002733 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1163748002734 RNB domain; Region: RNB; pfam00773 1163748002735 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 1163748002736 RNA binding site [nucleotide binding]; other site 1163748002737 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1163748002738 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1163748002739 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163748002740 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1163748002741 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1163748002742 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1163748002743 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1163748002744 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1163748002745 replicative DNA helicase; Provisional; Region: PRK05748 1163748002746 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1163748002747 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 1163748002748 Walker A motif; other site 1163748002749 ATP binding site [chemical binding]; other site 1163748002750 Walker B motif; other site 1163748002751 DNA binding loops [nucleotide binding] 1163748002752 alanine racemase; Reviewed; Region: alr; PRK00053 1163748002753 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1163748002754 active site 1163748002755 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163748002756 substrate binding site [chemical binding]; other site 1163748002757 catalytic residues [active] 1163748002758 dimer interface [polypeptide binding]; other site 1163748002759 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1163748002760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748002761 NAD(P) binding site [chemical binding]; other site 1163748002762 active site 1163748002763 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1163748002764 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 1163748002765 ligand binding site [chemical binding]; other site 1163748002766 flexible hinge region; other site 1163748002767 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 1163748002768 non-specific DNA interactions [nucleotide binding]; other site 1163748002769 DNA binding site [nucleotide binding] 1163748002770 sequence specific DNA binding site [nucleotide binding]; other site 1163748002771 putative cAMP binding site [chemical binding]; other site 1163748002772 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1163748002773 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1163748002774 GTP/Mg2+ binding site [chemical binding]; other site 1163748002775 G4 box; other site 1163748002776 G5 box; other site 1163748002777 G1 box; other site 1163748002778 Switch I region; other site 1163748002779 G2 box; other site 1163748002780 G3 box; other site 1163748002781 Switch II region; other site 1163748002782 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1163748002783 dimer interface [polypeptide binding]; other site 1163748002784 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1163748002785 Protein export membrane protein; Region: SecD_SecF; cl14618 1163748002786 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163748002787 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 1163748002788 dimerization interface [polypeptide binding]; other site 1163748002789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748002790 dimer interface [polypeptide binding]; other site 1163748002791 putative CheW interface [polypeptide binding]; other site 1163748002792 lipoyl synthase; Provisional; Region: PRK05481 1163748002793 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1163748002794 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1163748002795 homodimer interface [polypeptide binding]; other site 1163748002796 substrate-cofactor binding pocket; other site 1163748002797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748002798 catalytic residue [active] 1163748002799 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163748002800 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163748002801 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163748002802 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163748002803 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 1163748002804 substrate binding pocket [chemical binding]; other site 1163748002805 membrane-bound complex binding site; other site 1163748002806 hinge residues; other site 1163748002807 GTP-binding protein YchF; Reviewed; Region: PRK09601 1163748002808 YchF GTPase; Region: YchF; cd01900 1163748002809 G1 box; other site 1163748002810 GTP/Mg2+ binding site [chemical binding]; other site 1163748002811 Switch I region; other site 1163748002812 G2 box; other site 1163748002813 Switch II region; other site 1163748002814 G3 box; other site 1163748002815 G4 box; other site 1163748002816 G5 box; other site 1163748002817 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 1163748002818 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 1163748002819 putative active site [active] 1163748002820 catalytic residue [active] 1163748002821 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1163748002822 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1163748002823 5S rRNA interface [nucleotide binding]; other site 1163748002824 CTC domain interface [polypeptide binding]; other site 1163748002825 L16 interface [polypeptide binding]; other site 1163748002826 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1163748002827 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1163748002828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748002829 active site 1163748002830 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1163748002831 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1163748002832 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1163748002833 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1163748002834 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1163748002835 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 1163748002836 TPR motif; other site 1163748002837 binding surface 1163748002838 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 1163748002839 TPR motif; other site 1163748002840 binding surface 1163748002841 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1163748002842 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 1163748002843 binding surface 1163748002844 TPR motif; other site 1163748002845 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 1163748002846 binding surface 1163748002847 TPR motif; other site 1163748002848 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1163748002849 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1163748002850 tRNA; other site 1163748002851 putative tRNA binding site [nucleotide binding]; other site 1163748002852 putative NADP binding site [chemical binding]; other site 1163748002853 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1163748002854 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1163748002855 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163748002856 RF-1 domain; Region: RF-1; pfam00472 1163748002857 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1163748002858 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 1163748002859 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1163748002860 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 1163748002861 ATP binding site [chemical binding]; other site 1163748002862 substrate interface [chemical binding]; other site 1163748002863 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1163748002864 DNA photolyase; Region: DNA_photolyase; pfam00875 1163748002865 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163748002866 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163748002867 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1163748002868 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1163748002869 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1163748002870 Predicted deacylase [General function prediction only]; Region: COG3608 1163748002871 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1163748002872 putative active site [active] 1163748002873 Zn binding site [ion binding]; other site 1163748002874 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1163748002875 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163748002876 MarR family; Region: MarR_2; pfam12802 1163748002877 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748002878 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163748002879 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1163748002880 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1163748002881 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1163748002882 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1163748002883 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1163748002884 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1163748002885 DctM-like transporters; Region: DctM; pfam06808 1163748002886 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1163748002887 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 1163748002888 dimer interface [polypeptide binding]; other site 1163748002889 phosphorylation site [posttranslational modification] 1163748002890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748002891 ATP binding site [chemical binding]; other site 1163748002892 Mg2+ binding site [ion binding]; other site 1163748002893 G-X-G motif; other site 1163748002894 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748002895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748002896 active site 1163748002897 phosphorylation site [posttranslational modification] 1163748002898 intermolecular recognition site; other site 1163748002899 dimerization interface [polypeptide binding]; other site 1163748002900 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 1163748002901 Walker A motif; other site 1163748002902 ATP binding site [chemical binding]; other site 1163748002903 Walker B motif; other site 1163748002904 arginine finger; other site 1163748002905 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748002906 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 1163748002907 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 1163748002908 dimerization interface [polypeptide binding]; other site 1163748002909 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748002910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748002911 dimer interface [polypeptide binding]; other site 1163748002912 putative CheW interface [polypeptide binding]; other site 1163748002913 hypothetical protein; Validated; Region: PRK07586 1163748002914 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163748002915 PYR/PP interface [polypeptide binding]; other site 1163748002916 dimer interface [polypeptide binding]; other site 1163748002917 TPP binding site [chemical binding]; other site 1163748002918 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1163748002919 TPP-binding site [chemical binding]; other site 1163748002920 dimer interface [polypeptide binding]; other site 1163748002921 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 1163748002922 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1163748002923 phosphate binding site [ion binding]; other site 1163748002924 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1163748002925 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748002926 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1163748002927 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163748002928 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748002929 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1163748002930 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1163748002931 putative active site [active] 1163748002932 PhoH-like protein; Region: PhoH; pfam02562 1163748002933 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748002934 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1163748002935 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1163748002936 putative lipid binding site [chemical binding]; other site 1163748002937 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 1163748002938 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1163748002939 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1163748002940 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 1163748002941 ADP binding residues [chemical binding]; other site 1163748002942 Switch I; other site 1163748002943 Switch II; other site 1163748002944 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1163748002945 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1163748002946 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1163748002947 HopJ type III effector protein; Region: HopJ; pfam08888 1163748002948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1163748002949 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1163748002950 active site 1163748002951 DNA polymerase IV; Validated; Region: PRK02406 1163748002952 DNA binding site [nucleotide binding] 1163748002953 Pectinacetylesterase; Region: PAE; pfam03283 1163748002954 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 1163748002955 active site 1163748002956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748002957 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_2; cd03814 1163748002958 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 1163748002959 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163748002960 active site 1163748002961 catalytic tetrad [active] 1163748002962 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1163748002963 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1163748002964 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1163748002965 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748002966 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748002967 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163748002968 putative acyl-acceptor binding pocket; other site 1163748002969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1163748002970 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1163748002971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748002972 active site 1163748002973 phosphorylation site [posttranslational modification] 1163748002974 intermolecular recognition site; other site 1163748002975 dimerization interface [polypeptide binding]; other site 1163748002976 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 1163748002977 DNA binding site [nucleotide binding] 1163748002978 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 1163748002979 dimerization interface [polypeptide binding]; other site 1163748002980 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 1163748002981 dimer interface [polypeptide binding]; other site 1163748002982 phosphorylation site [posttranslational modification] 1163748002983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748002984 ATP binding site [chemical binding]; other site 1163748002985 Mg2+ binding site [ion binding]; other site 1163748002986 G-X-G motif; other site 1163748002987 glycerol kinase; Provisional; Region: glpK; PRK00047 1163748002988 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1163748002989 N- and C-terminal domain interface [polypeptide binding]; other site 1163748002990 active site 1163748002991 MgATP binding site [chemical binding]; other site 1163748002992 catalytic site [active] 1163748002993 metal binding site [ion binding]; metal-binding site 1163748002994 glycerol binding site [chemical binding]; other site 1163748002995 homotetramer interface [polypeptide binding]; other site 1163748002996 homodimer interface [polypeptide binding]; other site 1163748002997 FBP binding site [chemical binding]; other site 1163748002998 protein IIAGlc interface [polypeptide binding]; other site 1163748002999 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1163748003000 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1163748003001 Walker A/P-loop; other site 1163748003002 ATP binding site [chemical binding]; other site 1163748003003 Q-loop/lid; other site 1163748003004 ABC transporter signature motif; other site 1163748003005 Walker B; other site 1163748003006 D-loop; other site 1163748003007 H-loop/switch region; other site 1163748003008 TOBE domain; Region: TOBE_2; pfam08402 1163748003009 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1163748003010 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163748003011 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163748003012 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 1163748003013 putative GSH binding site [chemical binding]; other site 1163748003014 catalytic residues [active] 1163748003015 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1163748003016 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163748003017 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1163748003018 Domain of unknown function DUF21; Region: DUF21; pfam01595 1163748003019 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 1163748003020 Transporter associated domain; Region: CorC_HlyC; smart01091 1163748003021 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1163748003022 signal recognition particle protein; Provisional; Region: PRK10867 1163748003023 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1163748003024 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 1163748003025 P loop; other site 1163748003026 GTP binding site [chemical binding]; other site 1163748003027 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1163748003028 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1163748003029 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1163748003030 RimM N-terminal domain; Region: RimM; pfam01782 1163748003031 PRC-barrel domain; Region: PRC; pfam05239 1163748003032 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1163748003033 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1163748003034 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1163748003035 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 1163748003036 active site 1163748003037 Int/Topo IB signature motif; other site 1163748003038 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1163748003039 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 1163748003040 dimerization domain [polypeptide binding]; other site 1163748003041 dimer interface [polypeptide binding]; other site 1163748003042 catalytic residues [active] 1163748003043 homoserine dehydrogenase; Provisional; Region: PRK06349 1163748003044 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1163748003045 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1163748003046 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1163748003047 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1163748003048 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1163748003049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748003050 catalytic residue [active] 1163748003051 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1163748003052 DHH family; Region: DHH; pfam01368 1163748003053 DHHA1 domain; Region: DHHA1; pfam02272 1163748003054 peptide chain release factor 2; Provisional; Region: PRK08787 1163748003055 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163748003056 RF-1 domain; Region: RF-1; pfam00472 1163748003057 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1163748003058 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 1163748003059 dimer interface [polypeptide binding]; other site 1163748003060 putative anticodon binding site; other site 1163748003061 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 1163748003062 motif 1; other site 1163748003063 active site 1163748003064 motif 2; other site 1163748003065 motif 3; other site 1163748003066 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1163748003067 ligand binding site [chemical binding]; other site 1163748003068 active site 1163748003069 UGI interface [polypeptide binding]; other site 1163748003070 catalytic site [active] 1163748003071 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1163748003072 putative global regulator; Reviewed; Region: PRK09559 1163748003073 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1163748003074 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1163748003075 L-aspartate oxidase; Provisional; Region: PRK09077 1163748003076 L-aspartate oxidase; Provisional; Region: PRK06175 1163748003077 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1163748003078 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1163748003079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748003080 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 1163748003081 DNA binding residues [nucleotide binding] 1163748003082 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1163748003083 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1163748003084 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1163748003085 MucB/RseB family; Region: MucB_RseB; pfam03888 1163748003086 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1163748003087 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1163748003088 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163748003089 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 1163748003090 protein binding site [polypeptide binding]; other site 1163748003091 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 1163748003092 protein binding site [polypeptide binding]; other site 1163748003093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748003094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748003095 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748003096 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748003097 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748003098 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 1163748003099 putative effector binding pocket; other site 1163748003100 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163748003101 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1163748003102 helicase; Provisional; Region: PTZ00110 1163748003103 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 1163748003104 active site 1163748003105 catalytic residues [active] 1163748003106 DNA binding site [nucleotide binding] 1163748003107 Int/Topo IB signature motif; other site 1163748003108 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1163748003109 Heavy-metal-associated domain; Region: HMA; pfam00403 1163748003110 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1163748003111 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1163748003112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748003113 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 1163748003114 dimerization interface [polypeptide binding]; other site 1163748003115 S-formylglutathione hydrolase; Region: PLN02442 1163748003116 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1163748003117 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1163748003118 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1163748003119 substrate binding site [chemical binding]; other site 1163748003120 catalytic Zn binding site [ion binding]; other site 1163748003121 NAD binding site [chemical binding]; other site 1163748003122 structural Zn binding site [ion binding]; other site 1163748003123 dimer interface [polypeptide binding]; other site 1163748003124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748003125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748003126 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 1163748003127 putative effector binding pocket; other site 1163748003128 putative dimerization interface [polypeptide binding]; other site 1163748003129 CHASE domain; Region: CHASE; pfam03924 1163748003130 PAS domain S-box; Region: sensory_box; TIGR00229 1163748003131 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 1163748003132 putative active site [active] 1163748003133 heme pocket [chemical binding]; other site 1163748003134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748003135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748003136 metal binding site [ion binding]; metal-binding site 1163748003137 active site 1163748003138 I-site; other site 1163748003139 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 1163748003140 GTP-binding protein LepA; Provisional; Region: PRK05433 1163748003141 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1163748003142 G1 box; other site 1163748003143 putative GEF interaction site [polypeptide binding]; other site 1163748003144 GTP/Mg2+ binding site [chemical binding]; other site 1163748003145 Switch I region; other site 1163748003146 G2 box; other site 1163748003147 G3 box; other site 1163748003148 Switch II region; other site 1163748003149 G4 box; other site 1163748003150 G5 box; other site 1163748003151 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 1163748003152 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 1163748003153 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1163748003154 signal peptidase I; Provisional; Region: PRK10861 1163748003155 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 1163748003156 Catalytic site [active] 1163748003157 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 1163748003158 ribonuclease III; Reviewed; Region: rnc; PRK00102 1163748003159 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 1163748003160 dimerization interface [polypeptide binding]; other site 1163748003161 active site 1163748003162 metal binding site [ion binding]; metal-binding site 1163748003163 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 1163748003164 dsRNA binding site [nucleotide binding]; other site 1163748003165 GTPase Era; Reviewed; Region: era; PRK00089 1163748003166 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1163748003167 G1 box; other site 1163748003168 GTP/Mg2+ binding site [chemical binding]; other site 1163748003169 Switch I region; other site 1163748003170 G2 box; other site 1163748003171 Switch II region; other site 1163748003172 G3 box; other site 1163748003173 G4 box; other site 1163748003174 G5 box; other site 1163748003175 KH domain; Region: KH_2; pfam07650 1163748003176 Recombination protein O N terminal; Region: RecO_N; pfam11967 1163748003177 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1163748003178 Recombination protein O C terminal; Region: RecO_C; pfam02565 1163748003179 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 1163748003180 active site 1163748003181 hydrophilic channel; other site 1163748003182 dimerization interface [polypeptide binding]; other site 1163748003183 catalytic residues [active] 1163748003184 active site lid [active] 1163748003185 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1163748003186 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 1163748003187 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 1163748003188 dimer interface [polypeptide binding]; other site 1163748003189 phosphorylation site [posttranslational modification] 1163748003190 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748003191 ATP binding site [chemical binding]; other site 1163748003192 Mg2+ binding site [ion binding]; other site 1163748003193 G-X-G motif; other site 1163748003194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003195 active site 1163748003196 phosphorylation site [posttranslational modification] 1163748003197 intermolecular recognition site; other site 1163748003198 dimerization interface [polypeptide binding]; other site 1163748003199 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 1163748003200 putative binding surface; other site 1163748003201 active site 1163748003202 cysteine synthase B; Region: cysM; TIGR01138 1163748003203 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 1163748003204 dimer interface [polypeptide binding]; other site 1163748003205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748003206 catalytic residue [active] 1163748003207 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1163748003208 TRAM domain; Region: TRAM; cl01282 1163748003209 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 1163748003210 S-adenosylmethionine binding site [chemical binding]; other site 1163748003211 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1163748003212 HD domain; Region: HD_4; pfam13328 1163748003213 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163748003214 synthetase active site [active] 1163748003215 NTP binding site [chemical binding]; other site 1163748003216 metal binding site [ion binding]; metal-binding site 1163748003217 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 1163748003218 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1163748003219 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1163748003220 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 1163748003221 homodimer interface [polypeptide binding]; other site 1163748003222 metal binding site [ion binding]; metal-binding site 1163748003223 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 1163748003224 homodimer interface [polypeptide binding]; other site 1163748003225 active site 1163748003226 putative chemical substrate binding site [chemical binding]; other site 1163748003227 metal binding site [ion binding]; metal-binding site 1163748003228 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14350 1163748003229 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1163748003230 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1163748003231 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1163748003232 putative deacylase active site [active] 1163748003233 HDOD domain; Region: HDOD; pfam08668 1163748003234 adenylate kinase; Reviewed; Region: adk; PRK00279 1163748003235 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 1163748003236 AMP-binding site [chemical binding]; other site 1163748003237 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1163748003238 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1163748003239 Glycoprotease family; Region: Peptidase_M22; pfam00814 1163748003240 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1163748003241 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1163748003242 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1163748003243 putative acyl-acceptor binding pocket; other site 1163748003244 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1163748003245 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1163748003246 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1163748003247 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 1163748003248 putative NADH binding site [chemical binding]; other site 1163748003249 putative active site [active] 1163748003250 nudix motif; other site 1163748003251 putative metal binding site [ion binding]; other site 1163748003252 glutamate racemase; Provisional; Region: PRK00865 1163748003253 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1163748003254 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 1163748003255 S-adenosylmethionine binding site [chemical binding]; other site 1163748003256 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748003257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003258 active site 1163748003259 phosphorylation site [posttranslational modification] 1163748003260 intermolecular recognition site; other site 1163748003261 dimerization interface [polypeptide binding]; other site 1163748003262 PAS domain S-box; Region: sensory_box; TIGR00229 1163748003263 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 1163748003264 putative active site [active] 1163748003265 heme pocket [chemical binding]; other site 1163748003266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748003267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748003268 metal binding site [ion binding]; metal-binding site 1163748003269 active site 1163748003270 I-site; other site 1163748003271 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 1163748003272 HDOD domain; Region: HDOD; pfam08668 1163748003273 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748003274 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 1163748003275 phosphorylation site [posttranslational modification] 1163748003276 dimer interface [polypeptide binding]; other site 1163748003277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748003278 ATP binding site [chemical binding]; other site 1163748003279 Mg2+ binding site [ion binding]; other site 1163748003280 G-X-G motif; other site 1163748003281 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 1163748003282 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1163748003283 fatty acyl-CoA reductase; Region: PLN02996 1163748003284 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 1163748003285 putative NAD(P) binding site [chemical binding]; other site 1163748003286 active site 1163748003287 putative substrate binding site [chemical binding]; other site 1163748003288 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 1163748003289 acetyl-CoA synthetase; Provisional; Region: PRK00174 1163748003290 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1163748003291 active site 1163748003292 CoA binding site [chemical binding]; other site 1163748003293 acyl-activating enzyme (AAE) consensus motif; other site 1163748003294 AMP binding site [chemical binding]; other site 1163748003295 acetate binding site [chemical binding]; other site 1163748003296 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748003297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003298 active site 1163748003299 phosphorylation site [posttranslational modification] 1163748003300 intermolecular recognition site; other site 1163748003301 dimerization interface [polypeptide binding]; other site 1163748003302 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 1163748003303 DNA binding residues [nucleotide binding] 1163748003304 dimerization interface [polypeptide binding]; other site 1163748003305 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163748003306 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 1163748003307 putative di-iron ligands [ion binding]; other site 1163748003308 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1163748003309 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1163748003310 NAD binding site [chemical binding]; other site 1163748003311 ligand binding site [chemical binding]; other site 1163748003312 catalytic site [active] 1163748003313 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1163748003314 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 1163748003315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748003316 homodimer interface [polypeptide binding]; other site 1163748003317 catalytic residue [active] 1163748003318 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1163748003319 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1163748003320 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 1163748003321 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 1163748003322 inhibitor-cofactor binding pocket; inhibition site 1163748003323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748003324 catalytic residue [active] 1163748003325 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1163748003326 tartrate dehydrogenase; Region: TTC; TIGR02089 1163748003327 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 1163748003328 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748003329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748003330 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 1163748003331 substrate binding pocket [chemical binding]; other site 1163748003332 dimerization interface [polypeptide binding]; other site 1163748003333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748003334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748003335 active site 1163748003336 short chain dehydrogenase; Provisional; Region: PRK05650 1163748003337 classical (c) SDRs; Region: SDR_c; cd05233 1163748003338 NAD(P) binding site [chemical binding]; other site 1163748003339 active site 1163748003340 Phosphotransferase enzyme family; Region: APH; pfam01636 1163748003341 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 1163748003342 putative active site [active] 1163748003343 putative substrate binding site [chemical binding]; other site 1163748003344 ATP binding site [chemical binding]; other site 1163748003345 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 1163748003346 catalytic core [active] 1163748003347 short chain dehydrogenase; Provisional; Region: PRK07035 1163748003348 classical (c) SDRs; Region: SDR_c; cd05233 1163748003349 NAD(P) binding site [chemical binding]; other site 1163748003350 active site 1163748003351 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1163748003352 Fasciclin domain; Region: Fasciclin; pfam02469 1163748003353 Fasciclin domain; Region: Fasciclin; pfam02469 1163748003354 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1163748003355 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748003356 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748003357 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748003358 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1163748003359 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1163748003360 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1163748003361 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1163748003362 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 1163748003363 N-terminal plug; other site 1163748003364 ligand-binding site [chemical binding]; other site 1163748003365 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1163748003366 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163748003367 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 1163748003368 ABC-ATPase subunit interface; other site 1163748003369 dimer interface [polypeptide binding]; other site 1163748003370 putative PBP binding regions; other site 1163748003371 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1163748003372 ABC-ATPase subunit interface; other site 1163748003373 dimer interface [polypeptide binding]; other site 1163748003374 putative PBP binding regions; other site 1163748003375 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1163748003376 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1163748003377 siderophore binding site; other site 1163748003378 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1163748003379 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163748003380 Walker A/P-loop; other site 1163748003381 ATP binding site [chemical binding]; other site 1163748003382 Q-loop/lid; other site 1163748003383 ABC transporter signature motif; other site 1163748003384 Walker B; other site 1163748003385 D-loop; other site 1163748003386 H-loop/switch region; other site 1163748003387 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163748003388 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748003389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748003390 Walker A/P-loop; other site 1163748003391 ATP binding site [chemical binding]; other site 1163748003392 Q-loop/lid; other site 1163748003393 ABC transporter signature motif; other site 1163748003394 Walker B; other site 1163748003395 D-loop; other site 1163748003396 H-loop/switch region; other site 1163748003397 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1163748003398 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 1163748003399 catalytic core [active] 1163748003400 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1163748003401 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1163748003402 PhnA protein; Region: PhnA; pfam03831 1163748003403 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1163748003404 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1163748003405 putative metal binding site [ion binding]; other site 1163748003406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748003407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748003408 metal binding site [ion binding]; metal-binding site 1163748003409 active site 1163748003410 I-site; other site 1163748003411 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 1163748003412 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1163748003413 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 1163748003414 S-adenosylmethionine binding site [chemical binding]; other site 1163748003415 Rdx family; Region: Rdx; cl01407 1163748003416 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1163748003417 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1163748003418 YcaO domain protein; Region: TIGR03549 1163748003419 OsmC-like protein; Region: OsmC; pfam02566 1163748003420 YcaO-like family; Region: YcaO; pfam02624 1163748003421 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1163748003422 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1163748003423 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 1163748003424 Ligand Binding Site [chemical binding]; other site 1163748003425 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1163748003426 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1163748003427 enoyl-CoA hydratase; Provisional; Region: PRK06142 1163748003428 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 1163748003429 substrate binding site [chemical binding]; other site 1163748003430 oxyanion hole (OAH) forming residues; other site 1163748003431 trimer interface [polypeptide binding]; other site 1163748003432 CAAX protease self-immunity; Region: Abi; pfam02517 1163748003433 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 1163748003434 active site 2 [active] 1163748003435 active site 1 [active] 1163748003436 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1163748003437 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1163748003438 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1163748003439 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1163748003440 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1163748003441 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1163748003442 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1163748003443 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1163748003444 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748003445 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163748003446 Transcriptional regulator; Region: Rrf2; cl17282 1163748003447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748003448 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163748003449 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 1163748003450 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 1163748003451 putative active site [active] 1163748003452 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 1163748003453 binding surface 1163748003454 TPR motif; other site 1163748003455 TPR repeat; Region: TPR_11; pfam13414 1163748003456 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1163748003457 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1163748003458 catalytic triad [active] 1163748003459 hypothetical protein; Provisional; Region: PRK12378 1163748003460 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1163748003461 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163748003462 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1163748003463 putative hydrophobic ligand binding site [chemical binding]; other site 1163748003464 protein interface [polypeptide binding]; other site 1163748003465 gate; other site 1163748003466 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1163748003467 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1163748003468 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1163748003469 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1163748003470 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1163748003471 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748003472 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1163748003473 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1163748003474 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1163748003475 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1163748003476 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163748003477 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163748003478 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1163748003479 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1163748003480 NAD(P) binding site [chemical binding]; other site 1163748003481 Proline racemase; Region: Pro_racemase; pfam05544 1163748003482 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1163748003483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748003484 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748003485 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748003486 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163748003487 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1163748003488 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 1163748003489 dimer interface [polypeptide binding]; other site 1163748003490 conserved gate region; other site 1163748003491 putative PBP binding loops; other site 1163748003492 ABC-ATPase subunit interface; other site 1163748003493 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 1163748003494 dimer interface [polypeptide binding]; other site 1163748003495 conserved gate region; other site 1163748003496 putative PBP binding loops; other site 1163748003497 ABC-ATPase subunit interface; other site 1163748003498 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1163748003499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748003500 Walker A/P-loop; other site 1163748003501 ATP binding site [chemical binding]; other site 1163748003502 Q-loop/lid; other site 1163748003503 ABC transporter signature motif; other site 1163748003504 Walker B; other site 1163748003505 D-loop; other site 1163748003506 H-loop/switch region; other site 1163748003507 TOBE domain; Region: TOBE_2; pfam08402 1163748003508 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1163748003509 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748003510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1163748003511 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1163748003512 RNA polymerase sigma factor; Provisional; Region: PRK12514 1163748003513 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748003514 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 1163748003515 DNA binding residues [nucleotide binding] 1163748003516 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1163748003517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748003518 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748003519 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748003520 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1163748003521 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1163748003522 tetrameric interface [polypeptide binding]; other site 1163748003523 NAD binding site [chemical binding]; other site 1163748003524 catalytic residues [active] 1163748003525 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748003526 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748003527 active site 1163748003528 enoyl-CoA hydratase; Provisional; Region: PRK09076 1163748003529 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 1163748003530 substrate binding site [chemical binding]; other site 1163748003531 oxyanion hole (OAH) forming residues; other site 1163748003532 trimer interface [polypeptide binding]; other site 1163748003533 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1163748003534 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 1163748003535 substrate binding site [chemical binding]; other site 1163748003536 oxyanion hole (OAH) forming residues; other site 1163748003537 trimer interface [polypeptide binding]; other site 1163748003538 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1163748003539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163748003540 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1163748003541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748003542 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1163748003543 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748003544 acyl-activating enzyme (AAE) consensus motif; other site 1163748003545 AMP binding site [chemical binding]; other site 1163748003546 active site 1163748003547 CoA binding site [chemical binding]; other site 1163748003548 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 1163748003549 CoenzymeA binding site [chemical binding]; other site 1163748003550 subunit interaction site [polypeptide binding]; other site 1163748003551 PHB binding site; other site 1163748003552 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1163748003553 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1163748003554 Walker A/P-loop; other site 1163748003555 ATP binding site [chemical binding]; other site 1163748003556 Q-loop/lid; other site 1163748003557 ABC transporter signature motif; other site 1163748003558 Walker B; other site 1163748003559 D-loop; other site 1163748003560 H-loop/switch region; other site 1163748003561 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1163748003562 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1163748003563 Walker A/P-loop; other site 1163748003564 ATP binding site [chemical binding]; other site 1163748003565 Q-loop/lid; other site 1163748003566 ABC transporter signature motif; other site 1163748003567 Walker B; other site 1163748003568 D-loop; other site 1163748003569 H-loop/switch region; other site 1163748003570 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1163748003571 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1163748003572 putative ligand binding site [chemical binding]; other site 1163748003573 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1163748003574 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 1163748003575 TM-ABC transporter signature motif; other site 1163748003576 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1163748003577 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 1163748003578 TM-ABC transporter signature motif; other site 1163748003579 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 1163748003580 active site 1163748003581 catalytic triad [active] 1163748003582 oxyanion hole [active] 1163748003583 Annotation is too short ref|YP_005429021| 1163748003584 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1163748003585 RNase E inhibitor protein; Provisional; Region: PRK11191 1163748003586 Transposase; Region: HTH_Tnp_1; cl17663 1163748003587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1163748003588 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1163748003589 HTH-like domain; Region: HTH_21; pfam13276 1163748003590 Integrase core domain; Region: rve; pfam00665 1163748003591 Integrase core domain; Region: rve_3; pfam13683 1163748003592 RNase E inhibitor protein; Provisional; Region: PRK11191 1163748003593 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 1163748003594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1163748003595 Transposase; Region: HTH_Tnp_1; pfam01527 1163748003596 potential frameshift: common BLAST hit: gi|237806800|ref|YP_002891240.1| integrase catalytic subunit 1163748003597 HTH-like domain; Region: HTH_21; pfam13276 1163748003598 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1163748003599 Integrase core domain; Region: rve; pfam00665 1163748003600 Integrase core domain; Region: rve_3; pfam13683 1163748003601 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1163748003602 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748003603 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 1163748003604 putative C-terminal domain interface [polypeptide binding]; other site 1163748003605 putative GSH binding site (G-site) [chemical binding]; other site 1163748003606 putative dimer interface [polypeptide binding]; other site 1163748003607 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1163748003608 N-terminal domain interface [polypeptide binding]; other site 1163748003609 dimer interface [polypeptide binding]; other site 1163748003610 substrate binding pocket (H-site) [chemical binding]; other site 1163748003611 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163748003612 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1163748003613 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 1163748003614 S-adenosylmethionine binding site [chemical binding]; other site 1163748003615 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1163748003616 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1163748003617 dimer interface [polypeptide binding]; other site 1163748003618 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 1163748003619 dimerization interface [polypeptide binding]; other site 1163748003620 putative DNA binding site [nucleotide binding]; other site 1163748003621 Predicted transcriptional regulator [Transcription]; Region: COG2378 1163748003622 putative Zn2+ binding site [ion binding]; other site 1163748003623 WYL domain; Region: WYL; pfam13280 1163748003624 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748003625 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 1163748003626 putative C-terminal domain interface [polypeptide binding]; other site 1163748003627 putative GSH binding site (G-site) [chemical binding]; other site 1163748003628 putative dimer interface [polypeptide binding]; other site 1163748003629 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1163748003630 dimer interface [polypeptide binding]; other site 1163748003631 N-terminal domain interface [polypeptide binding]; other site 1163748003632 putative substrate binding pocket (H-site) [chemical binding]; other site 1163748003633 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748003634 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748003635 active site 1163748003636 metal binding site [ion binding]; metal-binding site 1163748003637 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748003638 active site 1163748003639 metal binding site [ion binding]; metal-binding site 1163748003640 transcriptional regulator protein; Region: phnR; TIGR03337 1163748003641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748003642 DNA-binding site [nucleotide binding]; DNA binding site 1163748003643 UTRA domain; Region: UTRA; pfam07702 1163748003644 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1163748003645 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163748003646 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1163748003647 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748003648 catalytic residue [active] 1163748003649 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1163748003650 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 1163748003651 motif II; other site 1163748003652 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 1163748003653 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1163748003654 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1163748003655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748003656 Walker A/P-loop; other site 1163748003657 ATP binding site [chemical binding]; other site 1163748003658 Q-loop/lid; other site 1163748003659 ABC transporter signature motif; other site 1163748003660 Walker B; other site 1163748003661 D-loop; other site 1163748003662 H-loop/switch region; other site 1163748003663 TOBE domain; Region: TOBE_2; pfam08402 1163748003664 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1163748003665 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 1163748003666 dimer interface [polypeptide binding]; other site 1163748003667 conserved gate region; other site 1163748003668 putative PBP binding loops; other site 1163748003669 ABC-ATPase subunit interface; other site 1163748003670 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 1163748003671 dimer interface [polypeptide binding]; other site 1163748003672 conserved gate region; other site 1163748003673 putative PBP binding loops; other site 1163748003674 ABC-ATPase subunit interface; other site 1163748003675 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1163748003676 EamA-like transporter family; Region: EamA; cl17759 1163748003677 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1163748003678 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163748003679 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 1163748003680 putative substrate translocation pore; other site 1163748003681 AMP-binding domain protein; Validated; Region: PRK08315 1163748003682 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748003683 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1163748003684 acyl-activating enzyme (AAE) consensus motif; other site 1163748003685 putative AMP binding site [chemical binding]; other site 1163748003686 putative active site [active] 1163748003687 putative CoA binding site [chemical binding]; other site 1163748003688 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1163748003689 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1163748003690 active site 1163748003691 catalytic residues [active] 1163748003692 metal binding site [ion binding]; metal-binding site 1163748003693 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1163748003694 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748003695 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163748003696 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163748003697 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 1163748003698 carboxyltransferase (CT) interaction site; other site 1163748003699 biotinylation site [posttranslational modification]; other site 1163748003700 enoyl-CoA hydratase; Provisional; Region: PRK05995 1163748003701 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 1163748003702 substrate binding site [chemical binding]; other site 1163748003703 oxyanion hole (OAH) forming residues; other site 1163748003704 trimer interface [polypeptide binding]; other site 1163748003705 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1163748003706 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1163748003707 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1163748003708 isovaleryl-CoA dehydrogenase; Region: PLN02519 1163748003709 substrate binding site [chemical binding]; other site 1163748003710 FAD binding site [chemical binding]; other site 1163748003711 catalytic base [active] 1163748003712 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1163748003713 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163748003714 DNA binding residues [nucleotide binding] 1163748003715 putative dimer interface [polypeptide binding]; other site 1163748003716 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1163748003717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748003718 NAD(P) binding site [chemical binding]; other site 1163748003719 active site 1163748003720 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748003721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748003722 active site 1163748003723 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1163748003724 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 1163748003725 dimer interface [polypeptide binding]; other site 1163748003726 active site 1163748003727 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 1163748003728 PAS domain; Region: PAS_9; pfam13426 1163748003729 putative active site [active] 1163748003730 heme pocket [chemical binding]; other site 1163748003731 PAS domain S-box; Region: sensory_box; TIGR00229 1163748003732 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 1163748003733 putative active site [active] 1163748003734 heme pocket [chemical binding]; other site 1163748003735 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1163748003736 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 1163748003737 Walker A motif; other site 1163748003738 ATP binding site [chemical binding]; other site 1163748003739 Walker B motif; other site 1163748003740 arginine finger; other site 1163748003741 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1163748003742 NMT1-like family; Region: NMT1_2; pfam13379 1163748003743 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1163748003744 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 1163748003745 dimer interface [polypeptide binding]; other site 1163748003746 conserved gate region; other site 1163748003747 putative PBP binding loops; other site 1163748003748 ABC-ATPase subunit interface; other site 1163748003749 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1163748003750 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1163748003751 Walker A/P-loop; other site 1163748003752 ATP binding site [chemical binding]; other site 1163748003753 Q-loop/lid; other site 1163748003754 ABC transporter signature motif; other site 1163748003755 Walker B; other site 1163748003756 D-loop; other site 1163748003757 H-loop/switch region; other site 1163748003758 cyanate hydratase; Validated; Region: PRK02866 1163748003759 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 1163748003760 oligomer interface [polypeptide binding]; other site 1163748003761 active site 1163748003762 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1163748003763 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1163748003764 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1163748003765 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163748003766 PYR/PP interface [polypeptide binding]; other site 1163748003767 dimer interface [polypeptide binding]; other site 1163748003768 TPP binding site [chemical binding]; other site 1163748003769 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163748003770 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 1163748003771 TPP-binding site [chemical binding]; other site 1163748003772 dimer interface [polypeptide binding]; other site 1163748003773 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748003774 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748003775 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748003776 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748003777 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 1163748003778 dimerization interface [polypeptide binding]; other site 1163748003779 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748003780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748003781 dimer interface [polypeptide binding]; other site 1163748003782 putative CheW interface [polypeptide binding]; other site 1163748003783 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163748003784 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163748003785 active site 1163748003786 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748003787 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748003788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748003789 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748003790 metal binding site [ion binding]; metal-binding site 1163748003791 active site 1163748003792 I-site; other site 1163748003793 amidase; Provisional; Region: PRK07869 1163748003794 Amidase; Region: Amidase; pfam01425 1163748003795 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1163748003796 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1163748003797 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1163748003798 putative metal binding site [ion binding]; other site 1163748003799 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 1163748003800 HSP70 interaction site [polypeptide binding]; other site 1163748003801 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163748003802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748003803 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1163748003804 Predicted membrane protein [Function unknown]; Region: COG3174 1163748003805 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1163748003806 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1163748003807 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1163748003808 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163748003809 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 1163748003810 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 1163748003811 Ligand Binding Site [chemical binding]; other site 1163748003812 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 1163748003813 Ligand Binding Site [chemical binding]; other site 1163748003814 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163748003815 PLD-like domain; Region: PLDc_2; pfam13091 1163748003816 putative active site [active] 1163748003817 catalytic site [active] 1163748003818 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1163748003819 PLD-like domain; Region: PLDc_2; pfam13091 1163748003820 putative active site [active] 1163748003821 catalytic site [active] 1163748003822 HI0933-like protein; Region: HI0933_like; pfam03486 1163748003823 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163748003824 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1163748003825 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 1163748003826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748003827 DNA-binding site [nucleotide binding]; DNA binding site 1163748003828 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 1163748003829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748003830 homodimer interface [polypeptide binding]; other site 1163748003831 catalytic residue [active] 1163748003832 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1163748003833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003834 active site 1163748003835 phosphorylation site [posttranslational modification] 1163748003836 intermolecular recognition site; other site 1163748003837 dimerization interface [polypeptide binding]; other site 1163748003838 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 1163748003839 DNA binding residues [nucleotide binding] 1163748003840 dimerization interface [polypeptide binding]; other site 1163748003841 PAS domain S-box; Region: sensory_box; TIGR00229 1163748003842 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 1163748003843 putative active site [active] 1163748003844 heme pocket [chemical binding]; other site 1163748003845 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 1163748003846 dimer interface [polypeptide binding]; other site 1163748003847 phosphorylation site [posttranslational modification] 1163748003848 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748003849 ATP binding site [chemical binding]; other site 1163748003850 Mg2+ binding site [ion binding]; other site 1163748003851 G-X-G motif; other site 1163748003852 acyl-CoA synthetase; Validated; Region: PRK08162 1163748003853 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1163748003854 acyl-activating enzyme (AAE) consensus motif; other site 1163748003855 putative active site [active] 1163748003856 AMP binding site [chemical binding]; other site 1163748003857 putative CoA binding site [chemical binding]; other site 1163748003858 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1163748003859 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1163748003860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1163748003861 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1163748003862 Ferredoxin [Energy production and conversion]; Region: COG1146 1163748003863 4Fe-4S binding domain; Region: Fer4; cl02805 1163748003864 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1163748003865 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1163748003866 MutS domain I; Region: MutS_I; pfam01624 1163748003867 MutS domain II; Region: MutS_II; pfam05188 1163748003868 MutS domain III; Region: MutS_III; pfam05192 1163748003869 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1163748003870 Walker A/P-loop; other site 1163748003871 ATP binding site [chemical binding]; other site 1163748003872 Q-loop/lid; other site 1163748003873 ABC transporter signature motif; other site 1163748003874 Walker B; other site 1163748003875 D-loop; other site 1163748003876 H-loop/switch region; other site 1163748003877 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 1163748003878 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 1163748003879 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1163748003880 Probable Catalytic site; other site 1163748003881 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1163748003882 Competence-damaged protein; Region: CinA; cl00666 1163748003883 recombinase A; Provisional; Region: recA; PRK09354 1163748003884 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 1163748003885 hexamer interface [polypeptide binding]; other site 1163748003886 Walker A motif; other site 1163748003887 ATP binding site [chemical binding]; other site 1163748003888 Walker B motif; other site 1163748003889 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163748003890 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1163748003891 PilZ domain; Region: PilZ; pfam07238 1163748003892 AAA domain; Region: AAA_32; pfam13654 1163748003893 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 1163748003894 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163748003895 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1163748003896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003897 active site 1163748003898 phosphorylation site [posttranslational modification] 1163748003899 intermolecular recognition site; other site 1163748003900 dimerization interface [polypeptide binding]; other site 1163748003901 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 1163748003902 DNA binding residues [nucleotide binding] 1163748003903 dimerization interface [polypeptide binding]; other site 1163748003904 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748003905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748003906 active site 1163748003907 phosphorylation site [posttranslational modification] 1163748003908 intermolecular recognition site; other site 1163748003909 dimerization interface [polypeptide binding]; other site 1163748003910 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163748003911 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 1163748003912 putative active site [active] 1163748003913 heme pocket [chemical binding]; other site 1163748003914 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 1163748003915 dimer interface [polypeptide binding]; other site 1163748003916 phosphorylation site [posttranslational modification] 1163748003917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748003918 ATP binding site [chemical binding]; other site 1163748003919 Mg2+ binding site [ion binding]; other site 1163748003920 G-X-G motif; other site 1163748003921 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 1163748003922 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 1163748003923 active site 2 [active] 1163748003924 active site 1 [active] 1163748003925 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748003926 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163748003927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748003928 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748003929 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748003930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748003931 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163748003932 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 1163748003933 active site 1163748003934 FMN binding site [chemical binding]; other site 1163748003935 2,4-decadienoyl-CoA binding site; other site 1163748003936 catalytic residue [active] 1163748003937 4Fe-4S cluster binding site [ion binding]; other site 1163748003938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1163748003939 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748003940 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1163748003941 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1163748003942 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1163748003943 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748003944 active site 1163748003945 metal binding site [ion binding]; metal-binding site 1163748003946 Rhomboid family; Region: Rhomboid; pfam01694 1163748003947 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1163748003948 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1163748003949 aminopeptidase N; Provisional; Region: pepN; PRK14015 1163748003950 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1163748003951 active site 1163748003952 Zn binding site [ion binding]; other site 1163748003953 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1163748003954 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1163748003955 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1163748003956 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1163748003957 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1163748003958 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1163748003959 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1163748003960 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1163748003961 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1163748003962 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 1163748003963 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163748003964 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 1163748003965 active site 1163748003966 dimer interface [polypeptide binding]; other site 1163748003967 motif 1; other site 1163748003968 motif 2; other site 1163748003969 motif 3; other site 1163748003970 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 1163748003971 anticodon binding site; other site 1163748003972 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1163748003973 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1163748003974 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1163748003975 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1163748003976 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1163748003977 23S rRNA binding site [nucleotide binding]; other site 1163748003978 L21 binding site [polypeptide binding]; other site 1163748003979 L13 binding site [polypeptide binding]; other site 1163748003980 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1163748003981 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1163748003982 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 1163748003983 dimer interface [polypeptide binding]; other site 1163748003984 motif 1; other site 1163748003985 active site 1163748003986 motif 2; other site 1163748003987 motif 3; other site 1163748003988 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1163748003989 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 1163748003990 putative tRNA-binding site [nucleotide binding]; other site 1163748003991 B3/4 domain; Region: B3_4; pfam03483 1163748003992 tRNA synthetase B5 domain; Region: B5; smart00874 1163748003993 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 1163748003994 dimer interface [polypeptide binding]; other site 1163748003995 motif 1; other site 1163748003996 motif 3; other site 1163748003997 motif 2; other site 1163748003998 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1163748003999 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 1163748004000 IHF dimer interface [polypeptide binding]; other site 1163748004001 IHF - DNA interface [nucleotide binding]; other site 1163748004002 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1163748004003 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163748004004 DNA binding residues [nucleotide binding] 1163748004005 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748004006 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163748004007 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 1163748004008 ligand binding site [chemical binding]; other site 1163748004009 flexible hinge region; other site 1163748004010 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 1163748004011 putative switch regulator; other site 1163748004012 non-specific DNA interactions [nucleotide binding]; other site 1163748004013 DNA binding site [nucleotide binding] 1163748004014 sequence specific DNA binding site [nucleotide binding]; other site 1163748004015 putative cAMP binding site [chemical binding]; other site 1163748004016 glycerate kinase; Region: TIGR00045 1163748004017 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748004018 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 1163748004019 putative DNA binding site [nucleotide binding]; other site 1163748004020 putative Zn2+ binding site [ion binding]; other site 1163748004021 AsnC family; Region: AsnC_trans_reg; pfam01037 1163748004022 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1163748004023 Proline dehydrogenase; Region: Pro_dh; pfam01619 1163748004024 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1163748004025 Glutamate binding site [chemical binding]; other site 1163748004026 NAD binding site [chemical binding]; other site 1163748004027 catalytic residues [active] 1163748004028 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1163748004029 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 1163748004030 putative substrate translocation pore; other site 1163748004031 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163748004032 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 1163748004033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163748004034 putative substrate translocation pore; other site 1163748004035 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1163748004036 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 1163748004037 active site 1163748004038 FMN binding site [chemical binding]; other site 1163748004039 substrate binding site [chemical binding]; other site 1163748004040 3Fe-4S cluster binding site [ion binding]; other site 1163748004041 BCCT family transporter; Region: BCCT; pfam02028 1163748004042 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1163748004043 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 1163748004044 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1163748004045 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1163748004046 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 1163748004047 inhibitor binding site; inhibition site 1163748004048 catalytic motif [active] 1163748004049 Catalytic residue [active] 1163748004050 Active site flap [active] 1163748004051 DNA recombination protein RmuC; Provisional; Region: PRK10361 1163748004052 RmuC family; Region: RmuC; pfam02646 1163748004053 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748004054 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748004055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748004056 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1163748004057 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1163748004058 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1163748004059 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748004060 putative fumarate hydratase; Provisional; Region: PRK15392 1163748004061 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1163748004062 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1163748004063 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 1163748004064 active site 1163748004065 DNA binding site [nucleotide binding] 1163748004066 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1163748004067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748004068 NAD(P) binding site [chemical binding]; other site 1163748004069 active site 1163748004070 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1163748004071 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 1163748004072 oligomerisation interface [polypeptide binding]; other site 1163748004073 mobile loop; other site 1163748004074 roof hairpin; other site 1163748004075 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1163748004076 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 1163748004077 ring oligomerisation interface [polypeptide binding]; other site 1163748004078 ATP/Mg binding site [chemical binding]; other site 1163748004079 stacking interactions; other site 1163748004080 hinge regions; other site 1163748004081 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1163748004082 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1163748004083 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 1163748004084 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1163748004085 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163748004086 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163748004087 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163748004088 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163748004089 Peptidase family M48; Region: Peptidase_M48; cl12018 1163748004090 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1163748004091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748004092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748004093 metal binding site [ion binding]; metal-binding site 1163748004094 active site 1163748004095 I-site; other site 1163748004096 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 1163748004097 superoxide dismutase; Provisional; Region: PRK10543 1163748004098 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163748004099 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163748004100 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1163748004101 ATP-grasp domain; Region: ATP-grasp; pfam02222 1163748004102 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1163748004103 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1163748004104 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1163748004105 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1163748004106 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 1163748004107 CPxP motif; other site 1163748004108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748004109 NAD(P) binding site [chemical binding]; other site 1163748004110 active site 1163748004111 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1163748004112 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 1163748004113 dimer interface [polypeptide binding]; other site 1163748004114 active site 1163748004115 serine/threonine transporter SstT; Provisional; Region: PRK13628 1163748004116 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1163748004117 shikimate kinase; Reviewed; Region: aroK; PRK00131 1163748004118 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 1163748004119 ADP binding site [chemical binding]; other site 1163748004120 magnesium binding site [ion binding]; other site 1163748004121 putative shikimate binding site; other site 1163748004122 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1163748004123 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748004124 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748004125 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163748004126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1163748004127 Family of unknown function (DUF490); Region: DUF490; pfam04357 1163748004128 Family of unknown function (DUF490); Region: DUF490; pfam04357 1163748004129 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1163748004130 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1163748004131 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1163748004132 catalytic triad [active] 1163748004133 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 1163748004134 LexA repressor; Validated; Region: PRK00215 1163748004135 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1163748004136 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 1163748004137 Catalytic site [active] 1163748004138 Cell division inhibitor SulA; Region: SulA; cl01880 1163748004139 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1163748004140 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748004141 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1163748004142 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 1163748004143 Walker A motif; other site 1163748004144 ATP binding site [chemical binding]; other site 1163748004145 Walker B motif; other site 1163748004146 arginine finger; other site 1163748004147 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748004148 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163748004149 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 1163748004150 putative active site [active] 1163748004151 heme pocket [chemical binding]; other site 1163748004152 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 1163748004153 dimer interface [polypeptide binding]; other site 1163748004154 phosphorylation site [posttranslational modification] 1163748004155 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748004156 ATP binding site [chemical binding]; other site 1163748004157 Mg2+ binding site [ion binding]; other site 1163748004158 G-X-G motif; other site 1163748004159 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748004160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004161 active site 1163748004162 phosphorylation site [posttranslational modification] 1163748004163 intermolecular recognition site; other site 1163748004164 dimerization interface [polypeptide binding]; other site 1163748004165 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 1163748004166 Walker A motif; other site 1163748004167 ATP binding site [chemical binding]; other site 1163748004168 Walker B motif; other site 1163748004169 arginine finger; other site 1163748004170 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748004171 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1163748004172 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1163748004173 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1163748004174 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1163748004175 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1163748004176 MgtE intracellular N domain; Region: MgtE_N; smart00924 1163748004177 FliG C-terminal domain; Region: FliG_C; pfam01706 1163748004178 potential frameshift: common BLAST hit: gi|120554912|ref|YP_959263.1| flagellar assembly protein FliH 1163748004179 Flagellar assembly protein FliH; Region: FliH; pfam02108 1163748004180 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1163748004181 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163748004182 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 1163748004183 Walker A motif/ATP binding site; other site 1163748004184 Walker B motif; other site 1163748004185 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1163748004186 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 1163748004187 anti sigma factor interaction site; other site 1163748004188 regulatory phosphorylation site [posttranslational modification]; other site 1163748004189 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748004190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004191 active site 1163748004192 phosphorylation site [posttranslational modification] 1163748004193 intermolecular recognition site; other site 1163748004194 dimerization interface [polypeptide binding]; other site 1163748004195 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1163748004196 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1163748004197 putative binding surface; other site 1163748004198 active site 1163748004199 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1163748004200 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1163748004201 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1163748004202 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1163748004203 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1163748004204 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1163748004205 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1163748004206 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1163748004207 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1163748004208 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1163748004209 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1163748004210 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1163748004211 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1163748004212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748004213 active site 1163748004214 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1163748004215 FHIPEP family; Region: FHIPEP; pfam00771 1163748004216 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1163748004217 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 1163748004218 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1163748004219 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 1163748004220 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 1163748004221 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1163748004222 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748004223 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163748004224 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 1163748004225 DNA binding residues [nucleotide binding] 1163748004226 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1163748004227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004228 active site 1163748004229 phosphorylation site [posttranslational modification] 1163748004230 intermolecular recognition site; other site 1163748004231 dimerization interface [polypeptide binding]; other site 1163748004232 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1163748004233 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 1163748004234 putative binding surface; other site 1163748004235 active site 1163748004236 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163748004237 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163748004238 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748004239 ATP binding site [chemical binding]; other site 1163748004240 Mg2+ binding site [ion binding]; other site 1163748004241 G-X-G motif; other site 1163748004242 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 1163748004243 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1163748004244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004245 active site 1163748004246 phosphorylation site [posttranslational modification] 1163748004247 intermolecular recognition site; other site 1163748004248 dimerization interface [polypeptide binding]; other site 1163748004249 CheB methylesterase; Region: CheB_methylest; pfam01339 1163748004250 flagellar motor protein; Reviewed; Region: motC; PRK09109 1163748004251 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163748004252 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1163748004253 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1163748004254 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748004255 ligand binding site [chemical binding]; other site 1163748004256 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163748004257 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 1163748004258 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 1163748004259 Magnesium ion binding site [ion binding]; other site 1163748004260 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 1163748004261 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 1163748004262 putative CheA interaction surface; other site 1163748004263 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1163748004264 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 1163748004265 S-adenosylmethionine binding site [chemical binding]; other site 1163748004266 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163748004267 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1163748004268 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 1163748004269 Walker A motif; other site 1163748004270 ATP binding site [chemical binding]; other site 1163748004271 Walker B motif; other site 1163748004272 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163748004273 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1163748004274 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1163748004275 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1163748004276 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1163748004277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748004278 Walker A/P-loop; other site 1163748004279 ATP binding site [chemical binding]; other site 1163748004280 Q-loop/lid; other site 1163748004281 ABC transporter signature motif; other site 1163748004282 Walker B; other site 1163748004283 D-loop; other site 1163748004284 H-loop/switch region; other site 1163748004285 heme exporter protein CcmB; Region: ccmB; TIGR01190 1163748004286 heme exporter protein CcmC; Region: ccmC; TIGR01191 1163748004287 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1163748004288 CcmE; Region: CcmE; pfam03100 1163748004289 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1163748004290 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1163748004291 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1163748004292 catalytic residues [active] 1163748004293 central insert; other site 1163748004294 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1163748004295 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1163748004296 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1163748004297 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 1163748004298 binding surface 1163748004299 TPR motif; other site 1163748004300 Oxygen tolerance; Region: BatD; pfam13584 1163748004301 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1163748004302 metal ion-dependent adhesion site (MIDAS); other site 1163748004303 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 1163748004304 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163748004305 TPR motif; other site 1163748004306 binding surface 1163748004307 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 1163748004308 metal ion-dependent adhesion site (MIDAS); other site 1163748004309 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1163748004310 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1163748004311 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163748004312 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163748004313 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 1163748004314 Walker A motif; other site 1163748004315 ATP binding site [chemical binding]; other site 1163748004316 Walker B motif; other site 1163748004317 arginine finger; other site 1163748004318 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1163748004319 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1163748004320 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1163748004321 active site clefts [active] 1163748004322 zinc binding site [ion binding]; other site 1163748004323 dimer interface [polypeptide binding]; other site 1163748004324 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1163748004325 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1163748004326 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 1163748004327 S-adenosylmethionine binding site [chemical binding]; other site 1163748004328 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1163748004329 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 1163748004330 S-adenosylmethionine binding site [chemical binding]; other site 1163748004331 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1163748004332 Lumazine binding domain; Region: Lum_binding; pfam00677 1163748004333 Lumazine binding domain; Region: Lum_binding; pfam00677 1163748004334 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748004335 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748004336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1163748004337 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748004338 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748004339 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163748004340 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163748004341 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1163748004342 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1163748004343 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1163748004344 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1163748004345 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 1163748004346 ATP binding site [chemical binding]; other site 1163748004347 putative Mg++ binding site [ion binding]; other site 1163748004348 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 1163748004349 nucleotide binding region [chemical binding]; other site 1163748004350 ATP-binding site [chemical binding]; other site 1163748004351 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1163748004352 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1163748004353 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1163748004354 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163748004355 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1163748004356 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 1163748004357 E3 interaction surface; other site 1163748004358 lipoyl attachment site [posttranslational modification]; other site 1163748004359 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1163748004360 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1163748004361 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1163748004362 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1163748004363 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1163748004364 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1163748004365 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1163748004366 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 1163748004367 catalytic loop [active] 1163748004368 iron binding site [ion binding]; other site 1163748004369 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 1163748004370 FAD binding pocket [chemical binding]; other site 1163748004371 FAD binding motif [chemical binding]; other site 1163748004372 phosphate binding motif [ion binding]; other site 1163748004373 beta-alpha-beta structure motif; other site 1163748004374 NAD binding pocket [chemical binding]; other site 1163748004375 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1163748004376 ApbE family; Region: ApbE; pfam02424 1163748004377 Protein of unknown function (DUF539); Region: DUF539; cl01129 1163748004378 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1163748004379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748004380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748004381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748004382 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1163748004383 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1163748004384 active site 1163748004385 catalytic site [active] 1163748004386 metal binding site [ion binding]; metal-binding site 1163748004387 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1163748004388 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1163748004389 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1163748004390 putative metal binding site [ion binding]; other site 1163748004391 transaldolase-like protein; Provisional; Region: PTZ00411 1163748004392 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1163748004393 active site 1163748004394 dimer interface [polypeptide binding]; other site 1163748004395 catalytic residue [active] 1163748004396 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1163748004397 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 1163748004398 FMN binding site [chemical binding]; other site 1163748004399 active site 1163748004400 catalytic residues [active] 1163748004401 substrate binding site [chemical binding]; other site 1163748004402 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1163748004403 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1163748004404 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1163748004405 HPP family; Region: HPP; pfam04982 1163748004406 fructokinase; Reviewed; Region: PRK09557 1163748004407 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163748004408 nucleotide binding site [chemical binding]; other site 1163748004409 Nitronate monooxygenase; Region: NMO; pfam03060 1163748004410 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1163748004411 FMN binding site [chemical binding]; other site 1163748004412 substrate binding site [chemical binding]; other site 1163748004413 putative catalytic residue [active] 1163748004414 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 1163748004415 substrate binding pocket [chemical binding]; other site 1163748004416 membrane-bound complex binding site; other site 1163748004417 hinge residues; other site 1163748004418 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 1163748004419 active site 1163748004420 dimer interfaces [polypeptide binding]; other site 1163748004421 catalytic residues [active] 1163748004422 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 1163748004423 short chain dehydrogenase; Provisional; Region: PRK07832 1163748004424 putative NAD(P) binding site [chemical binding]; other site 1163748004425 homotetramer interface [polypeptide binding]; other site 1163748004426 active site 1163748004427 homodimer interface [polypeptide binding]; other site 1163748004428 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 1163748004429 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1163748004430 putative active site [active] 1163748004431 Tetratricopeptide repeat; Region: TPR_15; pfam13429 1163748004432 Tetratricopeptide repeats; Region: TPR; smart00028 1163748004433 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1163748004434 GAF domain; Region: GAF_3; pfam13492 1163748004435 HEAT repeats; Region: HEAT_2; pfam13646 1163748004436 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_3; cd03813 1163748004437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748004438 Predicted membrane protein [Function unknown]; Region: COG4267 1163748004439 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1163748004440 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1163748004441 homodimer interface [polypeptide binding]; other site 1163748004442 substrate-cofactor binding pocket; other site 1163748004443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748004444 catalytic residue [active] 1163748004445 selenophosphate synthetase; Provisional; Region: PRK00943 1163748004446 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1163748004447 dimerization interface [polypeptide binding]; other site 1163748004448 putative ATP binding site [chemical binding]; other site 1163748004449 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1163748004450 Cytochrome P450; Region: p450; cl12078 1163748004451 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1163748004452 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163748004453 Predicted permeases [General function prediction only]; Region: COG0679 1163748004454 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1163748004455 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1163748004456 metal binding site [ion binding]; metal-binding site 1163748004457 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1163748004458 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163748004459 HIGH motif; other site 1163748004460 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163748004461 active site 1163748004462 KMSKS motif; other site 1163748004463 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 1163748004464 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1163748004465 metal-binding site 1163748004466 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1163748004467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004468 active site 1163748004469 phosphorylation site [posttranslational modification] 1163748004470 intermolecular recognition site; other site 1163748004471 dimerization interface [polypeptide binding]; other site 1163748004472 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1163748004473 PEGA domain; Region: PEGA; pfam08308 1163748004474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1163748004475 MORN repeat; Region: MORN; cl14787 1163748004476 MORN repeat; Region: MORN; cl14787 1163748004477 MORN repeat; Region: MORN; cl14787 1163748004478 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1163748004479 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163748004480 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163748004481 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1163748004482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163748004483 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1163748004484 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1163748004485 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163748004486 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163748004487 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163748004488 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1163748004489 PilZ domain; Region: PilZ; pfam07238 1163748004490 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1163748004491 Bacterial SH3 domain; Region: SH3_3; pfam08239 1163748004492 YciI-like protein; Reviewed; Region: PRK11370 1163748004493 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1163748004494 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1163748004495 active site 1163748004496 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1163748004497 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1163748004498 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 1163748004499 homodimer interface [polypeptide binding]; other site 1163748004500 oligonucleotide binding site [chemical binding]; other site 1163748004501 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1163748004502 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 1163748004503 RNA binding surface [nucleotide binding]; other site 1163748004504 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163748004505 active site 1163748004506 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163748004507 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 1163748004508 active site 1163748004509 motif I; other site 1163748004510 motif II; other site 1163748004511 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1163748004512 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1163748004513 tandem repeat interface [polypeptide binding]; other site 1163748004514 oligomer interface [polypeptide binding]; other site 1163748004515 active site residues [active] 1163748004516 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 1163748004517 Maf-like protein; Region: Maf; pfam02545 1163748004518 active site 1163748004519 dimer interface [polypeptide binding]; other site 1163748004520 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1163748004521 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1163748004522 putative phosphate acyltransferase; Provisional; Region: PRK05331 1163748004523 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1163748004524 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1163748004525 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1163748004526 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1163748004527 NAD(P) binding site [chemical binding]; other site 1163748004528 homotetramer interface [polypeptide binding]; other site 1163748004529 homodimer interface [polypeptide binding]; other site 1163748004530 active site 1163748004531 acyl carrier protein; Provisional; Region: acpP; PRK00982 1163748004532 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 1163748004533 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1163748004534 dimer interface [polypeptide binding]; other site 1163748004535 active site 1163748004536 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1163748004537 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 1163748004538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748004539 catalytic residue [active] 1163748004540 YceG-like family; Region: YceG; pfam02618 1163748004541 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1163748004542 dimerization interface [polypeptide binding]; other site 1163748004543 thymidylate kinase; Validated; Region: tmk; PRK00698 1163748004544 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 1163748004545 TMP-binding site; other site 1163748004546 ATP-binding site [chemical binding]; other site 1163748004547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748004548 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748004549 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1163748004550 Na binding site [ion binding]; other site 1163748004551 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1163748004552 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 1163748004553 substrate binding site [chemical binding]; other site 1163748004554 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1163748004555 substrate binding site [chemical binding]; other site 1163748004556 ligand binding site [chemical binding]; other site 1163748004557 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1163748004558 active site 1163748004559 dinuclear metal binding site [ion binding]; other site 1163748004560 dimerization interface [polypeptide binding]; other site 1163748004561 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1163748004562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748004563 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1163748004564 putative dimerization interface [polypeptide binding]; other site 1163748004565 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1163748004566 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 1163748004567 FAD binding pocket [chemical binding]; other site 1163748004568 FAD binding motif [chemical binding]; other site 1163748004569 phosphate binding motif [ion binding]; other site 1163748004570 beta-alpha-beta structure motif; other site 1163748004571 NAD binding pocket [chemical binding]; other site 1163748004572 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 1163748004573 active site 1163748004574 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163748004575 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 1163748004576 ligand binding site [chemical binding]; other site 1163748004577 flexible hinge region; other site 1163748004578 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 1163748004579 putative switch regulator; other site 1163748004580 non-specific DNA interactions [nucleotide binding]; other site 1163748004581 DNA binding site [nucleotide binding] 1163748004582 sequence specific DNA binding site [nucleotide binding]; other site 1163748004583 putative cAMP binding site [chemical binding]; other site 1163748004584 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748004585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004586 active site 1163748004587 phosphorylation site [posttranslational modification] 1163748004588 intermolecular recognition site; other site 1163748004589 dimerization interface [polypeptide binding]; other site 1163748004590 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1163748004591 cation transport regulator; Reviewed; Region: chaB; PRK09582 1163748004592 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163748004593 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748004594 putative active site [active] 1163748004595 putative metal binding site [ion binding]; other site 1163748004596 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 1163748004597 substrate binding site [chemical binding]; other site 1163748004598 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1163748004599 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163748004600 active site 1163748004601 HIGH motif; other site 1163748004602 nucleotide binding site [chemical binding]; other site 1163748004603 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1163748004604 KMSKS motif; other site 1163748004605 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1163748004606 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1163748004607 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163748004608 active site 1163748004609 HIGH motif; other site 1163748004610 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163748004611 KMSKS motif; other site 1163748004612 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1163748004613 tRNA binding surface [nucleotide binding]; other site 1163748004614 anticodon binding site; other site 1163748004615 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1163748004616 active site 1163748004617 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1163748004618 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1163748004619 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1163748004620 homodimer interface [polypeptide binding]; other site 1163748004621 NADP binding site [chemical binding]; other site 1163748004622 substrate binding site [chemical binding]; other site 1163748004623 trigger factor; Provisional; Region: tig; PRK01490 1163748004624 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748004625 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1163748004626 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1163748004627 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1163748004628 oligomer interface [polypeptide binding]; other site 1163748004629 active site residues [active] 1163748004630 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1163748004631 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1163748004632 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 1163748004633 Walker A motif; other site 1163748004634 ATP binding site [chemical binding]; other site 1163748004635 Walker B motif; other site 1163748004636 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163748004637 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1163748004638 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1163748004639 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 1163748004640 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 1163748004641 Walker A motif; other site 1163748004642 ATP binding site [chemical binding]; other site 1163748004643 Walker B motif; other site 1163748004644 arginine finger; other site 1163748004645 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163748004646 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 1163748004647 IHF dimer interface [polypeptide binding]; other site 1163748004648 IHF - DNA interface [nucleotide binding]; other site 1163748004649 periplasmic folding chaperone; Provisional; Region: PRK10788 1163748004650 SurA N-terminal domain; Region: SurA_N_3; cl07813 1163748004651 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163748004652 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1163748004653 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1163748004654 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 1163748004655 putative active site [active] 1163748004656 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1163748004657 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1163748004658 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1163748004659 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1163748004660 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 1163748004661 putative active site [active] 1163748004662 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1163748004663 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1163748004664 active site 1163748004665 intersubunit interface [polypeptide binding]; other site 1163748004666 catalytic residue [active] 1163748004667 pyruvate kinase; Provisional; Region: PRK05826 1163748004668 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 1163748004669 domain interfaces; other site 1163748004670 active site 1163748004671 phosphogluconate dehydratase; Validated; Region: PRK09054 1163748004672 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1163748004673 glucokinase; Provisional; Region: glk; PRK00292 1163748004674 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163748004675 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1163748004676 putative uracil binding site [chemical binding]; other site 1163748004677 putative active site [active] 1163748004678 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1163748004679 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1163748004680 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1163748004681 putative ligand binding site [chemical binding]; other site 1163748004682 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1163748004683 ApbE family; Region: ApbE; pfam02424 1163748004684 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1163748004685 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1163748004686 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1163748004687 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1163748004688 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 1163748004689 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163748004690 catalytic residues [active] 1163748004691 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 1163748004692 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 1163748004693 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1163748004694 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 1163748004695 binding surface 1163748004696 TPR motif; other site 1163748004697 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1163748004698 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1163748004699 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1163748004700 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 1163748004701 binding surface 1163748004702 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163748004703 TPR motif; other site 1163748004704 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1163748004705 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748004706 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163748004707 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748004708 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1163748004709 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748004710 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1163748004711 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1163748004712 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748004713 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 1163748004714 PAS domain; Region: PAS_9; pfam13426 1163748004715 putative active site [active] 1163748004716 heme pocket [chemical binding]; other site 1163748004717 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748004718 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748004719 metal binding site [ion binding]; metal-binding site 1163748004720 active site 1163748004721 I-site; other site 1163748004722 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1163748004723 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1163748004724 Phasin protein; Region: Phasin_2; cl11491 1163748004725 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1163748004726 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163748004727 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 1163748004728 transmembrane helices; other site 1163748004729 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_C39G; cd02423 1163748004730 putative active site [active] 1163748004731 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1163748004732 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 1163748004733 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 1163748004734 putative active site [active] 1163748004735 putative metal binding site [ion binding]; other site 1163748004736 DNA-J related protein; Region: DNAJ_related; pfam12339 1163748004737 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 1163748004738 HSP70 interaction site [polypeptide binding]; other site 1163748004739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748004740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748004741 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1163748004742 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 1163748004743 Ligand Binding Site [chemical binding]; other site 1163748004744 Family description; Region: DsbD_2; pfam13386 1163748004745 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1163748004746 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1163748004747 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163748004748 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 1163748004749 metal-binding site [ion binding] 1163748004750 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163748004751 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 1163748004752 motif II; other site 1163748004753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1163748004754 FixH; Region: FixH; pfam05751 1163748004755 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1163748004756 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163748004757 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 1163748004758 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1163748004759 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1163748004760 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748004761 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163748004762 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 1163748004763 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1163748004764 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1163748004765 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 1163748004766 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1163748004767 Putative water exit pathway; other site 1163748004768 Binuclear center (active site) [active] 1163748004769 Putative proton exit pathway; other site 1163748004770 Low-spin heme binding site [chemical binding]; other site 1163748004771 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163748004772 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163748004773 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748004774 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748004775 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748004776 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748004777 metal binding site [ion binding]; metal-binding site 1163748004778 active site 1163748004779 I-site; other site 1163748004780 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1163748004781 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1163748004782 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1163748004783 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 1163748004784 CPxP motif; other site 1163748004785 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1163748004786 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1163748004787 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1163748004788 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748004789 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 1163748004790 DsbD alpha interface [polypeptide binding]; other site 1163748004791 catalytic residues [active] 1163748004792 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1163748004793 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1163748004794 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 1163748004795 ATP binding site [chemical binding]; other site 1163748004796 Mg++ binding site [ion binding]; other site 1163748004797 motif III; other site 1163748004798 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 1163748004799 nucleotide binding region [chemical binding]; other site 1163748004800 ATP-binding site [chemical binding]; other site 1163748004801 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1163748004802 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1163748004803 ligand binding site [chemical binding]; other site 1163748004804 NAD binding site [chemical binding]; other site 1163748004805 catalytic site [active] 1163748004806 homodimer interface [polypeptide binding]; other site 1163748004807 heat shock protein HtpX; Provisional; Region: PRK05457 1163748004808 aminotransferase AlaT; Validated; Region: PRK09265 1163748004809 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 1163748004810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748004811 homodimer interface [polypeptide binding]; other site 1163748004812 catalytic residue [active] 1163748004813 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 1163748004814 catalytic residues [active] 1163748004815 dimer interface [polypeptide binding]; other site 1163748004816 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163748004817 MarR family; Region: MarR; pfam01047 1163748004818 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1163748004819 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 1163748004820 dimer interface [polypeptide binding]; other site 1163748004821 phosphorylation site [posttranslational modification] 1163748004822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748004823 ATP binding site [chemical binding]; other site 1163748004824 Mg2+ binding site [ion binding]; other site 1163748004825 G-X-G motif; other site 1163748004826 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748004827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748004828 active site 1163748004829 phosphorylation site [posttranslational modification] 1163748004830 intermolecular recognition site; other site 1163748004831 dimerization interface [polypeptide binding]; other site 1163748004832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748004833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748004834 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 1163748004835 substrate binding pocket [chemical binding]; other site 1163748004836 dimerization interface [polypeptide binding]; other site 1163748004837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748004838 Coenzyme A binding pocket [chemical binding]; other site 1163748004839 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1163748004840 Cupin-like domain; Region: Cupin_8; pfam13621 1163748004841 adenylosuccinate lyase; Provisional; Region: PRK09285 1163748004842 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1163748004843 tetramer interface [polypeptide binding]; other site 1163748004844 active site 1163748004845 putative lysogenization regulator; Reviewed; Region: PRK00218 1163748004846 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1163748004847 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 1163748004848 Ligand Binding Site [chemical binding]; other site 1163748004849 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1163748004850 nudix motif; other site 1163748004851 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163748004852 pseudouridine synthase; Region: TIGR00093 1163748004853 active site 1163748004854 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 1163748004855 DNA-binding site [nucleotide binding]; DNA binding site 1163748004856 RNA-binding motif; other site 1163748004857 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1163748004858 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1163748004859 Clp amino terminal domain; Region: Clp_N; pfam02861 1163748004860 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 1163748004861 Walker A motif; other site 1163748004862 ATP binding site [chemical binding]; other site 1163748004863 Walker B motif; other site 1163748004864 arginine finger; other site 1163748004865 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 1163748004866 Walker A motif; other site 1163748004867 ATP binding site [chemical binding]; other site 1163748004868 Walker B motif; other site 1163748004869 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163748004870 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1163748004871 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 1163748004872 rRNA binding site [nucleotide binding]; other site 1163748004873 predicted 30S ribosome binding site; other site 1163748004874 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1163748004875 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1163748004876 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1163748004877 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1163748004878 thioredoxin reductase; Provisional; Region: PRK10262 1163748004879 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748004880 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748004881 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163748004882 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 1163748004883 Walker A motif; other site 1163748004884 ATP binding site [chemical binding]; other site 1163748004885 Walker B motif; other site 1163748004886 arginine finger; other site 1163748004887 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1163748004888 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1163748004889 putative active site; other site 1163748004890 catalytic triad [active] 1163748004891 putative dimer interface [polypeptide binding]; other site 1163748004892 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1163748004893 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1163748004894 PilZ domain; Region: PilZ; pfam07238 1163748004895 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1163748004896 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163748004897 FtsX-like permease family; Region: FtsX; pfam02687 1163748004898 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1163748004899 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748004900 Walker A/P-loop; other site 1163748004901 ATP binding site [chemical binding]; other site 1163748004902 Q-loop/lid; other site 1163748004903 ABC transporter signature motif; other site 1163748004904 Walker B; other site 1163748004905 D-loop; other site 1163748004906 H-loop/switch region; other site 1163748004907 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1163748004908 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1163748004909 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1163748004910 Competence protein; Region: Competence; pfam03772 1163748004911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1163748004912 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1163748004913 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163748004914 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748004915 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1163748004916 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748004917 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1163748004918 Walker A/P-loop; other site 1163748004919 ATP binding site [chemical binding]; other site 1163748004920 Q-loop/lid; other site 1163748004921 ABC transporter signature motif; other site 1163748004922 Walker B; other site 1163748004923 D-loop; other site 1163748004924 H-loop/switch region; other site 1163748004925 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1163748004926 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1163748004927 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1163748004928 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1163748004929 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1163748004930 Ligand binding site; other site 1163748004931 oligomer interface; other site 1163748004932 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1163748004933 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1163748004934 active site 1163748004935 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1163748004936 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748004937 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1163748004938 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1163748004939 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 1163748004940 dimer interface [polypeptide binding]; other site 1163748004941 motif 1; other site 1163748004942 active site 1163748004943 motif 2; other site 1163748004944 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 1163748004945 putative deacylase active site [active] 1163748004946 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 1163748004947 active site 1163748004948 motif 3; other site 1163748004949 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 1163748004950 anticodon binding site; other site 1163748004951 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748004952 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748004953 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748004954 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 1163748004955 putative DNA binding site [nucleotide binding]; other site 1163748004956 putative Zn2+ binding site [ion binding]; other site 1163748004957 AsnC family; Region: AsnC_trans_reg; pfam01037 1163748004958 2-isopropylmalate synthase; Validated; Region: PRK03739 1163748004959 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1163748004960 active site 1163748004961 catalytic residues [active] 1163748004962 metal binding site [ion binding]; metal-binding site 1163748004963 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1163748004964 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 1163748004965 DNA-binding site [nucleotide binding]; DNA binding site 1163748004966 RNA-binding motif; other site 1163748004967 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1163748004968 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1163748004969 acyl-activating enzyme (AAE) consensus motif; other site 1163748004970 putative AMP binding site [chemical binding]; other site 1163748004971 putative active site [active] 1163748004972 putative CoA binding site [chemical binding]; other site 1163748004973 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1163748004974 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 1163748004975 generic binding surface II; other site 1163748004976 generic binding surface I; other site 1163748004977 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1163748004978 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 1163748004979 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1163748004980 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 1163748004981 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 1163748004982 active site 1163748004983 GMP synthase; Reviewed; Region: guaA; PRK00074 1163748004984 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1163748004985 AMP/PPi binding site [chemical binding]; other site 1163748004986 candidate oxyanion hole; other site 1163748004987 catalytic triad [active] 1163748004988 potential glutamine specificity residues [chemical binding]; other site 1163748004989 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 1163748004990 ATP Binding subdomain [chemical binding]; other site 1163748004991 Ligand Binding sites [chemical binding]; other site 1163748004992 Dimerization subdomain; other site 1163748004993 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 1163748004994 nucleoside/Zn binding site; other site 1163748004995 dimer interface [polypeptide binding]; other site 1163748004996 catalytic motif [active] 1163748004997 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1163748004998 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1163748004999 NAD binding site [chemical binding]; other site 1163748005000 homodimer interface [polypeptide binding]; other site 1163748005001 active site 1163748005002 substrate binding site [chemical binding]; other site 1163748005003 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1163748005004 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1163748005005 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1163748005006 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1163748005007 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1163748005008 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1163748005009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748005010 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1163748005011 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 1163748005012 dimer interface [polypeptide binding]; other site 1163748005013 anticodon binding site; other site 1163748005014 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 1163748005015 homodimer interface [polypeptide binding]; other site 1163748005016 motif 1; other site 1163748005017 active site 1163748005018 motif 2; other site 1163748005019 GAD domain; Region: GAD; pfam02938 1163748005020 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 1163748005021 active site 1163748005022 motif 3; other site 1163748005023 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 1163748005024 active site 1163748005025 putative DNA-binding cleft [nucleotide binding]; other site 1163748005026 dimer interface [polypeptide binding]; other site 1163748005027 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1163748005028 RuvA N terminal domain; Region: RuvA_N; pfam01330 1163748005029 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1163748005030 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1163748005031 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 1163748005032 Walker A motif; other site 1163748005033 ATP binding site [chemical binding]; other site 1163748005034 Walker B motif; other site 1163748005035 arginine finger; other site 1163748005036 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1163748005037 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 1163748005038 active site 1163748005039 TolQ protein; Region: tolQ; TIGR02796 1163748005040 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163748005041 TolR protein; Region: tolR; TIGR02801 1163748005042 TolA protein; Region: tolA_full; TIGR02794 1163748005043 TonB C terminal; Region: TonB_2; pfam13103 1163748005044 translocation protein TolB; Provisional; Region: tolB; PRK00178 1163748005045 TolB amino-terminal domain; Region: TolB_N; pfam04052 1163748005046 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163748005047 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163748005048 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163748005049 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163748005050 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748005051 ligand binding site [chemical binding]; other site 1163748005052 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1163748005053 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 1163748005054 binding surface 1163748005055 TPR motif; other site 1163748005056 quinolinate synthetase; Provisional; Region: PRK09375 1163748005057 Peptidase family M48; Region: Peptidase_M48; cl12018 1163748005058 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 1163748005059 binding surface 1163748005060 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163748005061 TPR motif; other site 1163748005062 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1163748005063 CPxP motif; other site 1163748005064 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163748005065 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163748005066 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163748005067 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 1163748005068 catalytic triad [active] 1163748005069 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1163748005070 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1163748005071 dimer interface [polypeptide binding]; other site 1163748005072 active site 1163748005073 catalytic residue [active] 1163748005074 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1163748005075 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1163748005076 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1163748005077 ATP binding site [chemical binding]; other site 1163748005078 active site 1163748005079 substrate binding site [chemical binding]; other site 1163748005080 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1163748005081 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1163748005082 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163748005083 putative NAD(P) binding site [chemical binding]; other site 1163748005084 active site 1163748005085 putative substrate binding site [chemical binding]; other site 1163748005086 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163748005087 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163748005088 active site 1163748005089 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1163748005090 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163748005091 FixH; Region: FixH; pfam05751 1163748005092 YceI-like domain; Region: YceI; smart00867 1163748005093 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1163748005094 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1163748005095 putative NAD(P) binding site [chemical binding]; other site 1163748005096 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1163748005097 active site 1163748005098 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748005099 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 1163748005100 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1163748005101 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1163748005102 RibD C-terminal domain; Region: RibD_C; cl17279 1163748005103 Helix-turn-helix domain; Region: HTH_19; pfam12844 1163748005104 non-specific DNA binding site [nucleotide binding]; other site 1163748005105 salt bridge; other site 1163748005106 sequence-specific DNA binding site [nucleotide binding]; other site 1163748005107 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1163748005108 active site 1163748005109 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1163748005110 tetramer interface; other site 1163748005111 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1163748005112 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1163748005113 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1163748005114 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1163748005115 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163748005116 Ligand binding site; other site 1163748005117 DXD motif; other site 1163748005118 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 1163748005119 putative activation loop; other site 1163748005120 putative metal binding site [ion binding]; other site 1163748005121 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1163748005122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748005123 DNA-binding site [nucleotide binding]; DNA binding site 1163748005124 FCD domain; Region: FCD; pfam07729 1163748005125 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1163748005126 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 1163748005127 tetramer interface [polypeptide binding]; other site 1163748005128 active site 1163748005129 Mg2+/Mn2+ binding site [ion binding]; other site 1163748005130 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1163748005131 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 1163748005132 dimer interface [polypeptide binding]; other site 1163748005133 active site 1163748005134 citrylCoA binding site [chemical binding]; other site 1163748005135 oxalacetate/citrate binding site [chemical binding]; other site 1163748005136 coenzyme A binding site [chemical binding]; other site 1163748005137 catalytic triad [active] 1163748005138 aconitate hydratase; Validated; Region: PRK09277 1163748005139 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1163748005140 substrate binding site [chemical binding]; other site 1163748005141 ligand binding site [chemical binding]; other site 1163748005142 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 1163748005143 substrate binding site [chemical binding]; other site 1163748005144 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1163748005145 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1163748005146 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1163748005147 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 1163748005148 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1163748005149 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1163748005150 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1163748005151 SLBB domain; Region: SLBB; pfam10531 1163748005152 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1163748005153 Chain length determinant protein; Region: Wzz; cl15801 1163748005154 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1163748005155 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1163748005156 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 1163748005157 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 1163748005158 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 1163748005159 putative active site [active] 1163748005160 putative catalytic site [active] 1163748005161 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1163748005162 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 1163748005163 DXD motif; other site 1163748005164 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1163748005165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748005166 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 1163748005167 putative ADP-binding pocket [chemical binding]; other site 1163748005168 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 1163748005169 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 1163748005170 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163748005171 active site 1163748005172 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748005173 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 1163748005174 active site 1163748005175 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748005176 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 1163748005177 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1163748005178 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1163748005179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748005180 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 1163748005181 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1163748005182 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1163748005183 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1163748005184 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 1163748005185 active site 1163748005186 dimer interface [polypeptide binding]; other site 1163748005187 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 1163748005188 Ligand Binding Site [chemical binding]; other site 1163748005189 Molecular Tunnel; other site 1163748005190 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748005191 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 1163748005192 active site 1163748005193 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748005194 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 1163748005195 active site 1163748005196 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1163748005197 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1163748005198 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1163748005199 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1163748005200 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 1163748005201 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 1163748005202 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748005203 PA14 domain; Region: PA14; cl08459 1163748005204 PA14 domain; Region: PA14; cl08459 1163748005205 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 1163748005206 Interdomain contacts; other site 1163748005207 Cytokine receptor motif; other site 1163748005208 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1163748005209 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 1163748005210 TPR motif; other site 1163748005211 binding surface 1163748005212 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 1163748005213 binding surface 1163748005214 TPR motif; other site 1163748005215 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 1163748005216 binding surface 1163748005217 TPR motif; other site 1163748005218 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1163748005219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748005220 active site 1163748005221 phosphorylation site [posttranslational modification] 1163748005222 intermolecular recognition site; other site 1163748005223 dimerization interface [polypeptide binding]; other site 1163748005224 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 1163748005225 Walker A motif; other site 1163748005226 ATP binding site [chemical binding]; other site 1163748005227 Walker B motif; other site 1163748005228 arginine finger; other site 1163748005229 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748005230 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1163748005231 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748005232 ATP binding site [chemical binding]; other site 1163748005233 Mg2+ binding site [ion binding]; other site 1163748005234 G-X-G motif; other site 1163748005235 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163748005236 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1163748005237 putative NAD(P) binding site [chemical binding]; other site 1163748005238 active site 1163748005239 putative substrate binding site [chemical binding]; other site 1163748005240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 1163748005241 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748005242 putative acyl-acceptor binding pocket; other site 1163748005243 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1163748005244 active site 1163748005245 phosphate binding residues; other site 1163748005246 catalytic residues [active] 1163748005247 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1163748005248 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1163748005249 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 1163748005250 Walker A motif; other site 1163748005251 ATP binding site [chemical binding]; other site 1163748005252 Walker B motif; other site 1163748005253 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1163748005254 arginine finger; other site 1163748005255 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1163748005256 hypothetical protein; Validated; Region: PRK00153 1163748005257 recombination protein RecR; Reviewed; Region: recR; PRK00076 1163748005258 RecR protein; Region: RecR; pfam02132 1163748005259 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1163748005260 putative active site [active] 1163748005261 putative metal-binding site [ion binding]; other site 1163748005262 tetramer interface [polypeptide binding]; other site 1163748005263 ribonuclease D; Region: rnd; TIGR01388 1163748005264 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1163748005265 catalytic site [active] 1163748005266 putative active site [active] 1163748005267 putative substrate binding site [chemical binding]; other site 1163748005268 HRDC domain; Region: HRDC; pfam00570 1163748005269 YcgL domain; Region: YcgL; pfam05166 1163748005270 hypothetical protein; Provisional; Region: PRK05170 1163748005271 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 1163748005272 metal ion-dependent adhesion site (MIDAS); other site 1163748005273 TIGR03503 family protein; Region: TIGR03503 1163748005274 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 1163748005275 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163748005276 Walker A motif; other site 1163748005277 ATP binding site [chemical binding]; other site 1163748005278 Walker B motif; other site 1163748005279 arginine finger; other site 1163748005280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1163748005281 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 1163748005282 TPR motif; other site 1163748005283 binding surface 1163748005284 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 1163748005285 binding surface 1163748005286 TPR motif; other site 1163748005287 TPR repeat; Region: TPR_11; pfam13414 1163748005288 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1163748005289 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748005290 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163748005291 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1163748005292 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1163748005293 dimer interaction site [polypeptide binding]; other site 1163748005294 substrate-binding tunnel; other site 1163748005295 active site 1163748005296 catalytic site [active] 1163748005297 substrate binding site [chemical binding]; other site 1163748005298 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1163748005299 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1163748005300 acyl-activating enzyme (AAE) consensus motif; other site 1163748005301 putative AMP binding site [chemical binding]; other site 1163748005302 putative active site [active] 1163748005303 putative CoA binding site [chemical binding]; other site 1163748005304 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1163748005305 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 1163748005306 ATP binding site [chemical binding]; other site 1163748005307 putative Mg++ binding site [ion binding]; other site 1163748005308 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 1163748005309 nucleotide binding region [chemical binding]; other site 1163748005310 ATP-binding site [chemical binding]; other site 1163748005311 Helicase associated domain (HA2); Region: HA2; pfam04408 1163748005312 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1163748005313 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1163748005314 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1163748005315 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 1163748005316 dimer interface [polypeptide binding]; other site 1163748005317 active site 1163748005318 CoA binding pocket [chemical binding]; other site 1163748005319 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 1163748005320 active site 1163748005321 VacJ like lipoprotein; Region: VacJ; cl01073 1163748005322 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 1163748005323 active site 1163748005324 nucleophile elbow; other site 1163748005325 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1163748005326 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 1163748005327 Walker A motif; other site 1163748005328 ATP binding site [chemical binding]; other site 1163748005329 Walker B motif; other site 1163748005330 arginine finger; other site 1163748005331 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163748005332 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1163748005333 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1163748005334 ATP binding site [chemical binding]; other site 1163748005335 DEAD_2; Region: DEAD_2; pfam06733 1163748005336 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1163748005337 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1163748005338 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 1163748005339 DNA binding residues [nucleotide binding] 1163748005340 dimerization interface [polypeptide binding]; other site 1163748005341 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1163748005342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005343 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1163748005344 substrate binding site [chemical binding]; other site 1163748005345 dimerization interface [polypeptide binding]; other site 1163748005346 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 1163748005347 Active Sites [active] 1163748005348 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1163748005349 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 1163748005350 motif II; other site 1163748005351 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1163748005352 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163748005353 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1163748005354 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163748005355 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1163748005356 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163748005357 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163748005358 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1163748005359 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1163748005360 PilZ domain; Region: PilZ; cl01260 1163748005361 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748005362 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163748005363 hypothetical protein; Provisional; Region: PRK10279 1163748005364 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1163748005365 active site 1163748005366 nucleophile elbow; other site 1163748005367 HemK family putative methylases; Region: hemK_fam; TIGR00536 1163748005368 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 1163748005369 S-adenosylmethionine binding site [chemical binding]; other site 1163748005370 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1163748005371 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1163748005372 Tetramer interface [polypeptide binding]; other site 1163748005373 active site 1163748005374 FMN-binding site [chemical binding]; other site 1163748005375 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 1163748005376 putative substrate translocation pore; other site 1163748005377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748005378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005379 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 1163748005380 dimerization interface [polypeptide binding]; other site 1163748005381 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1163748005382 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1163748005383 substrate binding site [chemical binding]; other site 1163748005384 ligand binding site [chemical binding]; other site 1163748005385 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1163748005386 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 1163748005387 substrate binding site [chemical binding]; other site 1163748005388 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1163748005389 tartrate dehydrogenase; Region: TTC; TIGR02089 1163748005390 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1163748005391 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163748005392 FimV N-terminal domain; Region: FimV_core; TIGR03505 1163748005393 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1163748005394 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1163748005395 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1163748005396 dimerization interface 3.5A [polypeptide binding]; other site 1163748005397 active site 1163748005398 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 1163748005399 active site 1163748005400 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1163748005401 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 1163748005402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748005403 catalytic residue [active] 1163748005404 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1163748005405 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 1163748005406 substrate binding site [chemical binding]; other site 1163748005407 active site 1163748005408 catalytic residues [active] 1163748005409 heterodimer interface [polypeptide binding]; other site 1163748005410 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1163748005411 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1163748005412 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1163748005413 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163748005414 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163748005415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1163748005416 Sporulation related domain; Region: SPOR; pfam05036 1163748005417 Colicin V production protein; Region: Colicin_V; cl00567 1163748005418 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1163748005419 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1163748005420 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 1163748005421 active site 1163748005422 tetramer interface [polypeptide binding]; other site 1163748005423 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748005424 active site 1163748005425 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1163748005426 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1163748005427 homodimer interface [polypeptide binding]; other site 1163748005428 substrate-cofactor binding pocket; other site 1163748005429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748005430 catalytic residue [active] 1163748005431 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1163748005432 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163748005433 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1163748005434 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1163748005435 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1163748005436 recombination factor protein RarA; Reviewed; Region: PRK13342 1163748005437 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 1163748005438 Walker A motif; other site 1163748005439 ATP binding site [chemical binding]; other site 1163748005440 Walker B motif; other site 1163748005441 arginine finger; other site 1163748005442 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1163748005443 seryl-tRNA synthetase; Provisional; Region: PRK05431 1163748005444 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1163748005445 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 1163748005446 dimer interface [polypeptide binding]; other site 1163748005447 active site 1163748005448 motif 1; other site 1163748005449 motif 2; other site 1163748005450 motif 3; other site 1163748005451 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1163748005452 active site 1163748005453 SAM binding site [chemical binding]; other site 1163748005454 homodimer interface [polypeptide binding]; other site 1163748005455 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1163748005456 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163748005457 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163748005458 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163748005459 PilZ domain; Region: PilZ; pfam07238 1163748005460 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1163748005461 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1163748005462 NAD binding site [chemical binding]; other site 1163748005463 homotetramer interface [polypeptide binding]; other site 1163748005464 homodimer interface [polypeptide binding]; other site 1163748005465 substrate binding site [chemical binding]; other site 1163748005466 active site 1163748005467 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1163748005468 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163748005469 Walker A/P-loop; other site 1163748005470 ATP binding site [chemical binding]; other site 1163748005471 Q-loop/lid; other site 1163748005472 ABC transporter signature motif; other site 1163748005473 Walker B; other site 1163748005474 D-loop; other site 1163748005475 H-loop/switch region; other site 1163748005476 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163748005477 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163748005478 Walker A/P-loop; other site 1163748005479 ATP binding site [chemical binding]; other site 1163748005480 Q-loop/lid; other site 1163748005481 ABC transporter signature motif; other site 1163748005482 Walker B; other site 1163748005483 D-loop; other site 1163748005484 H-loop/switch region; other site 1163748005485 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163748005486 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1163748005487 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 1163748005488 dimer interface [polypeptide binding]; other site 1163748005489 conserved gate region; other site 1163748005490 ABC-ATPase subunit interface; other site 1163748005491 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1163748005492 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 1163748005493 dimer interface [polypeptide binding]; other site 1163748005494 conserved gate region; other site 1163748005495 putative PBP binding loops; other site 1163748005496 ABC-ATPase subunit interface; other site 1163748005497 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1163748005498 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_14; cd08497 1163748005499 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1163748005500 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 1163748005501 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163748005502 catalytic residue [active] 1163748005503 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748005504 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748005505 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1163748005506 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748005507 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1163748005508 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 1163748005509 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1163748005510 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163748005511 active site 1163748005512 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1163748005513 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 1163748005514 active site 1163748005515 catalytic site [active] 1163748005516 substrate binding site [chemical binding]; other site 1163748005517 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1163748005518 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1163748005519 putative inner membrane peptidase; Provisional; Region: PRK11778 1163748005520 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1163748005521 tandem repeat interface [polypeptide binding]; other site 1163748005522 oligomer interface [polypeptide binding]; other site 1163748005523 active site residues [active] 1163748005524 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1163748005525 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1163748005526 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1163748005527 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1163748005528 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1163748005529 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1163748005530 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1163748005531 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 1163748005532 substrate binding pocket [chemical binding]; other site 1163748005533 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 1163748005534 B12 binding site [chemical binding]; other site 1163748005535 cobalt ligand [ion binding]; other site 1163748005536 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1163748005537 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1163748005538 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1163748005539 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1163748005540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1163748005541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1163748005542 DsrC like protein; Region: DsrC; pfam04358 1163748005543 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1163748005544 DsrH like protein; Region: DsrH; cl17347 1163748005545 DsrE/DsrF-like family; Region: DrsE; cl00672 1163748005546 DsrE/DsrF-like family; Region: DrsE; cl00672 1163748005547 YccA-like proteins; Region: YccA_like; cd10433 1163748005548 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1163748005549 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1163748005550 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1163748005551 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1163748005552 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1163748005553 putative active site [active] 1163748005554 ferrochelatase; Reviewed; Region: hemH; PRK00035 1163748005555 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 1163748005556 C-terminal domain interface [polypeptide binding]; other site 1163748005557 active site 1163748005558 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 1163748005559 active site 1163748005560 N-terminal domain interface [polypeptide binding]; other site 1163748005561 Putative phosphatase (DUF442); Region: DUF442; cl17385 1163748005562 Predicted transporter component [General function prediction only]; Region: COG2391 1163748005563 Sulphur transport; Region: Sulf_transp; pfam04143 1163748005564 Predicted transporter component [General function prediction only]; Region: COG2391 1163748005565 Sulphur transport; Region: Sulf_transp; pfam04143 1163748005566 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1163748005567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748005568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748005569 Bacterial transcriptional repressor; Region: TetR; pfam13972 1163748005570 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 1163748005571 putative catalytic site [active] 1163748005572 putative phosphate binding site [ion binding]; other site 1163748005573 active site 1163748005574 metal binding site A [ion binding]; metal-binding site 1163748005575 DNA binding site [nucleotide binding] 1163748005576 putative AP binding site [nucleotide binding]; other site 1163748005577 putative metal binding site B [ion binding]; other site 1163748005578 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1163748005579 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1163748005580 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 1163748005581 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 1163748005582 S-adenosylmethionine binding site [chemical binding]; other site 1163748005583 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1163748005584 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1163748005585 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748005586 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163748005587 short chain dehydrogenase; Provisional; Region: PRK06101 1163748005588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748005589 NAD(P) binding site [chemical binding]; other site 1163748005590 active site 1163748005591 SnoaL-like domain; Region: SnoaL_2; pfam12680 1163748005592 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163748005593 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 1163748005594 Di-iron ligands [ion binding]; other site 1163748005595 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 1163748005596 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1163748005597 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748005598 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1163748005599 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748005600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748005601 active site 1163748005602 phosphorylation site [posttranslational modification] 1163748005603 intermolecular recognition site; other site 1163748005604 dimerization interface [polypeptide binding]; other site 1163748005605 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1163748005606 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 1163748005607 anti sigma factor interaction site; other site 1163748005608 regulatory phosphorylation site [posttranslational modification]; other site 1163748005609 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1163748005610 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1163748005611 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1163748005612 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 1163748005613 catalytic core [active] 1163748005614 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1163748005615 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 1163748005616 FeS/SAM binding site; other site 1163748005617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1163748005618 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1163748005619 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748005620 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1163748005621 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1163748005622 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748005623 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1163748005624 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1163748005625 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 1163748005626 Ligand binding site [chemical binding]; other site 1163748005627 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1163748005628 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1163748005629 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 1163748005630 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1163748005631 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1163748005632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748005633 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1163748005634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748005635 Walker A/P-loop; other site 1163748005636 ATP binding site [chemical binding]; other site 1163748005637 Q-loop/lid; other site 1163748005638 ABC transporter signature motif; other site 1163748005639 Walker B; other site 1163748005640 D-loop; other site 1163748005641 H-loop/switch region; other site 1163748005642 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1163748005643 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748005644 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748005645 Walker A/P-loop; other site 1163748005646 ATP binding site [chemical binding]; other site 1163748005647 Q-loop/lid; other site 1163748005648 ABC transporter signature motif; other site 1163748005649 Walker B; other site 1163748005650 D-loop; other site 1163748005651 H-loop/switch region; other site 1163748005652 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1163748005653 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1163748005654 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1163748005655 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 1163748005656 S-adenosylmethionine binding site [chemical binding]; other site 1163748005657 CHASE4 domain; Region: CHASE4; pfam05228 1163748005658 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748005659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748005660 metal binding site [ion binding]; metal-binding site 1163748005661 active site 1163748005662 I-site; other site 1163748005663 enoyl-CoA hydratase; Validated; Region: PRK08139 1163748005664 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 1163748005665 substrate binding site [chemical binding]; other site 1163748005666 oxyanion hole (OAH) forming residues; other site 1163748005667 trimer interface [polypeptide binding]; other site 1163748005668 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1163748005669 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163748005670 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163748005671 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163748005672 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163748005673 Walker A/P-loop; other site 1163748005674 ATP binding site [chemical binding]; other site 1163748005675 Q-loop/lid; other site 1163748005676 ABC transporter signature motif; other site 1163748005677 Walker B; other site 1163748005678 D-loop; other site 1163748005679 H-loop/switch region; other site 1163748005680 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1163748005681 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1163748005682 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1163748005683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748005684 Walker A/P-loop; other site 1163748005685 ATP binding site [chemical binding]; other site 1163748005686 ABC transporter signature motif; other site 1163748005687 Walker B; other site 1163748005688 D-loop; other site 1163748005689 H-loop/switch region; other site 1163748005690 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1163748005691 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 1163748005692 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 1163748005693 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1163748005694 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1163748005695 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 1163748005696 putative active site [active] 1163748005697 catalytic triad [active] 1163748005698 putative dimer interface [polypeptide binding]; other site 1163748005699 Cache domain; Region: Cache_1; pfam02743 1163748005700 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 1163748005701 dimerization interface [polypeptide binding]; other site 1163748005702 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748005703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748005704 dimer interface [polypeptide binding]; other site 1163748005705 putative CheW interface [polypeptide binding]; other site 1163748005706 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748005707 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 1163748005708 CoenzymeA binding site [chemical binding]; other site 1163748005709 subunit interaction site [polypeptide binding]; other site 1163748005710 PHB binding site; other site 1163748005711 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1163748005712 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 1163748005713 ATP binding site [chemical binding]; other site 1163748005714 putative Mg++ binding site [ion binding]; other site 1163748005715 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 1163748005716 nucleotide binding region [chemical binding]; other site 1163748005717 ATP-binding site [chemical binding]; other site 1163748005718 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1163748005719 HRDC domain; Region: HRDC; pfam00570 1163748005720 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748005721 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1163748005722 putative acyl-acceptor binding pocket; other site 1163748005723 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1163748005724 putative homodimer interface [polypeptide binding]; other site 1163748005725 putative active site pocket [active] 1163748005726 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1163748005727 glycogen synthase; Provisional; Region: glgA; PRK00654 1163748005728 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 1163748005729 ADP-binding pocket [chemical binding]; other site 1163748005730 homodimer interface [polypeptide binding]; other site 1163748005731 glycogen branching enzyme; Provisional; Region: PRK12313 1163748005732 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1163748005733 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1163748005734 active site 1163748005735 catalytic site [active] 1163748005736 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1163748005737 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1163748005738 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1163748005739 ligand binding site; other site 1163748005740 oligomer interface; other site 1163748005741 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 1163748005742 dimer interface [polypeptide binding]; other site 1163748005743 N-terminal domain interface [polypeptide binding]; other site 1163748005744 sulfate 1 binding site; other site 1163748005745 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1163748005746 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 1163748005747 putative active site [active] 1163748005748 catalytic site [active] 1163748005749 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1163748005750 PilZ domain; Region: PilZ; pfam07238 1163748005751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748005752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163748005753 NAD(P) binding site [chemical binding]; other site 1163748005754 active site 1163748005755 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1163748005756 putative homodimer interface [polypeptide binding]; other site 1163748005757 putative active site pocket [active] 1163748005758 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1163748005759 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1163748005760 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1163748005761 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1163748005762 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1163748005763 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 1163748005764 DNA binding site [nucleotide binding] 1163748005765 active site 1163748005766 Int/Topo IB signature motif; other site 1163748005767 catalytic residues [active] 1163748005768 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 1163748005769 ATP binding site [chemical binding]; other site 1163748005770 putative Mg++ binding site [ion binding]; other site 1163748005771 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 1163748005772 nucleotide binding region [chemical binding]; other site 1163748005773 ATP-binding site [chemical binding]; other site 1163748005774 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 1163748005775 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1163748005776 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 1163748005777 active site 1163748005778 DNA binding site [nucleotide binding] 1163748005779 Int/Topo IB signature motif; other site 1163748005780 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1163748005781 AAA ATPase domain; Region: AAA_16; pfam13191 1163748005782 AAA domain; Region: AAA_22; pfam13401 1163748005783 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748005784 AAA domain; Region: AAA_22; pfam13401 1163748005785 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1163748005786 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1163748005787 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1163748005788 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163748005789 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1163748005790 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1163748005791 Part of AAA domain; Region: AAA_19; pfam13245 1163748005792 Family description; Region: UvrD_C_2; pfam13538 1163748005793 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748005794 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748005795 Integrase core domain; Region: rve_3; cl15866 1163748005796 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1163748005797 putative catalytic site [active] 1163748005798 putative metal binding site [ion binding]; other site 1163748005799 putative phosphate binding site [ion binding]; other site 1163748005800 KTSC domain; Region: KTSC; pfam13619 1163748005801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1163748005802 Transposase; Region: HTH_Tnp_1; pfam01527 1163748005803 Transposase domain (DUF772); Region: DUF772; pfam05598 1163748005804 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1163748005805 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1163748005806 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748005807 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748005808 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1163748005809 Dynamin family; Region: Dynamin_N; pfam00350 1163748005810 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1163748005811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748005812 Coenzyme A binding pocket [chemical binding]; other site 1163748005813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163748005814 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1163748005815 dimer interface [polypeptide binding]; other site 1163748005816 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163748005817 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1163748005818 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 1163748005819 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1163748005820 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1163748005821 potential protein location (hypothetical protein) that overlaps protein ( integrase (fragment)) 1163748005822 Transposase; Region: HTH_Tnp_1; cl17663 1163748005823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1163748005824 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 1163748005825 HTH-like domain; Region: HTH_21; pfam13276 1163748005826 Integrase core domain; Region: rve; pfam00665 1163748005827 Integrase core domain; Region: rve_3; pfam13683 1163748005828 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 1163748005829 active site 1163748005830 DNA binding site [nucleotide binding] 1163748005831 Int/Topo IB signature motif; other site 1163748005832 CCC1-related family of proteins; Region: CCC1_like; cl00278 1163748005833 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1163748005834 Flavodoxin; Region: Flavodoxin_1; pfam00258 1163748005835 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_like2; cd06201 1163748005836 FAD binding pocket [chemical binding]; other site 1163748005837 FAD binding motif [chemical binding]; other site 1163748005838 catalytic residues [active] 1163748005839 NAD binding pocket [chemical binding]; other site 1163748005840 phosphate binding motif [ion binding]; other site 1163748005841 beta-alpha-beta structure motif; other site 1163748005842 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1163748005843 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1163748005844 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1163748005845 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1163748005846 FAD binding pocket [chemical binding]; other site 1163748005847 FAD binding motif [chemical binding]; other site 1163748005848 phosphate binding motif [ion binding]; other site 1163748005849 beta-alpha-beta structure motif; other site 1163748005850 NAD binding pocket [chemical binding]; other site 1163748005851 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748005852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748005853 active site 1163748005854 phosphorylation site [posttranslational modification] 1163748005855 intermolecular recognition site; other site 1163748005856 dimerization interface [polypeptide binding]; other site 1163748005857 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 1163748005858 DNA binding site [nucleotide binding] 1163748005859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748005860 HAMP domain; Region: HAMP; pfam00672 1163748005861 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 1163748005862 dimer interface [polypeptide binding]; other site 1163748005863 phosphorylation site [posttranslational modification] 1163748005864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748005865 ATP binding site [chemical binding]; other site 1163748005866 Mg2+ binding site [ion binding]; other site 1163748005867 G-X-G motif; other site 1163748005868 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163748005869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748005870 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1163748005871 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1163748005872 putative active site [active] 1163748005873 putative NTP binding site [chemical binding]; other site 1163748005874 putative nucleic acid binding site [nucleotide binding]; other site 1163748005875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748005876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005877 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 1163748005878 dimerization interface [polypeptide binding]; other site 1163748005879 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1163748005880 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 1163748005881 homodimer interface [polypeptide binding]; other site 1163748005882 ligand binding site [chemical binding]; other site 1163748005883 NAD binding site [chemical binding]; other site 1163748005884 catalytic site [active] 1163748005885 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1163748005886 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 1163748005887 dimer interface [polypeptide binding]; other site 1163748005888 conserved gate region; other site 1163748005889 putative PBP binding loops; other site 1163748005890 ABC-ATPase subunit interface; other site 1163748005891 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1163748005892 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 1163748005893 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1163748005894 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1163748005895 Walker A/P-loop; other site 1163748005896 ATP binding site [chemical binding]; other site 1163748005897 Q-loop/lid; other site 1163748005898 ABC transporter signature motif; other site 1163748005899 Walker B; other site 1163748005900 D-loop; other site 1163748005901 H-loop/switch region; other site 1163748005902 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 1163748005903 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1163748005904 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1163748005905 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748005906 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1163748005907 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1163748005908 putative mercuric reductase; Provisional; Region: PRK14694 1163748005909 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748005910 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748005911 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 1163748005912 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 1163748005913 metal-binding site [ion binding] 1163748005914 putative mercuric transport protein; Provisional; Region: PRK13751 1163748005915 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1163748005916 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1163748005917 DNA binding residues [nucleotide binding] 1163748005918 dimer interface [polypeptide binding]; other site 1163748005919 mercury binding site [ion binding]; other site 1163748005920 AAA domain; Region: AAA_33; pfam13671 1163748005921 AAA domain; Region: AAA_17; pfam13207 1163748005922 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1163748005923 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163748005924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005925 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 1163748005926 putative effector binding pocket; other site 1163748005927 dimerization interface [polypeptide binding]; other site 1163748005928 Pirin-related protein [General function prediction only]; Region: COG1741 1163748005929 Pirin; Region: Pirin; pfam02678 1163748005930 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163748005931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748005932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005933 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 1163748005934 dimerization interface [polypeptide binding]; other site 1163748005935 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163748005936 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163748005937 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 1163748005938 nucleoside/Zn binding site; other site 1163748005939 dimer interface [polypeptide binding]; other site 1163748005940 catalytic motif [active] 1163748005941 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163748005942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005943 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 1163748005944 dimerization interface [polypeptide binding]; other site 1163748005945 substrate binding pocket [chemical binding]; other site 1163748005946 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1163748005947 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163748005948 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748005949 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1163748005950 activation loop (A-loop); other site 1163748005951 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1163748005952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005953 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 1163748005954 substrate binding pocket [chemical binding]; other site 1163748005955 dimerization interface [polypeptide binding]; other site 1163748005956 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 1163748005957 catalytic residues [active] 1163748005958 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 1163748005959 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748005960 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1163748005961 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163748005962 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1163748005963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748005964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748005965 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748005966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748005967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748005968 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1163748005969 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748005970 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1163748005971 DNA binding residues [nucleotide binding] 1163748005972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1163748005973 SnoaL-like domain; Region: SnoaL_2; pfam12680 1163748005974 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1163748005975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748005976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748005977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748005978 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 1163748005979 dimerization domain [polypeptide binding]; other site 1163748005980 dimer interface [polypeptide binding]; other site 1163748005981 catalytic residues [active] 1163748005982 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 1163748005983 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163748005984 catalytic residues [active] 1163748005985 Predicted membrane protein [Function unknown]; Region: COG2259 1163748005986 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1163748005987 hypothetical protein; Provisional; Region: PRK05409 1163748005988 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1163748005989 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 1163748005990 Cupin; Region: Cupin_6; pfam12852 1163748005991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748005992 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748005993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748005994 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1163748005995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748005996 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 1163748005997 substrate binding pocket [chemical binding]; other site 1163748005998 dimerization interface [polypeptide binding]; other site 1163748005999 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1163748006000 MarR family; Region: MarR_2; pfam12802 1163748006001 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1163748006002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748006003 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1163748006004 NAD(P) binding site [chemical binding]; other site 1163748006005 active site 1163748006006 potential frameshift: common BLAST hit: gi|385331413|ref|YP_005885364.1| AraC family transcriptional regulator 1163748006007 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748006008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748006009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748006010 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748006011 potential frameshift: common BLAST hit: gi|261855484|ref|YP_003262767.1| integrase 1163748006012 Integrase core domain; Region: rve; pfam00665 1163748006013 Integrase core domain; Region: rve_2; pfam13333 1163748006014 HTH-like domain; Region: HTH_21; pfam13276 1163748006015 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748006016 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1163748006017 putative active site [active] 1163748006018 putative metal binding site [ion binding]; other site 1163748006019 Predicted membrane protein [Function unknown]; Region: COG2311 1163748006020 Protein of unknown function (DUF418); Region: DUF418; cl12135 1163748006021 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1163748006022 activation loop (A-loop); other site 1163748006023 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1163748006024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006025 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 1163748006026 substrate binding pocket [chemical binding]; other site 1163748006027 dimerization interface [polypeptide binding]; other site 1163748006028 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 1163748006029 catalytic residues [active] 1163748006030 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_15; cd04673 1163748006031 nudix motif; other site 1163748006032 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1163748006033 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163748006034 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1163748006035 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 1163748006036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748006037 DNA-binding site [nucleotide binding]; DNA binding site 1163748006038 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 1163748006039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748006040 homodimer interface [polypeptide binding]; other site 1163748006041 catalytic residue [active] 1163748006042 Pirin-related protein [General function prediction only]; Region: COG1741 1163748006043 Pirin; Region: Pirin; pfam02678 1163748006044 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163748006045 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1163748006046 malate:quinone oxidoreductase; Validated; Region: PRK05257 1163748006047 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1163748006048 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1163748006049 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 1163748006050 tetramer interface [polypeptide binding]; other site 1163748006051 TPP-binding site [chemical binding]; other site 1163748006052 heterodimer interface [polypeptide binding]; other site 1163748006053 phosphorylation loop region [posttranslational modification] 1163748006054 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1163748006055 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 1163748006056 alpha subunit interface [polypeptide binding]; other site 1163748006057 TPP binding site [chemical binding]; other site 1163748006058 heterodimer interface [polypeptide binding]; other site 1163748006059 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163748006060 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1163748006061 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 1163748006062 E3 interaction surface; other site 1163748006063 lipoyl attachment site [posttranslational modification]; other site 1163748006064 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 1163748006065 E3 interaction surface; other site 1163748006066 lipoyl attachment site [posttranslational modification]; other site 1163748006067 e3 binding domain; Region: E3_binding; pfam02817 1163748006068 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163748006069 Protein kinase domain; Region: Pkinase; pfam00069 1163748006070 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1163748006071 active site 1163748006072 ATP binding site [chemical binding]; other site 1163748006073 substrate binding site [chemical binding]; other site 1163748006074 activation loop (A-loop); other site 1163748006075 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1163748006076 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1163748006077 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1163748006078 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163748006079 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163748006080 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163748006081 putative NAD(P) binding site [chemical binding]; other site 1163748006082 putative substrate binding site [chemical binding]; other site 1163748006083 catalytic Zn binding site [ion binding]; other site 1163748006084 structural Zn binding site [ion binding]; other site 1163748006085 dimer interface [polypeptide binding]; other site 1163748006086 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1163748006087 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 1163748006088 dimer interface [polypeptide binding]; other site 1163748006089 active site 1163748006090 CoA binding pocket [chemical binding]; other site 1163748006091 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748006092 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1163748006093 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1163748006094 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 1163748006095 dimer interface [polypeptide binding]; other site 1163748006096 conserved gate region; other site 1163748006097 putative PBP binding loops; other site 1163748006098 ABC-ATPase subunit interface; other site 1163748006099 sulfate transport protein; Provisional; Region: cysT; CHL00187 1163748006100 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 1163748006101 dimer interface [polypeptide binding]; other site 1163748006102 conserved gate region; other site 1163748006103 putative PBP binding loops; other site 1163748006104 ABC-ATPase subunit interface; other site 1163748006105 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 1163748006106 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1163748006107 Walker A/P-loop; other site 1163748006108 ATP binding site [chemical binding]; other site 1163748006109 Q-loop/lid; other site 1163748006110 ABC transporter signature motif; other site 1163748006111 Walker B; other site 1163748006112 D-loop; other site 1163748006113 H-loop/switch region; other site 1163748006114 TOBE-like domain; Region: TOBE_3; pfam12857 1163748006115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1163748006116 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1163748006117 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 1163748006118 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163748006119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748006120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006121 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 1163748006122 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1163748006123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1163748006124 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1163748006125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748006126 DNA-binding site [nucleotide binding]; DNA binding site 1163748006127 FCD domain; Region: FCD; pfam07729 1163748006128 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1163748006129 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1163748006130 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 1163748006131 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163748006132 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 1163748006133 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1163748006134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748006135 HAMP domain; Region: HAMP; pfam00672 1163748006136 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 1163748006137 dimer interface [polypeptide binding]; other site 1163748006138 phosphorylation site [posttranslational modification] 1163748006139 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748006140 ATP binding site [chemical binding]; other site 1163748006141 Mg2+ binding site [ion binding]; other site 1163748006142 G-X-G motif; other site 1163748006143 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748006144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748006145 active site 1163748006146 phosphorylation site [posttranslational modification] 1163748006147 intermolecular recognition site; other site 1163748006148 dimerization interface [polypeptide binding]; other site 1163748006149 glutathione reductase; Validated; Region: PRK06116 1163748006150 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748006151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748006152 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748006153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748006154 Coenzyme A binding pocket [chemical binding]; other site 1163748006155 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1163748006156 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1163748006157 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1163748006158 GspL periplasmic domain; Region: GspL_C; cl14909 1163748006159 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1163748006160 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163748006161 type II secretion system protein J; Region: gspJ; TIGR01711 1163748006162 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1163748006163 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1163748006164 type II secretion system protein I; Region: gspI; TIGR01707 1163748006165 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1163748006166 Type II transport protein GspH; Region: GspH; pfam12019 1163748006167 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1163748006168 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1163748006169 type II secretion system protein F; Region: GspF; TIGR02120 1163748006170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748006171 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748006172 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1163748006173 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 1163748006174 Walker A motif; other site 1163748006175 ATP binding site [chemical binding]; other site 1163748006176 Walker B motif; other site 1163748006177 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1163748006178 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1163748006179 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1163748006180 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748006181 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1163748006182 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1163748006183 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 1163748006184 putative N- and C-terminal domain interface [polypeptide binding]; other site 1163748006185 putative active site [active] 1163748006186 MgATP binding site [chemical binding]; other site 1163748006187 catalytic site [active] 1163748006188 metal binding site [ion binding]; metal-binding site 1163748006189 putative carbohydrate binding site [chemical binding]; other site 1163748006190 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1163748006191 RES domain; Region: RES; smart00953 1163748006192 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163748006193 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1163748006194 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748006195 Walker A/P-loop; other site 1163748006196 ATP binding site [chemical binding]; other site 1163748006197 Q-loop/lid; other site 1163748006198 ABC transporter signature motif; other site 1163748006199 Walker B; other site 1163748006200 D-loop; other site 1163748006201 H-loop/switch region; other site 1163748006202 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163748006203 FtsX-like permease family; Region: FtsX; pfam02687 1163748006204 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1163748006205 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748006206 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748006207 Lysine efflux permease [General function prediction only]; Region: COG1279 1163748006208 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1163748006209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006210 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 1163748006211 dimerization interface [polypeptide binding]; other site 1163748006212 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 1163748006213 DNA-binding site [nucleotide binding]; DNA binding site 1163748006214 RNA-binding motif; other site 1163748006215 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 1163748006216 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1163748006217 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 1163748006218 S-adenosylmethionine binding site [chemical binding]; other site 1163748006219 PAS domain S-box; Region: sensory_box; TIGR00229 1163748006220 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 1163748006221 putative active site [active] 1163748006222 heme pocket [chemical binding]; other site 1163748006223 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748006224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748006225 metal binding site [ion binding]; metal-binding site 1163748006226 active site 1163748006227 I-site; other site 1163748006228 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 1163748006229 potential protein location (hypothetical protein MARHY2060 [Marinobacter hydrocarbonoclasticus ATCC 49840]) that overlaps RNA (tRNA-C) 1163748006230 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1163748006231 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748006232 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1163748006233 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1163748006234 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 1163748006235 dimer interface [polypeptide binding]; other site 1163748006236 conserved gate region; other site 1163748006237 putative PBP binding loops; other site 1163748006238 ABC-ATPase subunit interface; other site 1163748006239 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163748006240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748006241 Walker A/P-loop; other site 1163748006242 ATP binding site [chemical binding]; other site 1163748006243 Q-loop/lid; other site 1163748006244 ABC transporter signature motif; other site 1163748006245 Walker B; other site 1163748006246 D-loop; other site 1163748006247 H-loop/switch region; other site 1163748006248 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163748006249 Permease; Region: Permease; pfam02405 1163748006250 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1163748006251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748006252 Walker A/P-loop; other site 1163748006253 ATP binding site [chemical binding]; other site 1163748006254 Q-loop/lid; other site 1163748006255 ABC transporter signature motif; other site 1163748006256 Walker B; other site 1163748006257 D-loop; other site 1163748006258 H-loop/switch region; other site 1163748006259 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163748006260 mce related protein; Region: MCE; pfam02470 1163748006261 Protein of unknown function (DUF330); Region: DUF330; cl01135 1163748006262 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1163748006263 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1163748006264 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1163748006265 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1163748006266 active site 1163748006267 catalytic site [active] 1163748006268 putative DNA binding site [nucleotide binding]; other site 1163748006269 GIY-YIG motif/motif A; other site 1163748006270 metal binding site [ion binding]; metal-binding site 1163748006271 UvrB/uvrC motif; Region: UVR; pfam02151 1163748006272 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1163748006273 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748006274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748006275 active site 1163748006276 phosphorylation site [posttranslational modification] 1163748006277 intermolecular recognition site; other site 1163748006278 dimerization interface [polypeptide binding]; other site 1163748006279 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 1163748006280 dimerization interface [polypeptide binding]; other site 1163748006281 DNA binding residues [nucleotide binding] 1163748006282 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748006283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748006284 dimer interface [polypeptide binding]; other site 1163748006285 putative CheW interface [polypeptide binding]; other site 1163748006286 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1163748006287 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1163748006288 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1163748006289 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163748006290 Cytochrome c; Region: Cytochrom_C; cl11414 1163748006291 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748006292 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748006293 Acylphosphatase; Region: Acylphosphatase; pfam00708 1163748006294 Predicted permeases [General function prediction only]; Region: COG0679 1163748006295 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1163748006296 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1163748006297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1163748006298 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1163748006299 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1163748006300 Bacterial transcriptional regulator; Region: IclR; pfam01614 1163748006301 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 1163748006302 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1163748006303 substrate binding site [chemical binding]; other site 1163748006304 oxyanion hole (OAH) forming residues; other site 1163748006305 trimer interface [polypeptide binding]; other site 1163748006306 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163748006307 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163748006308 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163748006309 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1163748006310 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1163748006311 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748006312 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748006313 active site 1163748006314 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 1163748006315 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1163748006316 CoenzymeA binding site [chemical binding]; other site 1163748006317 subunit interaction site [polypeptide binding]; other site 1163748006318 PHB binding site; other site 1163748006319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748006320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006321 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1163748006322 putative dimerization interface [polypeptide binding]; other site 1163748006323 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1163748006324 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 1163748006325 Isochorismatase family; Region: Isochorismatase; pfam00857 1163748006326 catalytic triad [active] 1163748006327 dimer interface [polypeptide binding]; other site 1163748006328 conserved cis-peptide bond; other site 1163748006329 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163748006330 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163748006331 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1163748006332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006333 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 1163748006334 dimerization interface [polypeptide binding]; other site 1163748006335 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1163748006336 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1163748006337 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 1163748006338 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163748006339 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748006340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748006341 active site 1163748006342 phosphorylation site [posttranslational modification] 1163748006343 intermolecular recognition site; other site 1163748006344 dimerization interface [polypeptide binding]; other site 1163748006345 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1163748006346 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1163748006347 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1163748006348 FlgN protein; Region: FlgN; pfam05130 1163748006349 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1163748006350 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1163748006351 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 1163748006352 substrate binding site [chemical binding]; other site 1163748006353 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1163748006354 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1163748006355 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748006356 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; cd02205 1163748006357 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1163748006358 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 1163748006359 nucleotide binding pocket [chemical binding]; other site 1163748006360 K-X-D-G motif; other site 1163748006361 catalytic site [active] 1163748006362 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1163748006363 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1163748006364 Helix-hairpin-helix motif; Region: HHH; pfam00633 1163748006365 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 1163748006366 Dimer interface [polypeptide binding]; other site 1163748006367 BRCT sequence motif; other site 1163748006368 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1163748006369 FtsZ protein binding site [polypeptide binding]; other site 1163748006370 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1163748006371 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1163748006372 Walker A/P-loop; other site 1163748006373 ATP binding site [chemical binding]; other site 1163748006374 Q-loop/lid; other site 1163748006375 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 1163748006376 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1163748006377 ABC transporter signature motif; other site 1163748006378 Walker B; other site 1163748006379 D-loop; other site 1163748006380 H-loop/switch region; other site 1163748006381 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1163748006382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748006383 DNA-binding site [nucleotide binding]; DNA binding site 1163748006384 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1163748006385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748006386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748006387 metal binding site [ion binding]; metal-binding site 1163748006388 active site 1163748006389 I-site; other site 1163748006390 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1163748006391 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 1163748006392 RNA binding surface [nucleotide binding]; other site 1163748006393 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1163748006394 probable active site [active] 1163748006395 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1163748006396 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1163748006397 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1163748006398 active site 1163748006399 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1163748006400 HIGH motif; other site 1163748006401 dimer interface [polypeptide binding]; other site 1163748006402 KMSKS motif; other site 1163748006403 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163748006404 active site 1163748006405 KMSKS motif; other site 1163748006406 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1163748006407 CoA binding domain; Region: CoA_binding; pfam02629 1163748006408 CoA-ligase; Region: Ligase_CoA; pfam00549 1163748006409 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1163748006410 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1163748006411 CoA-ligase; Region: Ligase_CoA; pfam00549 1163748006412 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1163748006413 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1163748006414 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748006415 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748006416 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1163748006417 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 1163748006418 E3 interaction surface; other site 1163748006419 lipoyl attachment site [posttranslational modification]; other site 1163748006420 e3 binding domain; Region: E3_binding; pfam02817 1163748006421 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163748006422 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1163748006423 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 1163748006424 TPP-binding site [chemical binding]; other site 1163748006425 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1163748006426 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1163748006427 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1163748006428 L-aspartate oxidase; Provisional; Region: PRK06175 1163748006429 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1163748006430 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1163748006431 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 1163748006432 SdhC subunit interface [polypeptide binding]; other site 1163748006433 proximal heme binding site [chemical binding]; other site 1163748006434 cardiolipin binding site; other site 1163748006435 Iron-sulfur protein interface; other site 1163748006436 proximal quinone binding site [chemical binding]; other site 1163748006437 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 1163748006438 Iron-sulfur protein interface; other site 1163748006439 proximal quinone binding site [chemical binding]; other site 1163748006440 SdhD (CybS) interface [polypeptide binding]; other site 1163748006441 proximal heme binding site [chemical binding]; other site 1163748006442 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 1163748006443 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1163748006444 dimer interface [polypeptide binding]; other site 1163748006445 active site 1163748006446 citrylCoA binding site [chemical binding]; other site 1163748006447 NADH binding [chemical binding]; other site 1163748006448 cationic pore residues; other site 1163748006449 oxalacetate/citrate binding site [chemical binding]; other site 1163748006450 coenzyme A binding site [chemical binding]; other site 1163748006451 catalytic triad [active] 1163748006452 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1163748006453 Pilin (bacterial filament); Region: Pilin; pfam00114 1163748006454 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1163748006455 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163748006456 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1163748006457 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 1163748006458 active site 1163748006459 interdomain interaction site; other site 1163748006460 putative metal-binding site [ion binding]; other site 1163748006461 nucleotide binding site [chemical binding]; other site 1163748006462 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 1163748006463 domain I; other site 1163748006464 DNA binding groove [nucleotide binding] 1163748006465 phosphate binding site [ion binding]; other site 1163748006466 domain II; other site 1163748006467 domain III; other site 1163748006468 nucleotide binding site [chemical binding]; other site 1163748006469 catalytic site [active] 1163748006470 domain IV; other site 1163748006471 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748006472 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748006473 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1163748006474 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1163748006475 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1163748006476 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 1163748006477 dimer interface [polypeptide binding]; other site 1163748006478 active site 1163748006479 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1163748006480 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 1163748006481 substrate binding site [chemical binding]; other site 1163748006482 oxyanion hole (OAH) forming residues; other site 1163748006483 trimer interface [polypeptide binding]; other site 1163748006484 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163748006485 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163748006486 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163748006487 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 1163748006488 Ligand Binding Site [chemical binding]; other site 1163748006489 ABC transporter ATPase component; Reviewed; Region: PRK11147 1163748006490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748006491 Walker A/P-loop; other site 1163748006492 ATP binding site [chemical binding]; other site 1163748006493 Q-loop/lid; other site 1163748006494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748006495 ABC transporter signature motif; other site 1163748006496 Walker B; other site 1163748006497 ABC transporter; Region: ABC_tran_2; pfam12848 1163748006498 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748006499 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1163748006500 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1163748006501 MOSC domain; Region: MOSC; pfam03473 1163748006502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1163748006503 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748006504 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1163748006505 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1163748006506 putative active site [active] 1163748006507 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1163748006508 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1163748006509 putative NAD(P) binding site [chemical binding]; other site 1163748006510 putative active site [active] 1163748006511 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 1163748006512 dimerization interface [polypeptide binding]; other site 1163748006513 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 1163748006514 PAS domain; Region: PAS_9; pfam13426 1163748006515 putative active site [active] 1163748006516 heme pocket [chemical binding]; other site 1163748006517 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748006518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748006519 metal binding site [ion binding]; metal-binding site 1163748006520 active site 1163748006521 I-site; other site 1163748006522 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 1163748006523 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1163748006524 propionate/acetate kinase; Provisional; Region: PRK12379 1163748006525 phosphate acetyltransferase; Reviewed; Region: PRK05632 1163748006526 DRTGG domain; Region: DRTGG; pfam07085 1163748006527 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1163748006528 GTP-binding protein Der; Reviewed; Region: PRK00093 1163748006529 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1163748006530 G1 box; other site 1163748006531 GTP/Mg2+ binding site [chemical binding]; other site 1163748006532 Switch I region; other site 1163748006533 G2 box; other site 1163748006534 Switch II region; other site 1163748006535 G3 box; other site 1163748006536 G4 box; other site 1163748006537 G5 box; other site 1163748006538 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1163748006539 G1 box; other site 1163748006540 GTP/Mg2+ binding site [chemical binding]; other site 1163748006541 Switch I region; other site 1163748006542 G2 box; other site 1163748006543 G3 box; other site 1163748006544 Switch II region; other site 1163748006545 G4 box; other site 1163748006546 G5 box; other site 1163748006547 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1163748006548 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1163748006549 Trp docking motif [polypeptide binding]; other site 1163748006550 active site 1163748006551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1163748006552 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1163748006553 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1163748006554 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 1163748006555 dimer interface [polypeptide binding]; other site 1163748006556 motif 1; other site 1163748006557 active site 1163748006558 motif 2; other site 1163748006559 motif 3; other site 1163748006560 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 1163748006561 anticodon binding site; other site 1163748006562 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1163748006563 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163748006564 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163748006565 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1163748006566 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 1163748006567 non-specific DNA binding site [nucleotide binding]; other site 1163748006568 salt bridge; other site 1163748006569 sequence-specific DNA binding site [nucleotide binding]; other site 1163748006570 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1163748006571 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1163748006572 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 1163748006573 binding surface 1163748006574 TPR motif; other site 1163748006575 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 1163748006576 binding surface 1163748006577 TPR motif; other site 1163748006578 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1163748006579 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 1163748006580 FeS/SAM binding site; other site 1163748006581 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 1163748006582 active site 1163748006583 multimer interface [polypeptide binding]; other site 1163748006584 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 1163748006585 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1163748006586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748006587 catalytic residue [active] 1163748006588 Transcriptional regulator; Region: Rrf2; cl17282 1163748006589 Rrf2 family protein; Region: rrf2_super; TIGR00738 1163748006590 serine O-acetyltransferase; Region: cysE; TIGR01172 1163748006591 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 1163748006592 trimer interface [polypeptide binding]; other site 1163748006593 active site 1163748006594 substrate binding site [chemical binding]; other site 1163748006595 CoA binding site [chemical binding]; other site 1163748006596 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1163748006597 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1163748006598 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1163748006599 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1163748006600 active site 1163748006601 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1163748006602 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1163748006603 Protein export membrane protein; Region: SecD_SecF; pfam02355 1163748006604 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1163748006605 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1163748006606 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1163748006607 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1163748006608 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1163748006609 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1163748006610 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1163748006611 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1163748006612 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1163748006613 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1163748006614 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163748006615 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1163748006616 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163748006617 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1163748006618 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1163748006619 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1163748006620 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1163748006621 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1163748006622 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1163748006623 Flagellar L-ring protein; Region: FlgH; pfam02107 1163748006624 potential frameshift: common BLAST hit: gi|120554035|ref|YP_958386.1| flagellar basal body rod protein FlgG 1163748006625 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163748006626 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1163748006627 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163748006628 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1163748006629 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1163748006630 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163748006631 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163748006632 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163748006633 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1163748006634 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1163748006635 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163748006636 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1163748006637 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1163748006638 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1163748006639 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1163748006640 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163748006641 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163748006642 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1163748006643 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1163748006644 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 1163748006645 putative FMN binding site [chemical binding]; other site 1163748006646 Protein of unknown function (DUF962); Region: DUF962; cl01879 1163748006647 MASE2 domain; Region: MASE2; pfam05230 1163748006648 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1163748006649 cyclase homology domain; Region: CHD; cd07302 1163748006650 nucleotidyl binding site; other site 1163748006651 metal binding site [ion binding]; metal-binding site 1163748006652 dimer interface [polypeptide binding]; other site 1163748006653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1163748006654 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1163748006655 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1163748006656 inner membrane transport permease; Provisional; Region: PRK15066 1163748006657 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163748006658 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163748006659 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1163748006660 Walker A/P-loop; other site 1163748006661 ATP binding site [chemical binding]; other site 1163748006662 Q-loop/lid; other site 1163748006663 ABC transporter signature motif; other site 1163748006664 Walker B; other site 1163748006665 D-loop; other site 1163748006666 H-loop/switch region; other site 1163748006667 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1163748006668 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1163748006669 HD domain; Region: HD_5; pfam13487 1163748006670 PilZ domain; Region: PilZ; pfam07238 1163748006671 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1163748006672 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1163748006673 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1163748006674 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 1163748006675 dimer interface [polypeptide binding]; other site 1163748006676 conserved gate region; other site 1163748006677 putative PBP binding loops; other site 1163748006678 ABC-ATPase subunit interface; other site 1163748006679 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 1163748006680 dimer interface [polypeptide binding]; other site 1163748006681 conserved gate region; other site 1163748006682 putative PBP binding loops; other site 1163748006683 ABC-ATPase subunit interface; other site 1163748006684 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1163748006685 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1163748006686 acyl-activating enzyme (AAE) consensus motif; other site 1163748006687 putative AMP binding site [chemical binding]; other site 1163748006688 putative active site [active] 1163748006689 putative CoA binding site [chemical binding]; other site 1163748006690 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1163748006691 zinc binding site [ion binding]; other site 1163748006692 putative ligand binding site [chemical binding]; other site 1163748006693 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1163748006694 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1163748006695 TM-ABC transporter signature motif; other site 1163748006696 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1163748006697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748006698 Walker A/P-loop; other site 1163748006699 ATP binding site [chemical binding]; other site 1163748006700 Q-loop/lid; other site 1163748006701 ABC transporter signature motif; other site 1163748006702 Walker B; other site 1163748006703 D-loop; other site 1163748006704 H-loop/switch region; other site 1163748006705 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1163748006706 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1163748006707 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1163748006708 active site 1163748006709 dimer interface [polypeptide binding]; other site 1163748006710 effector binding site; other site 1163748006711 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1163748006712 TSCPD domain; Region: TSCPD; pfam12637 1163748006713 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748006714 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 1163748006715 active site 1163748006716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 1163748006717 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1163748006718 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1163748006719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748006720 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163748006721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748006722 TPR repeat; Region: TPR_11; pfam13414 1163748006723 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 1163748006724 binding surface 1163748006725 TPR motif; other site 1163748006726 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 1163748006727 dimer interface [polypeptide binding]; other site 1163748006728 FMN binding site [chemical binding]; other site 1163748006729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748006730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748006731 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 1163748006732 putative effector binding pocket; other site 1163748006733 dimerization interface [polypeptide binding]; other site 1163748006734 EamA-like transporter family; Region: EamA; pfam00892 1163748006735 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1163748006736 aspartate racemase; Region: asp_race; TIGR00035 1163748006737 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1163748006738 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163748006739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748006740 Coenzyme A binding pocket [chemical binding]; other site 1163748006741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163748006742 Predicted dehydrogenase [General function prediction only]; Region: COG5322 1163748006743 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1163748006744 NAD(P) binding pocket [chemical binding]; other site 1163748006745 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 1163748006746 active site 1163748006747 intersubunit interface [polypeptide binding]; other site 1163748006748 catalytic residue [active] 1163748006749 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1163748006750 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 1163748006751 FMN binding site [chemical binding]; other site 1163748006752 active site 1163748006753 catalytic residues [active] 1163748006754 substrate binding site [chemical binding]; other site 1163748006755 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1163748006756 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1163748006757 dimer interface [polypeptide binding]; other site 1163748006758 active site 1163748006759 heme binding site [chemical binding]; other site 1163748006760 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1163748006761 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1163748006762 heat shock protein 90; Provisional; Region: PRK05218 1163748006763 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748006764 ATP binding site [chemical binding]; other site 1163748006765 Mg2+ binding site [ion binding]; other site 1163748006766 G-X-G motif; other site 1163748006767 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748006768 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 1163748006769 CoenzymeA binding site [chemical binding]; other site 1163748006770 subunit interaction site [polypeptide binding]; other site 1163748006771 PHB binding site; other site 1163748006772 Protein of unknown function, DUF599; Region: DUF599; pfam04654 1163748006773 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163748006774 TPR repeat; Region: TPR_11; pfam13414 1163748006775 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 1163748006776 TPR motif; other site 1163748006777 binding surface 1163748006778 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1163748006779 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1163748006780 active site 1163748006781 NAD binding site [chemical binding]; other site 1163748006782 metal binding site [ion binding]; metal-binding site 1163748006783 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 1163748006784 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748006785 substrate binding pocket [chemical binding]; other site 1163748006786 membrane-bound complex binding site; other site 1163748006787 hinge residues; other site 1163748006788 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1163748006789 FtsX-like permease family; Region: FtsX; pfam02687 1163748006790 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1163748006791 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748006792 Walker A/P-loop; other site 1163748006793 ATP binding site [chemical binding]; other site 1163748006794 Q-loop/lid; other site 1163748006795 ABC transporter signature motif; other site 1163748006796 Walker B; other site 1163748006797 D-loop; other site 1163748006798 H-loop/switch region; other site 1163748006799 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 1163748006800 active site 1163748006801 catalytic triad [active] 1163748006802 oxyanion hole [active] 1163748006803 switch loop; other site 1163748006804 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1163748006805 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1163748006806 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1163748006807 active site 1163748006808 metal binding site [ion binding]; metal-binding site 1163748006809 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1163748006810 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1163748006811 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1163748006812 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 1163748006813 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163748006814 Ribosome modulation factor; Region: RMF; cl01207 1163748006815 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1163748006816 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 1163748006817 quinone interaction residues [chemical binding]; other site 1163748006818 active site 1163748006819 catalytic residues [active] 1163748006820 FMN binding site [chemical binding]; other site 1163748006821 substrate binding site [chemical binding]; other site 1163748006822 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1163748006823 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1163748006824 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1163748006825 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1163748006826 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163748006827 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1163748006828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163748006829 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163748006830 Peptidase_C39 like family; Region: DUF3335; pfam11814 1163748006831 excinuclease ABC subunit B; Provisional; Region: PRK05298 1163748006832 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 1163748006833 ATP binding site [chemical binding]; other site 1163748006834 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 1163748006835 nucleotide binding region [chemical binding]; other site 1163748006836 ATP-binding site [chemical binding]; other site 1163748006837 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1163748006838 UvrB/uvrC motif; Region: UVR; pfam02151 1163748006839 aspartate aminotransferase; Provisional; Region: PRK05764 1163748006840 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 1163748006841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748006842 homodimer interface [polypeptide binding]; other site 1163748006843 catalytic residue [active] 1163748006844 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 1163748006845 active site 1163748006846 dimer interface [polypeptide binding]; other site 1163748006847 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1163748006848 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1163748006849 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 1163748006850 IHF - DNA interface [nucleotide binding]; other site 1163748006851 IHF dimer interface [polypeptide binding]; other site 1163748006852 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1163748006853 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 1163748006854 RNA binding site [nucleotide binding]; other site 1163748006855 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 1163748006856 RNA binding site [nucleotide binding]; other site 1163748006857 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 1163748006858 RNA binding site [nucleotide binding]; other site 1163748006859 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 1163748006860 RNA binding site [nucleotide binding]; other site 1163748006861 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 1163748006862 RNA binding site [nucleotide binding]; other site 1163748006863 cytidylate kinase; Provisional; Region: cmk; PRK00023 1163748006864 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 1163748006865 CMP-binding site; other site 1163748006866 The sites determining sugar specificity; other site 1163748006867 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1163748006868 prephenate dehydrogenase; Validated; Region: PRK08507 1163748006869 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 1163748006870 hinge; other site 1163748006871 active site 1163748006872 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1163748006873 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 1163748006874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748006875 homodimer interface [polypeptide binding]; other site 1163748006876 catalytic residue [active] 1163748006877 Chorismate mutase type II; Region: CM_2; cl00693 1163748006878 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1163748006879 Prephenate dehydratase; Region: PDT; pfam00800 1163748006880 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 1163748006881 putative L-Phe binding site [chemical binding]; other site 1163748006882 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 1163748006883 homodimer interface [polypeptide binding]; other site 1163748006884 substrate-cofactor binding pocket; other site 1163748006885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748006886 catalytic residue [active] 1163748006887 DNA gyrase subunit A; Validated; Region: PRK05560 1163748006888 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 1163748006889 CAP-like domain; other site 1163748006890 active site 1163748006891 primary dimer interface [polypeptide binding]; other site 1163748006892 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163748006893 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163748006894 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163748006895 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163748006896 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163748006897 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1163748006898 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1163748006899 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1163748006900 putative active site [active] 1163748006901 putative substrate binding site [chemical binding]; other site 1163748006902 putative cosubstrate binding site; other site 1163748006903 catalytic site [active] 1163748006904 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1163748006905 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1163748006906 Domain of unknown function DUF77; Region: DUF77; cl00307 1163748006907 FtsH Extracellular; Region: FtsH_ext; pfam06480 1163748006908 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1163748006909 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 1163748006910 Walker A motif; other site 1163748006911 ATP binding site [chemical binding]; other site 1163748006912 Walker B motif; other site 1163748006913 arginine finger; other site 1163748006914 Peptidase family M41; Region: Peptidase_M41; pfam01434 1163748006915 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 1163748006916 Ligand Binding Site [chemical binding]; other site 1163748006917 AAA domain; Region: AAA_32; pfam13654 1163748006918 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163748006919 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1163748006920 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163748006921 putative S-transferase; Provisional; Region: PRK11752 1163748006922 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 1163748006923 C-terminal domain interface [polypeptide binding]; other site 1163748006924 GSH binding site (G-site) [chemical binding]; other site 1163748006925 dimer interface [polypeptide binding]; other site 1163748006926 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1163748006927 dimer interface [polypeptide binding]; other site 1163748006928 N-terminal domain interface [polypeptide binding]; other site 1163748006929 active site 1163748006930 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163748006931 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748006932 Walker A/P-loop; other site 1163748006933 ATP binding site [chemical binding]; other site 1163748006934 Q-loop/lid; other site 1163748006935 ABC transporter signature motif; other site 1163748006936 Walker B; other site 1163748006937 D-loop; other site 1163748006938 H-loop/switch region; other site 1163748006939 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163748006940 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1163748006941 FtsX-like permease family; Region: FtsX; pfam02687 1163748006942 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163748006943 FtsX-like permease family; Region: FtsX; pfam02687 1163748006944 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748006945 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748006946 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1163748006947 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1163748006948 SelR domain; Region: SelR; pfam01641 1163748006949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748006950 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 1163748006951 dimer interface [polypeptide binding]; other site 1163748006952 phosphorylation site [posttranslational modification] 1163748006953 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748006954 ATP binding site [chemical binding]; other site 1163748006955 Mg2+ binding site [ion binding]; other site 1163748006956 G-X-G motif; other site 1163748006957 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748006958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748006959 active site 1163748006960 phosphorylation site [posttranslational modification] 1163748006961 intermolecular recognition site; other site 1163748006962 dimerization interface [polypeptide binding]; other site 1163748006963 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 1163748006964 DNA binding site [nucleotide binding] 1163748006965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748006966 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1163748006967 NAD(P) binding site [chemical binding]; other site 1163748006968 active site 1163748006969 Cupin; Region: Cupin_6; pfam12852 1163748006970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748006971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748006972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748006973 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 1163748006974 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163748006975 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163748006976 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1163748006977 dimer interface [polypeptide binding]; other site 1163748006978 hexamer interface [polypeptide binding]; other site 1163748006979 active site 2 [active] 1163748006980 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1163748006981 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163748006982 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163748006983 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 1163748006984 YrhK-like protein; Region: YrhK; pfam14145 1163748006985 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1163748006986 aromatic arch; other site 1163748006987 DCoH dimer interaction site [polypeptide binding]; other site 1163748006988 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1163748006989 DCoH tetramer interaction site [polypeptide binding]; other site 1163748006990 substrate binding site [chemical binding]; other site 1163748006991 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1163748006992 DNA Polymerase Y-family; Region: PolY_like; cd03468 1163748006993 active site 1163748006994 DNA binding site [nucleotide binding] 1163748006995 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1163748006996 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1163748006997 putative active site [active] 1163748006998 putative PHP Thumb interface [polypeptide binding]; other site 1163748006999 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 1163748007000 generic binding surface I; other site 1163748007001 generic binding surface II; other site 1163748007002 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1163748007003 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1163748007004 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1163748007005 active site 1163748007006 catalytic residues [active] 1163748007007 metal binding site [ion binding]; metal-binding site 1163748007008 homodimer binding site [polypeptide binding]; other site 1163748007009 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 1163748007010 carboxyltransferase (CT) interaction site; other site 1163748007011 biotinylation site [posttranslational modification]; other site 1163748007012 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 1163748007013 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1163748007014 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 1163748007015 ATP binding site [chemical binding]; other site 1163748007016 Mg++ binding site [ion binding]; other site 1163748007017 motif III; other site 1163748007018 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 1163748007019 nucleotide binding region [chemical binding]; other site 1163748007020 ATP-binding site [chemical binding]; other site 1163748007021 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1163748007022 putative RNA binding site [nucleotide binding]; other site 1163748007023 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1163748007024 carbon storage regulator; Provisional; Region: PRK01712 1163748007025 aspartate kinase; Reviewed; Region: PRK06635 1163748007026 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1163748007027 putative nucleotide binding site [chemical binding]; other site 1163748007028 putative catalytic residues [active] 1163748007029 putative Mg ion binding site [ion binding]; other site 1163748007030 putative aspartate binding site [chemical binding]; other site 1163748007031 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1163748007032 putative allosteric regulatory site; other site 1163748007033 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1163748007034 putative allosteric regulatory residue; other site 1163748007035 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1163748007036 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 1163748007037 motif 1; other site 1163748007038 active site 1163748007039 motif 2; other site 1163748007040 motif 3; other site 1163748007041 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163748007042 DHHA1 domain; Region: DHHA1; pfam02272 1163748007043 RDD family; Region: RDD; pfam06271 1163748007044 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1163748007045 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163748007046 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1163748007047 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163748007048 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1163748007049 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 1163748007050 interface (dimer of trimers) [polypeptide binding]; other site 1163748007051 Substrate-binding/catalytic site; other site 1163748007052 Zn-binding sites [ion binding]; other site 1163748007053 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1163748007054 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1163748007055 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1163748007056 HIGH motif; other site 1163748007057 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163748007058 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1163748007059 active site 1163748007060 KMSKS motif; other site 1163748007061 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1163748007062 tRNA binding surface [nucleotide binding]; other site 1163748007063 anticodon binding site; other site 1163748007064 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1163748007065 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1163748007066 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1163748007067 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1163748007068 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 1163748007069 dimerization interface [polypeptide binding]; other site 1163748007070 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748007071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748007072 dimer interface [polypeptide binding]; other site 1163748007073 putative CheW interface [polypeptide binding]; other site 1163748007074 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1163748007075 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1163748007076 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 1163748007077 amidase catalytic site [active] 1163748007078 substrate binding site [chemical binding]; other site 1163748007079 Zn binding residues [ion binding]; other site 1163748007080 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163748007081 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1163748007082 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 1163748007083 dimerization interface [polypeptide binding]; other site 1163748007084 active site 1163748007085 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1163748007086 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163748007087 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 1163748007088 P-loop; other site 1163748007089 Magnesium ion binding site [ion binding]; other site 1163748007090 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 1163748007091 Magnesium ion binding site [ion binding]; other site 1163748007092 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1163748007093 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 1163748007094 Walker A motif; other site 1163748007095 ATP binding site [chemical binding]; other site 1163748007096 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1163748007097 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1163748007098 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1163748007099 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 1163748007100 dimerization interface [polypeptide binding]; other site 1163748007101 putative ATP binding site [chemical binding]; other site 1163748007102 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1163748007103 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1163748007104 active site 1163748007105 substrate binding site [chemical binding]; other site 1163748007106 cosubstrate binding site; other site 1163748007107 catalytic site [active] 1163748007108 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1163748007109 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1163748007110 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 1163748007111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748007112 homodimer interface [polypeptide binding]; other site 1163748007113 catalytic residue [active] 1163748007114 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1163748007115 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163748007116 trimer interface [polypeptide binding]; other site 1163748007117 active site 1163748007118 antiporter inner membrane protein; Provisional; Region: PRK11670 1163748007119 Domain of unknown function DUF59; Region: DUF59; pfam01883 1163748007120 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 1163748007121 Walker A motif; other site 1163748007122 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1163748007123 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1163748007124 active site 1163748007125 HIGH motif; other site 1163748007126 KMSKS motif; other site 1163748007127 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1163748007128 tRNA binding surface [nucleotide binding]; other site 1163748007129 anticodon binding site; other site 1163748007130 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 1163748007131 dimer interface [polypeptide binding]; other site 1163748007132 putative tRNA-binding site [nucleotide binding]; other site 1163748007133 electron transport complex protein RsxA; Provisional; Region: PRK05151 1163748007134 ferredoxin; Provisional; Region: PRK08764 1163748007135 Putative Fe-S cluster; Region: FeS; pfam04060 1163748007136 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1163748007137 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1163748007138 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1163748007139 SLBB domain; Region: SLBB; pfam10531 1163748007140 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 1163748007141 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1163748007142 FMN-binding domain; Region: FMN_bind; cl01081 1163748007143 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1163748007144 endonuclease III; Provisional; Region: PRK10702 1163748007145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163748007146 minor groove reading motif; other site 1163748007147 helix-hairpin-helix signature motif; other site 1163748007148 substrate binding pocket [chemical binding]; other site 1163748007149 active site 1163748007150 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1163748007151 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1163748007152 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163748007153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748007154 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163748007155 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 1163748007156 DNA binding residues [nucleotide binding] 1163748007157 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748007158 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 1163748007159 E3 interaction surface; other site 1163748007160 lipoyl attachment site [posttranslational modification]; other site 1163748007161 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1163748007162 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1163748007163 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1163748007164 S-adenosylmethionine binding site [chemical binding]; other site 1163748007165 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1163748007166 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 1163748007167 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1163748007168 Permutation of conserved domain; other site 1163748007169 active site 1163748007170 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 1163748007171 homotrimer interaction site [polypeptide binding]; other site 1163748007172 zinc binding site [ion binding]; other site 1163748007173 CDP-binding sites; other site 1163748007174 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1163748007175 substrate binding site; other site 1163748007176 dimer interface; other site 1163748007177 Septum formation initiator; Region: DivIC; cl17659 1163748007178 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1163748007179 enolase; Provisional; Region: eno; PRK00077 1163748007180 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 1163748007181 dimer interface [polypeptide binding]; other site 1163748007182 metal binding site [ion binding]; metal-binding site 1163748007183 substrate binding pocket [chemical binding]; other site 1163748007184 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163748007185 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1163748007186 CTP synthetase; Validated; Region: pyrG; PRK05380 1163748007187 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 1163748007188 Catalytic site [active] 1163748007189 active site 1163748007190 UTP binding site [chemical binding]; other site 1163748007191 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1163748007192 active site 1163748007193 putative oxyanion hole; other site 1163748007194 catalytic triad [active] 1163748007195 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 1163748007196 TilS substrate binding domain; Region: TilS; pfam09179 1163748007197 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1163748007198 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1163748007199 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1163748007200 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1163748007201 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1163748007202 putative active site [active] 1163748007203 putative PHP Thumb interface [polypeptide binding]; other site 1163748007204 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 1163748007205 generic binding surface II; other site 1163748007206 generic binding surface I; other site 1163748007207 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 1163748007208 catalytic residues [active] 1163748007209 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 1163748007210 ArsC family; Region: ArsC; pfam03960 1163748007211 catalytic residues [active] 1163748007212 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163748007213 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163748007214 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 1163748007215 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163748007216 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1163748007217 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 1163748007218 Walker A motif; other site 1163748007219 ATP binding site [chemical binding]; other site 1163748007220 Walker B motif; other site 1163748007221 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1163748007222 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 1163748007223 Protein of unknown function (DUF768); Region: DUF768; pfam05589 1163748007224 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 1163748007225 motif II; other site 1163748007226 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1163748007227 Cupin domain; Region: Cupin_2; cl17218 1163748007228 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1163748007229 intersubunit interface [polypeptide binding]; other site 1163748007230 active site 1163748007231 Zn2+ binding site [ion binding]; other site 1163748007232 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1163748007233 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1163748007234 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1163748007235 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1163748007236 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1163748007237 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1163748007238 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 1163748007239 catalytic loop [active] 1163748007240 iron binding site [ion binding]; other site 1163748007241 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1163748007242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1163748007243 Smr domain; Region: Smr; pfam01713 1163748007244 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1163748007245 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 1163748007246 ligand binding site [chemical binding]; other site 1163748007247 flexible hinge region; other site 1163748007248 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 1163748007249 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163748007250 metal binding triad; other site 1163748007251 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1163748007252 active site 1163748007253 catalytic site [active] 1163748007254 substrate binding site [chemical binding]; other site 1163748007255 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1163748007256 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1163748007257 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1163748007258 Na binding site [ion binding]; other site 1163748007259 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1163748007260 Na binding site [ion binding]; other site 1163748007261 PAS domain; Region: PAS; smart00091 1163748007262 PAS fold; Region: PAS_7; pfam12860 1163748007263 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748007264 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 1163748007265 dimer interface [polypeptide binding]; other site 1163748007266 phosphorylation site [posttranslational modification] 1163748007267 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748007268 ATP binding site [chemical binding]; other site 1163748007269 Mg2+ binding site [ion binding]; other site 1163748007270 G-X-G motif; other site 1163748007271 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748007272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007273 active site 1163748007274 phosphorylation site [posttranslational modification] 1163748007275 intermolecular recognition site; other site 1163748007276 dimerization interface [polypeptide binding]; other site 1163748007277 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1163748007278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007279 active site 1163748007280 phosphorylation site [posttranslational modification] 1163748007281 intermolecular recognition site; other site 1163748007282 dimerization interface [polypeptide binding]; other site 1163748007283 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 1163748007284 TPR motif; other site 1163748007285 binding surface 1163748007286 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163748007287 TPR repeat; Region: TPR_11; pfam13414 1163748007288 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 1163748007289 TPR motif; other site 1163748007290 binding surface 1163748007291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748007292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748007293 ATP binding site [chemical binding]; other site 1163748007294 Mg2+ binding site [ion binding]; other site 1163748007295 G-X-G motif; other site 1163748007296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007297 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748007298 active site 1163748007299 phosphorylation site [posttranslational modification] 1163748007300 intermolecular recognition site; other site 1163748007301 dimerization interface [polypeptide binding]; other site 1163748007302 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1163748007303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748007304 ATP-grasp domain; Region: ATP-grasp; pfam02222 1163748007305 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1163748007306 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 1163748007307 trimer interface [polypeptide binding]; other site 1163748007308 putative metal binding site [ion binding]; other site 1163748007309 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 1163748007310 putative active site [active] 1163748007311 putative CoA binding site [chemical binding]; other site 1163748007312 nudix motif; other site 1163748007313 metal binding site [ion binding]; metal-binding site 1163748007314 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_4; cd04511 1163748007315 nudix motif; other site 1163748007316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1163748007317 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1163748007318 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 1163748007319 dimerization interface [polypeptide binding]; other site 1163748007320 ATP binding site [chemical binding]; other site 1163748007321 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 1163748007322 dimerization interface [polypeptide binding]; other site 1163748007323 ATP binding site [chemical binding]; other site 1163748007324 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1163748007325 putative active site [active] 1163748007326 catalytic triad [active] 1163748007327 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1163748007328 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 1163748007329 substrate binding pocket [chemical binding]; other site 1163748007330 membrane-bound complex binding site; other site 1163748007331 hinge residues; other site 1163748007332 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 1163748007333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163748007334 catalytic residue [active] 1163748007335 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1163748007336 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1163748007337 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1163748007338 Late competence development protein ComFB; Region: ComFB; pfam10719 1163748007339 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1163748007340 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 1163748007341 dimer interface [polypeptide binding]; other site 1163748007342 active site 1163748007343 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1163748007344 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 1163748007345 substrate binding site [chemical binding]; other site 1163748007346 oxyanion hole (OAH) forming residues; other site 1163748007347 trimer interface [polypeptide binding]; other site 1163748007348 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163748007349 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163748007350 carboxy-terminal protease; Provisional; Region: PRK11186 1163748007351 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 1163748007352 protein binding site [polypeptide binding]; other site 1163748007353 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163748007354 Catalytic dyad [active] 1163748007355 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1163748007356 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 1163748007357 non-specific DNA binding site [nucleotide binding]; other site 1163748007358 salt bridge; other site 1163748007359 sequence-specific DNA binding site [nucleotide binding]; other site 1163748007360 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1163748007361 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1163748007362 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1163748007363 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1163748007364 active site 1163748007365 putative substrate binding pocket [chemical binding]; other site 1163748007366 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1163748007367 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 1163748007368 S-adenosylmethionine binding site [chemical binding]; other site 1163748007369 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1163748007370 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163748007371 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 1163748007372 active site 1163748007373 motif I; other site 1163748007374 motif II; other site 1163748007375 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1163748007376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748007377 NAD(P) binding site [chemical binding]; other site 1163748007378 active site 1163748007379 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1163748007380 hypothetical protein; Validated; Region: PRK02101 1163748007381 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1163748007382 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1163748007383 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1163748007384 CoA binding domain; Region: CoA_binding_2; pfam13380 1163748007385 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1163748007386 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1163748007387 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163748007388 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163748007389 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1163748007390 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1163748007391 putative active site [active] 1163748007392 Zn binding site [ion binding]; other site 1163748007393 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163748007394 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748007395 ligand binding site [chemical binding]; other site 1163748007396 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 1163748007397 active site 1163748007398 substrate binding pocket [chemical binding]; other site 1163748007399 dimer interface [polypeptide binding]; other site 1163748007400 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1163748007401 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1163748007402 dimer interface [polypeptide binding]; other site 1163748007403 catalytic site [active] 1163748007404 putative active site [active] 1163748007405 putative substrate binding site [chemical binding]; other site 1163748007406 short chain dehydrogenase; Provisional; Region: PRK07201 1163748007407 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 1163748007408 putative NAD(P) binding site [chemical binding]; other site 1163748007409 active site 1163748007410 putative substrate binding site [chemical binding]; other site 1163748007411 classical (c) SDRs; Region: SDR_c; cd05233 1163748007412 NAD(P) binding site [chemical binding]; other site 1163748007413 active site 1163748007414 transketolase; Region: PLN02790 1163748007415 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1163748007416 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163748007417 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163748007418 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163748007419 Predicted permease; Region: DUF318; cl17795 1163748007420 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748007421 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1163748007422 C-terminal domain interface [polypeptide binding]; other site 1163748007423 GSH binding site (G-site) [chemical binding]; other site 1163748007424 dimer interface [polypeptide binding]; other site 1163748007425 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1163748007426 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1163748007427 hexamer interface [polypeptide binding]; other site 1163748007428 ligand binding site [chemical binding]; other site 1163748007429 putative active site [active] 1163748007430 NAD(P) binding site [chemical binding]; other site 1163748007431 oxidoreductase; Validated; Region: PRK05717 1163748007432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748007433 NAD(P) binding site [chemical binding]; other site 1163748007434 active site 1163748007435 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 1163748007436 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1163748007437 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 1163748007438 PAS domain; Region: PAS_9; pfam13426 1163748007439 putative active site [active] 1163748007440 heme pocket [chemical binding]; other site 1163748007441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748007442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748007443 metal binding site [ion binding]; metal-binding site 1163748007444 active site 1163748007445 I-site; other site 1163748007446 cell division protein MukB; Provisional; Region: mukB; PRK04863 1163748007447 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1163748007448 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1163748007449 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1163748007450 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1163748007451 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1163748007452 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 1163748007453 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 1163748007454 dimerization interface [polypeptide binding]; other site 1163748007455 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748007456 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748007457 dimer interface [polypeptide binding]; other site 1163748007458 putative CheW interface [polypeptide binding]; other site 1163748007459 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1163748007460 BolA-like protein; Region: BolA; cl00386 1163748007461 DNA topoisomerase III; Provisional; Region: PRK07726 1163748007462 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1163748007463 active site 1163748007464 putative interdomain interaction site [polypeptide binding]; other site 1163748007465 putative metal-binding site [ion binding]; other site 1163748007466 putative nucleotide binding site [chemical binding]; other site 1163748007467 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1163748007468 domain I; other site 1163748007469 phosphate binding site [ion binding]; other site 1163748007470 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; cl11986 1163748007471 domain III; other site 1163748007472 nucleotide binding site [chemical binding]; other site 1163748007473 DNA binding groove [nucleotide binding] 1163748007474 catalytic site [active] 1163748007475 domain II; other site 1163748007476 domain IV; other site 1163748007477 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748007478 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163748007479 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748007480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007481 active site 1163748007482 phosphorylation site [posttranslational modification] 1163748007483 intermolecular recognition site; other site 1163748007484 dimerization interface [polypeptide binding]; other site 1163748007485 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 1163748007486 DNA binding site [nucleotide binding] 1163748007487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1163748007488 FecR protein; Region: FecR; pfam04773 1163748007489 CHASE2 domain; Region: CHASE2; pfam05226 1163748007490 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163748007491 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 1163748007492 putative active site [active] 1163748007493 heme pocket [chemical binding]; other site 1163748007494 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748007495 ATP binding site [chemical binding]; other site 1163748007496 Mg2+ binding site [ion binding]; other site 1163748007497 G-X-G motif; other site 1163748007498 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 1163748007499 Interdomain contacts; other site 1163748007500 Cytokine receptor motif; other site 1163748007501 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1163748007502 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163748007503 active site 1163748007504 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1163748007505 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1163748007506 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1163748007507 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 1163748007508 active site 1163748007509 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 1163748007510 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1163748007511 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1163748007512 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 1163748007513 trimer interface [polypeptide binding]; other site 1163748007514 active site 1163748007515 UDP-GlcNAc binding site [chemical binding]; other site 1163748007516 lipid binding site [chemical binding]; lipid-binding site 1163748007517 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1163748007518 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1163748007519 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748007520 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748007521 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748007522 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163748007523 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163748007524 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1163748007525 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 1163748007526 active site 1163748007527 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 1163748007528 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 1163748007529 protein binding site [polypeptide binding]; other site 1163748007530 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1163748007531 putative substrate binding region [chemical binding]; other site 1163748007532 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1163748007533 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1163748007534 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1163748007535 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1163748007536 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1163748007537 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1163748007538 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; cl00230 1163748007539 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1163748007540 catalytic residue [active] 1163748007541 putative FPP diphosphate binding site; other site 1163748007542 putative FPP binding hydrophobic cleft; other site 1163748007543 dimer interface [polypeptide binding]; other site 1163748007544 putative IPP diphosphate binding site; other site 1163748007545 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1163748007546 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 1163748007547 hinge region; other site 1163748007548 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 1163748007549 putative nucleotide binding site [chemical binding]; other site 1163748007550 uridine monophosphate binding site [chemical binding]; other site 1163748007551 homohexameric interface [polypeptide binding]; other site 1163748007552 elongation factor Ts; Provisional; Region: tsf; PRK09377 1163748007553 UBA/TS-N domain; Region: UBA; pfam00627 1163748007554 Elongation factor TS; Region: EF_TS; pfam00889 1163748007555 Elongation factor TS; Region: EF_TS; pfam00889 1163748007556 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 1163748007557 rRNA interaction site [nucleotide binding]; other site 1163748007558 S8 interaction site; other site 1163748007559 putative laminin-1 binding site; other site 1163748007560 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 1163748007561 active site 1163748007562 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1163748007563 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163748007564 metal binding triad; other site 1163748007565 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1163748007566 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748007567 Zn2+ binding site [ion binding]; other site 1163748007568 Mg2+ binding site [ion binding]; other site 1163748007569 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 1163748007570 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 1163748007571 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1163748007572 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 1163748007573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748007574 homodimer interface [polypeptide binding]; other site 1163748007575 catalytic residue [active] 1163748007576 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 1163748007577 ArsC family; Region: ArsC; pfam03960 1163748007578 putative catalytic residues [active] 1163748007579 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1163748007580 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1163748007581 putative trimer interface [polypeptide binding]; other site 1163748007582 putative CoA binding site [chemical binding]; other site 1163748007583 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1163748007584 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1163748007585 metal binding site [ion binding]; metal-binding site 1163748007586 dimer interface [polypeptide binding]; other site 1163748007587 SlyX; Region: SlyX; pfam04102 1163748007588 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 1163748007589 DNA-binding site [nucleotide binding]; DNA binding site 1163748007590 RNA-binding motif; other site 1163748007591 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1163748007592 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1163748007593 dimer interface [polypeptide binding]; other site 1163748007594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163748007595 active site 1163748007596 metal binding site [ion binding]; metal-binding site 1163748007597 glutathione binding site [chemical binding]; other site 1163748007598 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163748007599 RHS Repeat; Region: RHS_repeat; pfam05593 1163748007600 RHS Repeat; Region: RHS_repeat; pfam05593 1163748007601 RHS protein; Region: RHS; pfam03527 1163748007602 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1163748007603 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1163748007604 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1163748007605 VRR-NUC domain; Region: VRR_NUC; cl17748 1163748007606 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1163748007607 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1163748007608 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1163748007609 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1163748007610 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 1163748007611 active site 1163748007612 homodimer interface [polypeptide binding]; other site 1163748007613 catalytic site [active] 1163748007614 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1163748007615 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 1163748007616 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 1163748007617 active site 1163748007618 motif I; other site 1163748007619 motif II; other site 1163748007620 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; cl17915 1163748007621 hypothetical protein; Validated; Region: PRK00029 1163748007622 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1163748007623 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1163748007624 muropeptide transporter; Validated; Region: ampG; cl17669 1163748007625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1163748007626 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1163748007627 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748007628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007629 active site 1163748007630 phosphorylation site [posttranslational modification] 1163748007631 intermolecular recognition site; other site 1163748007632 dimerization interface [polypeptide binding]; other site 1163748007633 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748007634 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748007635 metal binding site [ion binding]; metal-binding site 1163748007636 active site 1163748007637 I-site; other site 1163748007638 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748007639 SurA N-terminal domain; Region: SurA_N; pfam09312 1163748007640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748007641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748007642 argininosuccinate synthase; Provisional; Region: PRK13820 1163748007643 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 1163748007644 ANP binding site [chemical binding]; other site 1163748007645 Substrate Binding Site II [chemical binding]; other site 1163748007646 Substrate Binding Site I [chemical binding]; other site 1163748007647 flagellar protein FliS; Validated; Region: fliS; PRK05685 1163748007648 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1163748007649 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1163748007650 FlaG protein; Region: FlaG; pfam03646 1163748007651 flagellin; Provisional; Region: PRK12806 1163748007652 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163748007653 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163748007654 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748007655 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 1163748007656 active site 1163748007657 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 1163748007658 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163748007659 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1163748007660 Probable Catalytic site; other site 1163748007661 metal-binding site 1163748007662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748007663 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1163748007664 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 1163748007665 binding surface 1163748007666 TPR motif; other site 1163748007667 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163748007668 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 1163748007669 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 1163748007670 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1163748007671 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748007672 catalytic residue [active] 1163748007673 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1163748007674 WbqC-like protein family; Region: WbqC; pfam08889 1163748007675 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1163748007676 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 1163748007677 inhibitor-cofactor binding pocket; inhibition site 1163748007678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748007679 catalytic residue [active] 1163748007680 flagellin; Provisional; Region: PRK12806 1163748007681 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163748007682 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163748007683 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163748007684 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1163748007685 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1163748007686 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1163748007687 substrate binding site; other site 1163748007688 tetramer interface; other site 1163748007689 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1163748007690 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1163748007691 NADP binding site [chemical binding]; other site 1163748007692 active site 1163748007693 putative substrate binding site [chemical binding]; other site 1163748007694 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1163748007695 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1163748007696 NAD binding site [chemical binding]; other site 1163748007697 substrate binding site [chemical binding]; other site 1163748007698 homodimer interface [polypeptide binding]; other site 1163748007699 active site 1163748007700 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 1163748007701 TPR motif; other site 1163748007702 binding surface 1163748007703 TPR repeat; Region: TPR_11; pfam13414 1163748007704 exonuclease I; Provisional; Region: sbcB; PRK11779 1163748007705 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1163748007706 active site 1163748007707 catalytic site [active] 1163748007708 substrate binding site [chemical binding]; other site 1163748007709 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1163748007710 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748007711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007712 active site 1163748007713 phosphorylation site [posttranslational modification] 1163748007714 intermolecular recognition site; other site 1163748007715 dimerization interface [polypeptide binding]; other site 1163748007716 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1163748007717 PAS fold; Region: PAS_4; pfam08448 1163748007718 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748007719 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748007720 metal binding site [ion binding]; metal-binding site 1163748007721 active site 1163748007722 I-site; other site 1163748007723 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1163748007724 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163748007725 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1163748007726 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1163748007727 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1163748007728 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1163748007729 Beta-Casp domain; Region: Beta-Casp; smart01027 1163748007730 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1163748007731 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1163748007732 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1163748007733 NAD(P) binding site [chemical binding]; other site 1163748007734 homodimer interface [polypeptide binding]; other site 1163748007735 substrate binding site [chemical binding]; other site 1163748007736 active site 1163748007737 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1163748007738 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163748007739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748007740 NAD(P) binding site [chemical binding]; other site 1163748007741 active site 1163748007742 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163748007743 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1163748007744 NAD binding site [chemical binding]; other site 1163748007745 putative substrate binding site 2 [chemical binding]; other site 1163748007746 putative substrate binding site 1 [chemical binding]; other site 1163748007747 active site 1163748007748 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163748007749 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 1163748007750 active site 1163748007751 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1163748007752 pseudaminic acid synthase; Region: PseI; TIGR03586 1163748007753 NeuB family; Region: NeuB; pfam03102 1163748007754 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1163748007755 NeuB binding interface [polypeptide binding]; other site 1163748007756 putative substrate binding site [chemical binding]; other site 1163748007757 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163748007758 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1163748007759 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 1163748007760 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 1163748007761 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1163748007762 ligand binding site; other site 1163748007763 tetramer interface; other site 1163748007764 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1163748007765 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 1163748007766 inhibitor-cofactor binding pocket; inhibition site 1163748007767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748007768 catalytic residue [active] 1163748007769 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1163748007770 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1163748007771 NAD(P) binding site [chemical binding]; other site 1163748007772 homodimer interface [polypeptide binding]; other site 1163748007773 substrate binding site [chemical binding]; other site 1163748007774 active site 1163748007775 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1163748007776 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1163748007777 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1163748007778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748007779 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1163748007780 putative ADP-binding pocket [chemical binding]; other site 1163748007781 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1163748007782 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1163748007783 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1163748007784 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1163748007785 Walker A/P-loop; other site 1163748007786 ATP binding site [chemical binding]; other site 1163748007787 Q-loop/lid; other site 1163748007788 ABC transporter signature motif; other site 1163748007789 Walker B; other site 1163748007790 D-loop; other site 1163748007791 H-loop/switch region; other site 1163748007792 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1163748007793 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1163748007794 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1163748007795 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1163748007796 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1163748007797 transcriptional activator RfaH; Region: RfaH; TIGR01955 1163748007798 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1163748007799 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1163748007800 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1163748007801 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 1163748007802 active site 1163748007803 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1163748007804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163748007805 Beta-Casp domain; Region: Beta-Casp; smart01027 1163748007806 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1163748007807 Cytochrome c; Region: Cytochrom_C; cl11414 1163748007808 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748007809 Pilin (bacterial filament); Region: Pilin; pfam00114 1163748007810 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163748007811 Pilin (bacterial filament); Region: Pilin; pfam00114 1163748007812 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1163748007813 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163748007814 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 1163748007815 Walker A motif; other site 1163748007816 ATP binding site [chemical binding]; other site 1163748007817 Walker B motif; other site 1163748007818 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1163748007819 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748007820 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163748007821 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 1163748007822 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1163748007823 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1163748007824 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1163748007825 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 1163748007826 CoA-binding site [chemical binding]; other site 1163748007827 ATP-binding [chemical binding]; other site 1163748007828 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1163748007829 homodimer interaction site [polypeptide binding]; other site 1163748007830 cofactor binding site; other site 1163748007831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748007832 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 1163748007833 dimer interface [polypeptide binding]; other site 1163748007834 phosphorylation site [posttranslational modification] 1163748007835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748007836 ATP binding site [chemical binding]; other site 1163748007837 Mg2+ binding site [ion binding]; other site 1163748007838 G-X-G motif; other site 1163748007839 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748007840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007841 active site 1163748007842 phosphorylation site [posttranslational modification] 1163748007843 intermolecular recognition site; other site 1163748007844 dimerization interface [polypeptide binding]; other site 1163748007845 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748007846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748007847 active site 1163748007848 phosphorylation site [posttranslational modification] 1163748007849 intermolecular recognition site; other site 1163748007850 dimerization interface [polypeptide binding]; other site 1163748007851 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1163748007852 YfaZ precursor; Region: YfaZ; pfam07437 1163748007853 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1163748007854 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748007855 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1163748007856 putative acyl-acceptor binding pocket; other site 1163748007857 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1163748007858 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 1163748007859 DNA binding residues [nucleotide binding] 1163748007860 dimerization interface [polypeptide binding]; other site 1163748007861 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1163748007862 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1163748007863 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1163748007864 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 1163748007865 dimer interface [polypeptide binding]; other site 1163748007866 active site 1163748007867 Predicted ATPase [General function prediction only]; Region: COG1485 1163748007868 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1163748007869 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1163748007870 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1163748007871 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1163748007872 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 1163748007873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748007874 homodimer interface [polypeptide binding]; other site 1163748007875 catalytic residue [active] 1163748007876 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1163748007877 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 1163748007878 NAD binding site [chemical binding]; other site 1163748007879 dimerization interface [polypeptide binding]; other site 1163748007880 product binding site; other site 1163748007881 substrate binding site [chemical binding]; other site 1163748007882 zinc binding site [ion binding]; other site 1163748007883 catalytic residues [active] 1163748007884 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1163748007885 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1163748007886 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1163748007887 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 1163748007888 hinge; other site 1163748007889 active site 1163748007890 BolA-like protein; Region: BolA; cl00386 1163748007891 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 1163748007892 anti sigma factor interaction site; other site 1163748007893 regulatory phosphorylation site [posttranslational modification]; other site 1163748007894 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1163748007895 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163748007896 mce related protein; Region: MCE; pfam02470 1163748007897 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163748007898 Permease; Region: Permease; cl00510 1163748007899 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1163748007900 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1163748007901 Walker A/P-loop; other site 1163748007902 ATP binding site [chemical binding]; other site 1163748007903 Q-loop/lid; other site 1163748007904 ABC transporter signature motif; other site 1163748007905 Walker B; other site 1163748007906 D-loop; other site 1163748007907 H-loop/switch region; other site 1163748007908 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 1163748007909 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 1163748007910 putative active site [active] 1163748007911 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 1163748007912 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1163748007913 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 1163748007914 active site 1163748007915 motif I; other site 1163748007916 motif II; other site 1163748007917 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1163748007918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1163748007919 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1163748007920 OstA-like protein; Region: OstA; pfam03968 1163748007921 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1163748007922 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1163748007923 Walker A/P-loop; other site 1163748007924 ATP binding site [chemical binding]; other site 1163748007925 Q-loop/lid; other site 1163748007926 ABC transporter signature motif; other site 1163748007927 Walker B; other site 1163748007928 D-loop; other site 1163748007929 H-loop/switch region; other site 1163748007930 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1163748007931 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1163748007932 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1163748007933 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1163748007934 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 1163748007935 30S subunit binding site; other site 1163748007936 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 1163748007937 active site 1163748007938 phosphorylation site [posttranslational modification] 1163748007939 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1163748007940 AAA domain; Region: AAA_33; pfam13671 1163748007941 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 1163748007942 dimerization domain swap beta strand [polypeptide binding]; other site 1163748007943 regulatory protein interface [polypeptide binding]; other site 1163748007944 active site 1163748007945 regulatory phosphorylation site [posttranslational modification]; other site 1163748007946 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1163748007947 MgtE intracellular N domain; Region: MgtE_N; smart00924 1163748007948 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 1163748007949 Divalent cation transporter; Region: MgtE; cl00786 1163748007950 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1163748007951 nitrilase; Region: PLN02798 1163748007952 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1163748007953 putative active site [active] 1163748007954 catalytic triad [active] 1163748007955 dimer interface [polypeptide binding]; other site 1163748007956 Predicted membrane protein [Function unknown]; Region: COG3164 1163748007957 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1163748007958 ribonuclease G; Provisional; Region: PRK11712 1163748007959 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 1163748007960 homodimer interface [polypeptide binding]; other site 1163748007961 oligonucleotide binding site [chemical binding]; other site 1163748007962 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 1163748007963 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 1163748007964 active site 1163748007965 dimer interface [polypeptide binding]; other site 1163748007966 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1163748007967 rod shape-determining protein MreC; Provisional; Region: PRK13922 1163748007968 rod shape-determining protein MreC; Region: MreC; pfam04085 1163748007969 rod shape-determining protein MreB; Provisional; Region: PRK13927 1163748007970 MreB and similar proteins; Region: MreB_like; cd10225 1163748007971 nucleotide binding site [chemical binding]; other site 1163748007972 Mg binding site [ion binding]; other site 1163748007973 putative protofilament interaction site [polypeptide binding]; other site 1163748007974 RodZ interaction site [polypeptide binding]; other site 1163748007975 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1163748007976 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1163748007977 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1163748007978 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1163748007979 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1163748007980 GatB domain; Region: GatB_Yqey; smart00845 1163748007981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748007982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748007983 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 1163748007984 dimerization interface [polypeptide binding]; other site 1163748007985 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1163748007986 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748007987 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163748007988 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163748007989 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1163748007990 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1163748007991 active site 1163748007992 catalytic residues [active] 1163748007993 metal binding site [ion binding]; metal-binding site 1163748007994 homodimer binding site [polypeptide binding]; other site 1163748007995 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 1163748007996 carboxyltransferase (CT) interaction site; other site 1163748007997 biotinylation site [posttranslational modification]; other site 1163748007998 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1163748007999 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163748008000 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 1163748008001 FeS/SAM binding site; other site 1163748008002 PilZ domain; Region: PilZ; pfam07238 1163748008003 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1163748008004 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 1163748008005 Active Sites [active] 1163748008006 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1163748008007 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1163748008008 CysD dimerization site [polypeptide binding]; other site 1163748008009 G1 box; other site 1163748008010 putative GEF interaction site [polypeptide binding]; other site 1163748008011 GTP/Mg2+ binding site [chemical binding]; other site 1163748008012 Switch I region; other site 1163748008013 G2 box; other site 1163748008014 G3 box; other site 1163748008015 Switch II region; other site 1163748008016 G4 box; other site 1163748008017 G5 box; other site 1163748008018 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 1163748008019 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 1163748008020 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 1163748008021 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1163748008022 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1163748008023 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1163748008024 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163748008025 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1163748008026 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1163748008027 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163748008028 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 1163748008029 FeS/SAM binding site; other site 1163748008030 TRAM domain; Region: TRAM; pfam01938 1163748008031 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1163748008032 PhoH-like protein; Region: PhoH; pfam02562 1163748008033 metal-binding heat shock protein; Provisional; Region: PRK00016 1163748008034 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1163748008035 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 1163748008036 Transporter associated domain; Region: CorC_HlyC; smart01091 1163748008037 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1163748008038 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1163748008039 putative active site [active] 1163748008040 catalytic triad [active] 1163748008041 putative dimer interface [polypeptide binding]; other site 1163748008042 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 1163748008043 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1163748008044 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163748008045 HIGH motif; other site 1163748008046 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163748008047 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163748008048 active site 1163748008049 KMSKS motif; other site 1163748008050 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1163748008051 tRNA binding surface [nucleotide binding]; other site 1163748008052 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1163748008053 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1163748008054 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1163748008055 Endonuclease I; Region: Endonuclease_1; cl01003 1163748008056 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163748008057 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163748008058 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748008059 active site 1163748008060 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163748008061 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163748008062 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163748008063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748008064 active site 1163748008065 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163748008066 SprA-related family; Region: SprA-related; pfam12118 1163748008067 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1163748008068 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1163748008069 AAA domain; Region: AAA_26; pfam13500 1163748008070 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1163748008071 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 1163748008072 S-adenosylmethionine binding site [chemical binding]; other site 1163748008073 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1163748008074 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 1163748008075 substrate-cofactor binding pocket; other site 1163748008076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748008077 catalytic residue [active] 1163748008078 biotin synthase; Region: bioB; TIGR00433 1163748008079 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 1163748008080 FeS/SAM binding site; other site 1163748008081 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1163748008082 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1163748008083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748008084 active site 1163748008085 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163748008086 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1163748008087 serine/threonine protein kinase; Provisional; Region: PRK11768 1163748008088 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1163748008089 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 1163748008090 S-adenosylmethionine binding site [chemical binding]; other site 1163748008091 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163748008092 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 1163748008093 S-adenosylmethionine binding site [chemical binding]; other site 1163748008094 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1163748008095 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 1163748008096 GDP-binding site [chemical binding]; other site 1163748008097 ACT binding site; other site 1163748008098 IMP binding site; other site 1163748008099 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1163748008100 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 1163748008101 dimer interface [polypeptide binding]; other site 1163748008102 motif 1; other site 1163748008103 active site 1163748008104 motif 2; other site 1163748008105 motif 3; other site 1163748008106 HflC protein; Region: hflC; TIGR01932 1163748008107 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 1163748008108 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1163748008109 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 1163748008110 HflK protein; Region: hflK; TIGR01933 1163748008111 GTPase HflX; Provisional; Region: PRK11058 1163748008112 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1163748008113 HflX GTPase family; Region: HflX; cd01878 1163748008114 G1 box; other site 1163748008115 GTP/Mg2+ binding site [chemical binding]; other site 1163748008116 Switch I region; other site 1163748008117 G2 box; other site 1163748008118 G3 box; other site 1163748008119 Switch II region; other site 1163748008120 G4 box; other site 1163748008121 G5 box; other site 1163748008122 bacterial Hfq-like; Region: Hfq; cd01716 1163748008123 hexamer interface [polypeptide binding]; other site 1163748008124 Sm1 motif; other site 1163748008125 RNA binding site [nucleotide binding]; other site 1163748008126 Sm2 motif; other site 1163748008127 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1163748008128 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1163748008129 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1163748008130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748008131 ATP binding site [chemical binding]; other site 1163748008132 Mg2+ binding site [ion binding]; other site 1163748008133 G-X-G motif; other site 1163748008134 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 1163748008135 ATP binding site [chemical binding]; other site 1163748008136 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1163748008137 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1163748008138 AMIN domain; Region: AMIN; pfam11741 1163748008139 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 1163748008140 active site 1163748008141 metal binding site [ion binding]; metal-binding site 1163748008142 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1163748008143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163748008144 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1163748008145 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1163748008146 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 1163748008147 putative substrate binding site [chemical binding]; other site 1163748008148 putative ATP binding site [chemical binding]; other site 1163748008149 epoxyqueuosine reductase; Region: TIGR00276 1163748008150 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1163748008151 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1163748008152 catalytic site [active] 1163748008153 putative active site [active] 1163748008154 putative substrate binding site [chemical binding]; other site 1163748008155 dimer interface [polypeptide binding]; other site 1163748008156 GTPase RsgA; Reviewed; Region: PRK12288 1163748008157 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 1163748008158 RNA binding site [nucleotide binding]; other site 1163748008159 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1163748008160 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1163748008161 GTP/Mg2+ binding site [chemical binding]; other site 1163748008162 G4 box; other site 1163748008163 G5 box; other site 1163748008164 G1 box; other site 1163748008165 Switch I region; other site 1163748008166 G2 box; other site 1163748008167 G3 box; other site 1163748008168 Switch II region; other site 1163748008169 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1163748008170 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1163748008171 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748008172 ligand binding site [chemical binding]; other site 1163748008173 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 1163748008174 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163748008175 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1163748008176 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 1163748008177 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1163748008178 motif 1; other site 1163748008179 dimer interface [polypeptide binding]; other site 1163748008180 active site 1163748008181 motif 2; other site 1163748008182 motif 3; other site 1163748008183 elongation factor P; Validated; Region: PRK00529 1163748008184 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163748008185 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 1163748008186 RNA binding site [nucleotide binding]; other site 1163748008187 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 1163748008188 RNA binding site [nucleotide binding]; other site 1163748008189 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 1163748008190 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1163748008191 FeS/SAM binding site; other site 1163748008192 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748008193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1163748008194 active site 1163748008195 phosphorylation site [posttranslational modification] 1163748008196 intermolecular recognition site; other site 1163748008197 dimerization interface [polypeptide binding]; other site 1163748008198 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 1163748008199 putative active site [active] 1163748008200 heme pocket [chemical binding]; other site 1163748008201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748008202 metal binding site [ion binding]; metal-binding site 1163748008203 active site 1163748008204 I-site; other site 1163748008205 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 1163748008206 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1163748008207 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1163748008208 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1163748008209 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1163748008210 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 1163748008211 motif II; other site 1163748008212 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1163748008213 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 1163748008214 CAP-like domain; other site 1163748008215 active site 1163748008216 primary dimer interface [polypeptide binding]; other site 1163748008217 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1163748008218 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 1163748008219 dimerization interface [polypeptide binding]; other site 1163748008220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748008221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748008222 dimer interface [polypeptide binding]; other site 1163748008223 putative CheW interface [polypeptide binding]; other site 1163748008224 hypothetical protein; Provisional; Region: PRK03757 1163748008225 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1163748008226 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 1163748008227 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 1163748008228 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163748008229 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163748008230 TrkA-C domain; Region: TrkA_C; pfam02080 1163748008231 TrkA-C domain; Region: TrkA_C; pfam02080 1163748008232 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 1163748008233 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1163748008234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748008235 Mg2+ binding site [ion binding]; other site 1163748008236 G-X-G motif; other site 1163748008237 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 1163748008238 anchoring element; other site 1163748008239 dimer interface [polypeptide binding]; other site 1163748008240 ATP binding site [chemical binding]; other site 1163748008241 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 1163748008242 active site 1163748008243 metal binding site [ion binding]; metal-binding site 1163748008244 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163748008245 PrcB C-terminal; Region: PrcB_C; pfam14343 1163748008246 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1163748008247 active site 1163748008248 catalytic residues [active] 1163748008249 DctM-like transporters; Region: DctM; pfam06808 1163748008250 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1163748008251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748008252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748008253 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1163748008254 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163748008255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748008256 NAD(P) binding site [chemical binding]; other site 1163748008257 active site 1163748008258 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1163748008259 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1163748008260 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1163748008261 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748008262 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748008263 active site 1163748008264 enoyl-CoA hydratase; Provisional; Region: PRK05995 1163748008265 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 1163748008266 substrate binding site [chemical binding]; other site 1163748008267 oxyanion hole (OAH) forming residues; other site 1163748008268 trimer interface [polypeptide binding]; other site 1163748008269 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1163748008270 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748008271 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163748008272 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163748008273 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 1163748008274 carboxyltransferase (CT) interaction site; other site 1163748008275 biotinylation site [posttranslational modification]; other site 1163748008276 short chain dehydrogenase; Provisional; Region: PRK08278 1163748008277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748008278 NAD(P) binding site [chemical binding]; other site 1163748008279 active site 1163748008280 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 1163748008281 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748008282 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 1163748008283 acyl-activating enzyme (AAE) consensus motif; other site 1163748008284 putative AMP binding site [chemical binding]; other site 1163748008285 putative active site [active] 1163748008286 putative CoA binding site [chemical binding]; other site 1163748008287 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1163748008288 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1163748008289 NAD(P) binding site [chemical binding]; other site 1163748008290 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163748008291 Predicted membrane protein [Function unknown]; Region: COG2860 1163748008292 UPF0126 domain; Region: UPF0126; pfam03458 1163748008293 UPF0126 domain; Region: UPF0126; pfam03458 1163748008294 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1163748008295 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748008296 active site 1163748008297 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1163748008298 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 1163748008299 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1163748008300 ABC1 family; Region: ABC1; pfam03109 1163748008301 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 1163748008302 active site 1163748008303 ATP binding site [chemical binding]; other site 1163748008304 NAD-dependent deacetylase; Provisional; Region: PRK00481 1163748008305 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 1163748008306 NAD+ binding site [chemical binding]; other site 1163748008307 substrate binding site [chemical binding]; other site 1163748008308 Zn binding site [ion binding]; other site 1163748008309 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1163748008310 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748008311 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1163748008312 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1163748008313 ligand binding site [chemical binding]; other site 1163748008314 NAD binding site [chemical binding]; other site 1163748008315 tetramer interface [polypeptide binding]; other site 1163748008316 catalytic site [active] 1163748008317 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1163748008318 L-serine binding site [chemical binding]; other site 1163748008319 ACT domain interface; other site 1163748008320 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1163748008321 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748008322 ligand binding site [chemical binding]; other site 1163748008323 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1163748008324 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748008325 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1163748008326 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1163748008327 GIY-YIG motif/motif A; other site 1163748008328 putative active site [active] 1163748008329 putative metal binding site [ion binding]; other site 1163748008330 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163748008331 EamA-like transporter family; Region: EamA; pfam00892 1163748008332 EamA-like transporter family; Region: EamA; pfam00892 1163748008333 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163748008334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748008335 active site 1163748008336 phosphorylation site [posttranslational modification] 1163748008337 intermolecular recognition site; other site 1163748008338 dimerization interface [polypeptide binding]; other site 1163748008339 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 1163748008340 Walker A motif; other site 1163748008341 ATP binding site [chemical binding]; other site 1163748008342 Walker B motif; other site 1163748008343 arginine finger; other site 1163748008344 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748008345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748008346 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 1163748008347 dimer interface [polypeptide binding]; other site 1163748008348 phosphorylation site [posttranslational modification] 1163748008349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748008350 ATP binding site [chemical binding]; other site 1163748008351 Mg2+ binding site [ion binding]; other site 1163748008352 G-X-G motif; other site 1163748008353 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1163748008354 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1163748008355 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1163748008356 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163748008357 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1163748008358 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 1163748008359 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 1163748008360 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1163748008361 Imelysin; Region: Peptidase_M75; cl09159 1163748008362 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1163748008363 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1163748008364 Imelysin; Region: Peptidase_M75; pfam09375 1163748008365 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1163748008366 Predicted membrane protein [Function unknown]; Region: COG3671 1163748008367 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748008368 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748008369 dimer interface [polypeptide binding]; other site 1163748008370 putative CheW interface [polypeptide binding]; other site 1163748008371 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1163748008372 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 1163748008373 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1163748008374 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163748008375 Di-iron ligands [ion binding]; other site 1163748008376 enoyl-CoA hydratase; Provisional; Region: PRK06563 1163748008377 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 1163748008378 substrate binding site [chemical binding]; other site 1163748008379 oxyanion hole (OAH) forming residues; other site 1163748008380 trimer interface [polypeptide binding]; other site 1163748008381 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163748008382 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163748008383 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748008384 active site 1163748008385 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163748008386 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1163748008387 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1163748008388 conserved cys residue [active] 1163748008389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008390 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163748008391 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 1163748008392 active site 1163748008393 FMN binding site [chemical binding]; other site 1163748008394 2,4-decadienoyl-CoA binding site; other site 1163748008395 catalytic residue [active] 1163748008396 4Fe-4S cluster binding site [ion binding]; other site 1163748008397 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748008398 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1163748008399 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163748008400 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1163748008401 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1163748008402 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1163748008403 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1163748008404 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163748008405 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1163748008406 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1163748008407 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1163748008408 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1163748008409 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163748008410 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1163748008411 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 1163748008412 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1163748008413 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 1163748008414 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163748008415 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 1163748008416 Multisubunit Na+/H+ antiporter, MnhF subunit [Inorganic ion transport and metabolism]; Region: MnhF; COG2212 1163748008417 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1163748008418 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1163748008419 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1163748008420 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1163748008421 dimer interface [polypeptide binding]; other site 1163748008422 acyl-activating enzyme (AAE) consensus motif; other site 1163748008423 putative active site [active] 1163748008424 AMP binding site [chemical binding]; other site 1163748008425 putative CoA binding site [chemical binding]; other site 1163748008426 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1163748008427 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748008428 translation initiation factor Sui1; Validated; Region: PRK06824 1163748008429 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1163748008430 putative rRNA binding site [nucleotide binding]; other site 1163748008431 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1163748008432 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1163748008433 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1163748008434 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1163748008435 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1163748008436 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 1163748008437 dimerization interface [polypeptide binding]; other site 1163748008438 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 1163748008439 dimer interface [polypeptide binding]; other site 1163748008440 phosphorylation site [posttranslational modification] 1163748008441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748008442 ATP binding site [chemical binding]; other site 1163748008443 Mg2+ binding site [ion binding]; other site 1163748008444 G-X-G motif; other site 1163748008445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748008446 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748008447 active site 1163748008448 phosphorylation site [posttranslational modification] 1163748008449 intermolecular recognition site; other site 1163748008450 dimerization interface [polypeptide binding]; other site 1163748008451 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 1163748008452 DNA binding site [nucleotide binding] 1163748008453 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1163748008454 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1163748008455 Dodecin; Region: Dodecin; pfam07311 1163748008456 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 1163748008457 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1163748008458 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1163748008459 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1163748008460 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1163748008461 NAD binding site [chemical binding]; other site 1163748008462 Phe binding site; other site 1163748008463 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163748008464 Na2 binding site [ion binding]; other site 1163748008465 putative substrate binding site 1 [chemical binding]; other site 1163748008466 Na binding site 1 [ion binding]; other site 1163748008467 putative substrate binding site 2 [chemical binding]; other site 1163748008468 NAD-dependent deacetylase; Provisional; Region: PRK05333 1163748008469 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 1163748008470 NAD+ binding site [chemical binding]; other site 1163748008471 substrate binding site [chemical binding]; other site 1163748008472 Zn binding site [ion binding]; other site 1163748008473 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1163748008474 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1163748008475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748008476 Walker A/P-loop; other site 1163748008477 ATP binding site [chemical binding]; other site 1163748008478 Q-loop/lid; other site 1163748008479 ABC transporter signature motif; other site 1163748008480 Walker B; other site 1163748008481 D-loop; other site 1163748008482 H-loop/switch region; other site 1163748008483 ABC transporter; Region: ABC_tran_2; pfam12848 1163748008484 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163748008485 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1163748008486 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163748008487 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1163748008488 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1163748008489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748008490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748008491 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1163748008492 dimerization interface [polypeptide binding]; other site 1163748008493 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1163748008494 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1163748008495 acyl-activating enzyme (AAE) consensus motif; other site 1163748008496 putative AMP binding site [chemical binding]; other site 1163748008497 putative active site [active] 1163748008498 putative CoA binding site [chemical binding]; other site 1163748008499 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1163748008500 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1163748008501 putative DNA binding site [nucleotide binding]; other site 1163748008502 putative Zn2+ binding site [ion binding]; other site 1163748008503 AsnC family; Region: AsnC_trans_reg; pfam01037 1163748008504 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1163748008505 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1163748008506 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1163748008507 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 1163748008508 S-adenosylmethionine binding site [chemical binding]; other site 1163748008509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1163748008510 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163748008511 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748008512 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163748008513 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1163748008514 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1163748008515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1163748008516 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1163748008517 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 1163748008518 putative active site [active] 1163748008519 heme pocket [chemical binding]; other site 1163748008520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748008521 ATP binding site [chemical binding]; other site 1163748008522 Mg2+ binding site [ion binding]; other site 1163748008523 G-X-G motif; other site 1163748008524 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1163748008525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748008526 active site 1163748008527 phosphorylation site [posttranslational modification] 1163748008528 intermolecular recognition site; other site 1163748008529 dimerization interface [polypeptide binding]; other site 1163748008530 Transcriptional regulator; Region: CitT; pfam12431 1163748008531 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748008532 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163748008533 EamA-like transporter family; Region: EamA; cl17759 1163748008534 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1163748008535 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1163748008536 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1163748008537 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1163748008538 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 1163748008539 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163748008540 catalytic residue [active] 1163748008541 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 1163748008542 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1163748008543 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 1163748008544 RNA binding surface [nucleotide binding]; other site 1163748008545 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1163748008546 active site 1163748008547 uracil binding [chemical binding]; other site 1163748008548 potential protein location (hypothetical protein) that overlaps protein (16S rRNA pseudouridylate 516 synthase) 1163748008549 elongation factor P; Provisional; Region: PRK04542 1163748008550 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163748008551 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 1163748008552 RNA binding site [nucleotide binding]; other site 1163748008553 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 1163748008554 RNA binding site [nucleotide binding]; other site 1163748008555 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 1163748008556 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748008557 metal binding site [ion binding]; metal-binding site 1163748008558 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1163748008559 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748008560 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1163748008561 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 1163748008562 substrate binding site [chemical binding]; other site 1163748008563 oxyanion hole (OAH) forming residues; other site 1163748008564 trimer interface [polypeptide binding]; other site 1163748008565 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1163748008566 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 1163748008567 PAS fold; Region: PAS_3; pfam08447 1163748008568 putative active site [active] 1163748008569 heme pocket [chemical binding]; other site 1163748008570 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748008571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748008572 metal binding site [ion binding]; metal-binding site 1163748008573 active site 1163748008574 I-site; other site 1163748008575 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1163748008576 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 1163748008577 substrate binding pocket [chemical binding]; other site 1163748008578 membrane-bound complex binding site; other site 1163748008579 Peptidase M66; Region: Peptidase_M66; pfam10462 1163748008580 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1163748008581 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1163748008582 Q-X-W motif; other site 1163748008583 putative sugar binding sites [chemical binding]; other site 1163748008584 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748008585 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748008586 dimer interface [polypeptide binding]; other site 1163748008587 putative CheW interface [polypeptide binding]; other site 1163748008588 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1163748008589 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1163748008590 NAD binding site [chemical binding]; other site 1163748008591 active site 1163748008592 hypothetical protein; Provisional; Region: PRK09256 1163748008593 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1163748008594 BCCT family transporter; Region: BCCT; pfam02028 1163748008595 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748008596 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 1163748008597 putative C-terminal domain interface [polypeptide binding]; other site 1163748008598 putative GSH binding site (G-site) [chemical binding]; other site 1163748008599 putative dimer interface [polypeptide binding]; other site 1163748008600 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1163748008601 N-terminal domain interface [polypeptide binding]; other site 1163748008602 dimer interface [polypeptide binding]; other site 1163748008603 substrate binding pocket (H-site) [chemical binding]; other site 1163748008604 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1163748008605 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163748008606 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163748008607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748008608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748008609 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1163748008610 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163748008611 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 1163748008612 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163748008613 active site 1163748008614 catalytic tetrad [active] 1163748008615 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748008616 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748008617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748008618 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748008619 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163748008620 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748008621 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1163748008622 catalytic site [active] 1163748008623 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 1163748008624 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1163748008625 CoenzymeA binding site [chemical binding]; other site 1163748008626 subunit interaction site [polypeptide binding]; other site 1163748008627 PHB binding site; other site 1163748008628 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 1163748008629 CoenzymeA binding site [chemical binding]; other site 1163748008630 subunit interaction site [polypeptide binding]; other site 1163748008631 PHB binding site; other site 1163748008632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748008633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748008634 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1163748008635 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748008636 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163748008637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008638 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1163748008639 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 1163748008640 catalytic loop [active] 1163748008641 iron binding site [ion binding]; other site 1163748008642 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1163748008643 Cytochrome P450; Region: p450; cl12078 1163748008644 choline dehydrogenase; Validated; Region: PRK02106 1163748008645 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163748008646 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1163748008647 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748008648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748008649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163748008650 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163748008651 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163748008652 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1163748008653 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1163748008654 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1163748008655 dimer interface [polypeptide binding]; other site 1163748008656 acyl-activating enzyme (AAE) consensus motif; other site 1163748008657 putative active site [active] 1163748008658 AMP binding site [chemical binding]; other site 1163748008659 putative CoA binding site [chemical binding]; other site 1163748008660 choline dehydrogenase; Validated; Region: PRK02106 1163748008661 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163748008662 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 1163748008663 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 1163748008664 NAD(P) binding site [chemical binding]; other site 1163748008665 catalytic residues [active] 1163748008666 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1163748008667 Rubredoxin; Region: Rubredoxin; pfam00301 1163748008668 iron binding site [ion binding]; other site 1163748008669 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1163748008670 Rubredoxin; Region: Rubredoxin; pfam00301 1163748008671 iron binding site [ion binding]; other site 1163748008672 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1163748008673 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163748008674 Di-iron ligands [ion binding]; other site 1163748008675 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1163748008676 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 1163748008677 DNA binding residues [nucleotide binding] 1163748008678 dimerization interface [polypeptide binding]; other site 1163748008679 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1163748008680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748008681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748008682 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 1163748008683 EamA-like transporter family; Region: EamA; pfam00892 1163748008684 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163748008685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008687 Transglycosylase; Region: Transgly; cl17702 1163748008688 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1163748008689 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1163748008690 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 1163748008691 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 1163748008692 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1163748008693 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 1163748008694 putative substrate translocation pore; other site 1163748008695 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1163748008696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748008697 NAD(P) binding site [chemical binding]; other site 1163748008698 active site 1163748008699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748008700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748008701 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1163748008702 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748008703 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748008704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748008705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748008706 metal binding site [ion binding]; metal-binding site 1163748008707 active site 1163748008708 I-site; other site 1163748008709 PAS domain; Region: PAS_9; pfam13426 1163748008710 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 1163748008711 PAS domain; Region: PAS_9; pfam13426 1163748008712 putative active site [active] 1163748008713 heme pocket [chemical binding]; other site 1163748008714 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748008715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748008716 dimer interface [polypeptide binding]; other site 1163748008717 putative CheW interface [polypeptide binding]; other site 1163748008718 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1163748008719 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1163748008720 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1163748008721 potential protein location (hypothetical protein) that overlaps protein (Ethanolamine ammonia-lyase light chain (Ethanolamine ammonia-lyase small subunit)) 1163748008722 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1163748008723 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1163748008724 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1163748008725 NAD(P) binding site [chemical binding]; other site 1163748008726 putative active site [active] 1163748008727 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1163748008728 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1163748008729 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1163748008730 conserved cys residue [active] 1163748008731 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748008732 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 1163748008733 putative C-terminal domain interface [polypeptide binding]; other site 1163748008734 putative GSH binding site (G-site) [chemical binding]; other site 1163748008735 putative dimer interface [polypeptide binding]; other site 1163748008736 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1163748008737 putative N-terminal domain interface [polypeptide binding]; other site 1163748008738 putative dimer interface [polypeptide binding]; other site 1163748008739 putative substrate binding pocket (H-site) [chemical binding]; other site 1163748008740 Yqey-like protein; Region: YqeY; pfam09424 1163748008741 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1163748008742 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1163748008743 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 1163748008744 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748008745 DNA-binding site [nucleotide binding]; DNA binding site 1163748008746 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 1163748008747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748008748 homodimer interface [polypeptide binding]; other site 1163748008749 catalytic residue [active] 1163748008750 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1163748008751 MgtC family; Region: MgtC; pfam02308 1163748008752 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163748008753 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163748008754 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 1163748008755 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 1163748008756 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1163748008757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748008758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748008760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748008761 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1163748008762 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 1163748008763 DNA binding site [nucleotide binding] 1163748008764 active site 1163748008765 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1163748008766 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 1163748008767 ATP binding site [chemical binding]; other site 1163748008768 putative Mg++ binding site [ion binding]; other site 1163748008769 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 1163748008770 nucleotide binding region [chemical binding]; other site 1163748008771 ATP-binding site [chemical binding]; other site 1163748008772 Double zinc ribbon; Region: DZR; pfam12773 1163748008773 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1163748008774 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1163748008775 YebG protein; Region: YebG; pfam07130 1163748008776 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163748008777 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1163748008778 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1163748008779 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1163748008780 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 1163748008781 salt bridge; other site 1163748008782 non-specific DNA binding site [nucleotide binding]; other site 1163748008783 sequence-specific DNA binding site [nucleotide binding]; other site 1163748008784 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 1163748008785 catalytic residues [active] 1163748008786 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 1163748008787 SEC-C motif; Region: SEC-C; pfam02810 1163748008788 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 1163748008789 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1163748008790 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1163748008791 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 1163748008792 Predicted ATPase [General function prediction only]; Region: COG4637 1163748008793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748008794 Walker A/P-loop; other site 1163748008795 ATP binding site [chemical binding]; other site 1163748008796 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1163748008797 thioredoxin 2; Provisional; Region: PRK10996 1163748008798 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 1163748008799 catalytic residues [active] 1163748008800 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1163748008801 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1163748008802 active site 1163748008803 Zn binding site [ion binding]; other site 1163748008804 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1163748008805 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 1163748008806 hypothetical protein; Provisional; Region: PRK11171 1163748008807 Cupin domain; Region: Cupin_2; pfam07883 1163748008808 Cupin domain; Region: Cupin_2; pfam07883 1163748008809 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1163748008810 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1163748008811 active site 1163748008812 catalytic site [active] 1163748008813 tetramer interface [polypeptide binding]; other site 1163748008814 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1163748008815 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 1163748008816 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1163748008817 Na binding site [ion binding]; other site 1163748008818 substrate binding site [chemical binding]; other site 1163748008819 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1163748008820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748008821 DNA-binding site [nucleotide binding]; DNA binding site 1163748008822 FCD domain; Region: FCD; pfam07729 1163748008823 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163748008824 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163748008825 putative NAD(P) binding site [chemical binding]; other site 1163748008826 putative substrate binding site [chemical binding]; other site 1163748008827 catalytic Zn binding site [ion binding]; other site 1163748008828 structural Zn binding site [ion binding]; other site 1163748008829 dimer interface [polypeptide binding]; other site 1163748008830 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1163748008831 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1163748008832 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1163748008833 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1163748008834 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 1163748008835 DNA-sulfur modification-associated; Region: DndB; cl17621 1163748008836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748008837 Q-loop/lid; other site 1163748008838 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1163748008839 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 1163748008840 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1163748008841 UreF; Region: UreF; pfam01730 1163748008842 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1163748008843 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1163748008844 dimer interface [polypeptide binding]; other site 1163748008845 catalytic residues [active] 1163748008846 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1163748008847 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1163748008848 subunit interactions [polypeptide binding]; other site 1163748008849 active site 1163748008850 flap region; other site 1163748008851 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1163748008852 gamma-beta subunit interface [polypeptide binding]; other site 1163748008853 alpha-beta subunit interface [polypeptide binding]; other site 1163748008854 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1163748008855 alpha-gamma subunit interface [polypeptide binding]; other site 1163748008856 beta-gamma subunit interface [polypeptide binding]; other site 1163748008857 UreD urease accessory protein; Region: UreD; pfam01774 1163748008858 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1163748008859 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1163748008860 Walker A/P-loop; other site 1163748008861 ATP binding site [chemical binding]; other site 1163748008862 Q-loop/lid; other site 1163748008863 ABC transporter signature motif; other site 1163748008864 Walker B; other site 1163748008865 D-loop; other site 1163748008866 H-loop/switch region; other site 1163748008867 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1163748008868 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1163748008869 Walker A/P-loop; other site 1163748008870 ATP binding site [chemical binding]; other site 1163748008871 Q-loop/lid; other site 1163748008872 ABC transporter signature motif; other site 1163748008873 Walker B; other site 1163748008874 D-loop; other site 1163748008875 H-loop/switch region; other site 1163748008876 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1163748008877 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 1163748008878 TM-ABC transporter signature motif; other site 1163748008879 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1163748008880 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 1163748008881 TM-ABC transporter signature motif; other site 1163748008882 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1163748008883 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1163748008884 putative ligand binding site [chemical binding]; other site 1163748008885 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1163748008886 Helix-hairpin-helix motif; Region: HHH; pfam00633 1163748008887 EamA-like transporter family; Region: EamA; pfam00892 1163748008888 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1163748008889 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163748008890 dimer interface [polypeptide binding]; other site 1163748008891 active site 1163748008892 metal binding site [ion binding]; metal-binding site 1163748008893 glutathione binding site [chemical binding]; other site 1163748008894 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1163748008895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748008896 DNA-binding site [nucleotide binding]; DNA binding site 1163748008897 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1163748008898 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1163748008899 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163748008900 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748008901 active site 1163748008902 metal binding site [ion binding]; metal-binding site 1163748008903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748008904 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1163748008905 putative ADP-binding pocket [chemical binding]; other site 1163748008906 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1163748008907 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1163748008908 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1163748008909 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1163748008910 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1163748008911 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1163748008912 active site residue [active] 1163748008913 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 1163748008914 Thioredoxin; Region: Thioredoxin_4; pfam13462 1163748008915 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1163748008916 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1163748008917 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1163748008918 FMN binding site [chemical binding]; other site 1163748008919 substrate binding site [chemical binding]; other site 1163748008920 putative catalytic residue [active] 1163748008921 Protein of unknown function, DUF479; Region: DUF479; pfam04336 1163748008922 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1665 1163748008923 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 1163748008924 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748008925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748008926 dimer interface [polypeptide binding]; other site 1163748008927 putative CheW interface [polypeptide binding]; other site 1163748008928 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1163748008929 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1163748008930 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1163748008931 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 1163748008932 HSP70 interaction site [polypeptide binding]; other site 1163748008933 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163748008934 substrate binding site [polypeptide binding]; other site 1163748008935 dimer interface [polypeptide binding]; other site 1163748008936 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1163748008937 active site 1163748008938 catalytic triad [active] 1163748008939 oxyanion hole [active] 1163748008940 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1163748008941 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163748008942 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 1163748008943 putative substrate translocation pore; other site 1163748008944 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1163748008945 hypothetical protein; Provisional; Region: PRK09040 1163748008946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748008947 ligand binding site [chemical binding]; other site 1163748008948 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1163748008949 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163748008950 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1163748008951 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163748008952 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1163748008953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1163748008954 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1163748008955 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1163748008956 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163748008957 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163748008958 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1163748008959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1163748008960 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1163748008961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1163748008962 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1163748008963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1163748008964 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1163748008965 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1163748008966 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1163748008967 intersubunit interface [polypeptide binding]; other site 1163748008968 active site 1163748008969 zinc binding site [ion binding]; other site 1163748008970 Na+ binding site [ion binding]; other site 1163748008971 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1163748008972 Phosphoglycerate kinase; Region: PGK; pfam00162 1163748008973 substrate binding site [chemical binding]; other site 1163748008974 hinge regions; other site 1163748008975 ADP binding site [chemical binding]; other site 1163748008976 catalytic site [active] 1163748008977 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1163748008978 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1163748008979 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163748008980 transketolase; Reviewed; Region: PRK12753 1163748008981 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 1163748008982 TPP-binding site [chemical binding]; other site 1163748008983 dimer interface [polypeptide binding]; other site 1163748008984 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 1163748008985 PYR/PP interface [polypeptide binding]; other site 1163748008986 dimer interface [polypeptide binding]; other site 1163748008987 TPP binding site [chemical binding]; other site 1163748008988 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163748008989 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 1163748008990 dimerization interface [polypeptide binding]; other site 1163748008991 putative DNA binding site [nucleotide binding]; other site 1163748008992 putative Zn2+ binding site [ion binding]; other site 1163748008993 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163748008994 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 1163748008995 S-adenosylmethionine binding site [chemical binding]; other site 1163748008996 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1163748008997 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1163748008998 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1163748008999 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1163748009000 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1163748009001 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1163748009002 homotetramer interface [polypeptide binding]; other site 1163748009003 ligand binding site [chemical binding]; other site 1163748009004 catalytic site [active] 1163748009005 NAD binding site [chemical binding]; other site 1163748009006 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 1163748009007 FAD binding site [chemical binding]; other site 1163748009008 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748009009 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 1163748009010 substrate binding pocket [chemical binding]; other site 1163748009011 membrane-bound complex binding site; other site 1163748009012 hinge residues; other site 1163748009013 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1163748009014 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 1163748009015 dimer interface [polypeptide binding]; other site 1163748009016 conserved gate region; other site 1163748009017 putative PBP binding loops; other site 1163748009018 ABC-ATPase subunit interface; other site 1163748009019 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1163748009020 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1163748009021 Walker A/P-loop; other site 1163748009022 ATP binding site [chemical binding]; other site 1163748009023 Q-loop/lid; other site 1163748009024 ABC transporter signature motif; other site 1163748009025 Walker B; other site 1163748009026 D-loop; other site 1163748009027 H-loop/switch region; other site 1163748009028 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1163748009029 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1163748009030 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 1163748009031 inhibitor-cofactor binding pocket; inhibition site 1163748009032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748009033 catalytic residue [active] 1163748009034 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1163748009035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1163748009036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1163748009037 HDOD domain; Region: HDOD; pfam08668 1163748009038 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1163748009039 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1163748009040 glycerate dehydrogenase; Provisional; Region: PRK06487 1163748009041 putative ligand binding site [chemical binding]; other site 1163748009042 putative NAD binding site [chemical binding]; other site 1163748009043 catalytic site [active] 1163748009044 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1163748009045 PrkA family serine protein kinase; Provisional; Region: PRK15455 1163748009046 AAA ATPase domain; Region: AAA_16; pfam13191 1163748009047 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1163748009048 hypothetical protein; Provisional; Region: PRK05325 1163748009049 SpoVR family protein; Provisional; Region: PRK11767 1163748009050 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1163748009051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748009052 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 1163748009053 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748009054 ATP binding site [chemical binding]; other site 1163748009055 Mg2+ binding site [ion binding]; other site 1163748009056 G-X-G motif; other site 1163748009057 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748009058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009059 active site 1163748009060 phosphorylation site [posttranslational modification] 1163748009061 intermolecular recognition site; other site 1163748009062 dimerization interface [polypeptide binding]; other site 1163748009063 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 1163748009064 DNA binding site [nucleotide binding] 1163748009065 Predicted membrane protein [Function unknown]; Region: COG3212 1163748009066 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1163748009067 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 1163748009068 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 1163748009069 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1163748009070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748009071 catalytic residue [active] 1163748009072 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1163748009073 LrgA family; Region: LrgA; pfam03788 1163748009074 bile acid transporter; Region: bass; TIGR00841 1163748009075 Sodium Bile acid symporter family; Region: SBF; cl17470 1163748009076 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1163748009077 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1163748009078 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 1163748009079 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1163748009080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748009081 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 1163748009082 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1163748009083 FAD binding pocket [chemical binding]; other site 1163748009084 FAD binding motif [chemical binding]; other site 1163748009085 phosphate binding motif [ion binding]; other site 1163748009086 beta-alpha-beta structure motif; other site 1163748009087 NAD binding pocket [chemical binding]; other site 1163748009088 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 1163748009089 catalytic loop [active] 1163748009090 iron binding site [ion binding]; other site 1163748009091 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1163748009092 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 1163748009093 putative di-iron ligands [ion binding]; other site 1163748009094 Predicted transcriptional regulator [Transcription]; Region: COG1959 1163748009095 Transcriptional regulator; Region: Rrf2; cl17282 1163748009096 Protein of unknown function (DUF454); Region: DUF454; pfam04304 1163748009097 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1163748009098 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1163748009099 Hemerythrin-like domain; Region: Hr-like; cd12108 1163748009100 Fe binding site [ion binding]; other site 1163748009101 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1163748009102 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1163748009103 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 1163748009104 FeS/SAM binding site; other site 1163748009105 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1163748009106 NosL; Region: NosL; pfam05573 1163748009107 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1163748009108 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163748009109 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163748009110 Walker A/P-loop; other site 1163748009111 ATP binding site [chemical binding]; other site 1163748009112 Q-loop/lid; other site 1163748009113 ABC transporter signature motif; other site 1163748009114 Walker B; other site 1163748009115 D-loop; other site 1163748009116 H-loop/switch region; other site 1163748009117 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1163748009118 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1163748009119 nitrous-oxide reductase; Validated; Region: PRK02888 1163748009120 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1163748009121 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1163748009122 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1163748009123 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163748009124 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163748009125 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 1163748009126 ligand binding site [chemical binding]; other site 1163748009127 flexible hinge region; other site 1163748009128 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1163748009129 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163748009130 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1163748009131 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1163748009132 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1163748009133 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1163748009134 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1163748009135 [4Fe-4S] binding site [ion binding]; other site 1163748009136 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1163748009137 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1163748009138 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1163748009139 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1163748009140 molybdopterin cofactor binding site; other site 1163748009141 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; cl17904 1163748009142 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1163748009143 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1163748009144 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 1163748009145 dimerization interface [polypeptide binding]; other site 1163748009146 GAF domain; Region: GAF_3; pfam13492 1163748009147 Histidine kinase; Region: HisKA_3; pfam07730 1163748009148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748009149 ATP binding site [chemical binding]; other site 1163748009150 Mg2+ binding site [ion binding]; other site 1163748009151 G-X-G motif; other site 1163748009152 transcriptional regulator NarL; Provisional; Region: PRK10651 1163748009153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009154 active site 1163748009155 phosphorylation site [posttranslational modification] 1163748009156 intermolecular recognition site; other site 1163748009157 dimerization interface [polypeptide binding]; other site 1163748009158 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 1163748009159 DNA binding residues [nucleotide binding] 1163748009160 dimerization interface [polypeptide binding]; other site 1163748009161 SCP-2 sterol transfer family; Region: SCP2; cl01225 1163748009162 Hemerythrin; Region: Hemerythrin; cd12107 1163748009163 Fe binding site [ion binding]; other site 1163748009164 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748009165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748009166 metal binding site [ion binding]; metal-binding site 1163748009167 active site 1163748009168 I-site; other site 1163748009169 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 1163748009170 Protein of unknown function, DUF488; Region: DUF488; cl01246 1163748009171 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1163748009172 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1163748009173 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1163748009174 FAD binding pocket [chemical binding]; other site 1163748009175 FAD binding motif [chemical binding]; other site 1163748009176 phosphate binding motif [ion binding]; other site 1163748009177 beta-alpha-beta structure motif; other site 1163748009178 NAD binding pocket [chemical binding]; other site 1163748009179 putative protease; Provisional; Region: PRK15447 1163748009180 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1163748009181 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1163748009182 Peptidase family U32; Region: Peptidase_U32; pfam01136 1163748009183 Nitrate and nitrite sensing; Region: NIT; pfam08376 1163748009184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748009185 dimer interface [polypeptide binding]; other site 1163748009186 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1163748009187 putative CheW interface [polypeptide binding]; other site 1163748009188 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1163748009189 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 1163748009190 FeS/SAM binding site; other site 1163748009191 HemN C-terminal domain; Region: HemN_C; pfam06969 1163748009192 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1163748009193 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1163748009194 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163748009195 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 1163748009196 motif II; other site 1163748009197 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163748009198 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 1163748009199 motif II; other site 1163748009200 DNA photolyase; Region: DNA_photolyase; pfam00875 1163748009201 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1163748009202 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 1163748009203 Ligand Binding Site [chemical binding]; other site 1163748009204 BCCT family transporter; Region: BCCT; pfam02028 1163748009205 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1163748009206 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1163748009207 DNA binding residues [nucleotide binding] 1163748009208 dimer interface [polypeptide binding]; other site 1163748009209 putative metal binding site [ion binding]; other site 1163748009210 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1163748009211 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 1163748009212 active site 1163748009213 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 1163748009214 Interdomain contacts; other site 1163748009215 Cytokine receptor motif; other site 1163748009216 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 1163748009217 Interdomain contacts; other site 1163748009218 Cytokine receptor motif; other site 1163748009219 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1163748009220 Membrane transport protein; Region: Mem_trans; cl09117 1163748009221 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748009222 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1163748009223 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1163748009224 D-pathway; other site 1163748009225 Low-spin heme binding site [chemical binding]; other site 1163748009226 K-pathway; other site 1163748009227 Binuclear center (active site) [active] 1163748009228 Putative proton exit pathway; other site 1163748009229 Putative water exit pathway; other site 1163748009230 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163748009231 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1163748009232 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1163748009233 metal ion-dependent adhesion site (MIDAS); other site 1163748009234 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1163748009235 Subunit I/III interface [polypeptide binding]; other site 1163748009236 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 1163748009237 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163748009238 Walker A motif; other site 1163748009239 ATP binding site [chemical binding]; other site 1163748009240 Walker B motif; other site 1163748009241 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1163748009242 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1163748009243 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1163748009244 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163748009245 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748009246 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163748009247 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1163748009248 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748009249 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1163748009250 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748009251 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748009252 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; cl17220 1163748009253 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163748009254 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1163748009255 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 1163748009256 FeS/SAM binding site; other site 1163748009257 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1163748009258 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1163748009259 active site 1163748009260 SAM binding site [chemical binding]; other site 1163748009261 homodimer interface [polypeptide binding]; other site 1163748009262 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748009263 Cytochrome c; Region: Cytochrom_C; pfam00034 1163748009264 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1163748009265 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 1163748009266 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 1163748009267 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163748009268 ligand binding site [chemical binding]; other site 1163748009269 flexible hinge region; other site 1163748009270 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1163748009271 Haemolysin-III related; Region: HlyIII; cl03831 1163748009272 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1163748009273 NnrS protein; Region: NnrS; pfam05940 1163748009274 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1163748009275 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 1163748009276 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1163748009277 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163748009278 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 1163748009279 putative substrate translocation pore; other site 1163748009280 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 1163748009281 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 1163748009282 Ligand Binding Site [chemical binding]; other site 1163748009283 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1163748009284 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 1163748009285 putative substrate translocation pore; other site 1163748009286 EVE domain; Region: EVE; cl00728 1163748009287 Ion transport protein; Region: Ion_trans; pfam00520 1163748009288 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1163748009289 NnrS protein; Region: NnrS; pfam05940 1163748009290 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1163748009291 hydrophobic ligand binding site; other site 1163748009292 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 1163748009293 active site 2 [active] 1163748009294 active site 1 [active] 1163748009295 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1163748009296 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 1163748009297 dimer interface [polypeptide binding]; other site 1163748009298 active site 1163748009299 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748009300 SurA N-terminal domain; Region: SurA_N; pfam09312 1163748009301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748009302 putative protease; Provisional; Region: PRK15452 1163748009303 Peptidase family U32; Region: Peptidase_U32; pfam01136 1163748009304 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1163748009305 putative ABC transporter; Region: ycf24; CHL00085 1163748009306 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1163748009307 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1163748009308 Walker A/P-loop; other site 1163748009309 ATP binding site [chemical binding]; other site 1163748009310 Q-loop/lid; other site 1163748009311 ABC transporter signature motif; other site 1163748009312 Walker B; other site 1163748009313 D-loop; other site 1163748009314 H-loop/switch region; other site 1163748009315 FeS assembly protein SufD; Region: sufD; TIGR01981 1163748009316 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1163748009317 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1163748009318 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 1163748009319 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748009320 catalytic residue [active] 1163748009321 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1163748009322 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1163748009323 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1163748009324 LPP20 lipoprotein; Region: LPP20; pfam02169 1163748009325 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1163748009326 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1163748009327 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163748009328 active site 1163748009329 NTP binding site [chemical binding]; other site 1163748009330 metal binding triad [ion binding]; metal-binding site 1163748009331 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163748009332 pteridine reductase; Provisional; Region: PRK09135 1163748009333 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1163748009334 NADP binding site [chemical binding]; other site 1163748009335 substrate binding pocket [chemical binding]; other site 1163748009336 active site 1163748009337 putative acyltransferase; Provisional; Region: PRK05790 1163748009338 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 1163748009339 dimer interface [polypeptide binding]; other site 1163748009340 active site 1163748009341 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1163748009342 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 1163748009343 SecA binding site; other site 1163748009344 Preprotein binding site; other site 1163748009345 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 1163748009346 active site residue [active] 1163748009347 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1163748009348 phosphoglyceromutase; Provisional; Region: PRK05434 1163748009349 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1163748009350 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1163748009351 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163748009352 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163748009353 C-terminal peptidase (prc); Region: prc; TIGR00225 1163748009354 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 1163748009355 protein binding site [polypeptide binding]; other site 1163748009356 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163748009357 Catalytic dyad [active] 1163748009358 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1163748009359 NodB motif; other site 1163748009360 putative active site [active] 1163748009361 putative catalytic site [active] 1163748009362 Zn binding site [ion binding]; other site 1163748009363 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 1163748009364 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1163748009365 substrate binding site [chemical binding]; other site 1163748009366 glutamase interaction surface [polypeptide binding]; other site 1163748009367 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 1163748009368 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1163748009369 catalytic residues [active] 1163748009370 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1163748009371 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1163748009372 putative active site [active] 1163748009373 oxyanion strand; other site 1163748009374 catalytic triad [active] 1163748009375 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1163748009376 putative active site pocket [active] 1163748009377 4-fold oligomerization interface [polypeptide binding]; other site 1163748009378 metal binding residues [ion binding]; metal-binding site 1163748009379 3-fold/trimer interface [polypeptide binding]; other site 1163748009380 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 1163748009381 putative hydrophobic ligand binding site [chemical binding]; other site 1163748009382 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1163748009383 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1163748009384 adenine DNA glycosylase; Provisional; Region: PRK10880 1163748009385 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163748009386 minor groove reading motif; other site 1163748009387 helix-hairpin-helix signature motif; other site 1163748009388 substrate binding pocket [chemical binding]; other site 1163748009389 active site 1163748009390 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1163748009391 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 1163748009392 DNA binding and oxoG recognition site [nucleotide binding] 1163748009393 oxidative damage protection protein; Provisional; Region: PRK05408 1163748009394 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163748009395 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163748009396 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163748009397 putative active site [active] 1163748009398 catalytic site [active] 1163748009399 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1163748009400 PLD-like domain; Region: PLDc_2; pfam13091 1163748009401 putative active site [active] 1163748009402 catalytic site [active] 1163748009403 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163748009404 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 1163748009405 dimerization interface [polypeptide binding]; other site 1163748009406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748009407 dimer interface [polypeptide binding]; other site 1163748009408 putative CheW interface [polypeptide binding]; other site 1163748009409 Predicted flavoprotein [General function prediction only]; Region: COG0431 1163748009410 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163748009411 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1163748009412 putative hydrolase; Provisional; Region: PRK11460 1163748009413 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163748009414 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 1163748009415 P-loop; other site 1163748009416 Magnesium ion binding site [ion binding]; other site 1163748009417 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 1163748009418 Magnesium ion binding site [ion binding]; other site 1163748009419 LysE type translocator; Region: LysE; cl00565 1163748009420 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1163748009421 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163748009422 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163748009423 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1163748009424 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1163748009425 intersubunit interface [polypeptide binding]; other site 1163748009426 putative outer membrane receptor; Provisional; Region: PRK13513 1163748009427 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 1163748009428 N-terminal plug; other site 1163748009429 ligand-binding site [chemical binding]; other site 1163748009430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748009431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748009432 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 1163748009433 dimerization interface [polypeptide binding]; other site 1163748009434 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1163748009435 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1163748009436 siderophore binding site; other site 1163748009437 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1163748009438 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163748009439 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 1163748009440 ABC-ATPase subunit interface; other site 1163748009441 dimer interface [polypeptide binding]; other site 1163748009442 putative PBP binding regions; other site 1163748009443 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1163748009444 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 1163748009445 ABC-ATPase subunit interface; other site 1163748009446 dimer interface [polypeptide binding]; other site 1163748009447 putative PBP binding regions; other site 1163748009448 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1163748009449 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163748009450 Walker A/P-loop; other site 1163748009451 ATP binding site [chemical binding]; other site 1163748009452 Q-loop/lid; other site 1163748009453 ABC transporter signature motif; other site 1163748009454 Walker B; other site 1163748009455 D-loop; other site 1163748009456 H-loop/switch region; other site 1163748009457 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 1163748009458 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1163748009459 putative substrate translocation pore; other site 1163748009460 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163748009461 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1163748009462 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 1163748009463 Cysteine-rich domain; Region: CCG; pfam02754 1163748009464 Cysteine-rich domain; Region: CCG; pfam02754 1163748009465 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748009466 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1163748009467 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1163748009468 FAD binding domain; Region: FAD_binding_4; pfam01565 1163748009469 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1163748009470 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1163748009471 DctM-like transporters; Region: DctM; pfam06808 1163748009472 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1163748009473 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1163748009474 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1163748009475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163748009476 DNA-binding site [nucleotide binding]; DNA binding site 1163748009477 FCD domain; Region: FCD; pfam07729 1163748009478 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1163748009479 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1163748009480 Walker A/P-loop; other site 1163748009481 ATP binding site [chemical binding]; other site 1163748009482 Q-loop/lid; other site 1163748009483 ABC transporter signature motif; other site 1163748009484 Walker B; other site 1163748009485 D-loop; other site 1163748009486 H-loop/switch region; other site 1163748009487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748009488 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 1163748009489 substrate binding pocket [chemical binding]; other site 1163748009490 membrane-bound complex binding site; other site 1163748009491 hinge residues; other site 1163748009492 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1163748009493 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 1163748009494 dimer interface [polypeptide binding]; other site 1163748009495 conserved gate region; other site 1163748009496 putative PBP binding loops; other site 1163748009497 ABC-ATPase subunit interface; other site 1163748009498 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1163748009499 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 1163748009500 dimer interface [polypeptide binding]; other site 1163748009501 conserved gate region; other site 1163748009502 putative PBP binding loops; other site 1163748009503 ABC-ATPase subunit interface; other site 1163748009504 succinylglutamate desuccinylase; Provisional; Region: PRK05324 1163748009505 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1163748009506 active site 1163748009507 Zn binding site [ion binding]; other site 1163748009508 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748009509 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748009510 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748009511 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748009512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748009513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748009514 WHG domain; Region: WHG; pfam13305 1163748009515 succinylarginine dihydrolase; Provisional; Region: PRK13281 1163748009516 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1163748009517 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1163748009518 NAD(P) binding site [chemical binding]; other site 1163748009519 catalytic residues [active] 1163748009520 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1163748009521 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1163748009522 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1163748009523 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1163748009524 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1163748009525 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 1163748009526 inhibitor-cofactor binding pocket; inhibition site 1163748009527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748009528 catalytic residue [active] 1163748009529 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1163748009530 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1163748009531 active site 1163748009532 catalytic site [active] 1163748009533 substrate binding site [chemical binding]; other site 1163748009534 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 1163748009535 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1163748009536 GIY-YIG motif/motif A; other site 1163748009537 active site 1163748009538 catalytic site [active] 1163748009539 putative DNA binding site [nucleotide binding]; other site 1163748009540 metal binding site [ion binding]; metal-binding site 1163748009541 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163748009542 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 1163748009543 putative active site [active] 1163748009544 putative FMN binding site [chemical binding]; other site 1163748009545 putative substrate binding site [chemical binding]; other site 1163748009546 putative catalytic residue [active] 1163748009547 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 1163748009548 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1163748009549 E3 interaction surface; other site 1163748009550 lipoyl attachment site [posttranslational modification]; other site 1163748009551 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 1163748009552 E3 interaction surface; other site 1163748009553 lipoyl attachment site [posttranslational modification]; other site 1163748009554 e3 binding domain; Region: E3_binding; pfam02817 1163748009555 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163748009556 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1163748009557 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 1163748009558 dimer interface [polypeptide binding]; other site 1163748009559 TPP-binding site [chemical binding]; other site 1163748009560 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1163748009561 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; cl15377 1163748009562 Bacteriophage T holin; Region: Phage_holin_T; pfam11031 1163748009563 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1163748009564 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 1163748009565 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 1163748009566 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1163748009567 KRI1-like family; Region: Kri1; pfam05178 1163748009568 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 1163748009569 Walker A motif; other site 1163748009570 ATP binding site [chemical binding]; other site 1163748009571 Walker B motif; other site 1163748009572 arginine finger; other site 1163748009573 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163748009574 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163748009575 MarR family; Region: MarR; pfam01047 1163748009576 MarR family; Region: MarR_2; cl17246 1163748009577 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1163748009578 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 1163748009579 TPR motif; other site 1163748009580 TPR repeat; Region: TPR_11; pfam13414 1163748009581 binding surface 1163748009582 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1163748009583 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1163748009584 dimerization interface [polypeptide binding]; other site 1163748009585 ligand binding site [chemical binding]; other site 1163748009586 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1163748009587 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 1163748009588 TM-ABC transporter signature motif; other site 1163748009589 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1163748009590 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1163748009591 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 1163748009592 TM-ABC transporter signature motif; other site 1163748009593 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1163748009594 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1163748009595 Walker A/P-loop; other site 1163748009596 ATP binding site [chemical binding]; other site 1163748009597 Q-loop/lid; other site 1163748009598 ABC transporter signature motif; other site 1163748009599 Walker B; other site 1163748009600 D-loop; other site 1163748009601 H-loop/switch region; other site 1163748009602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1163748009603 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1163748009604 Walker A/P-loop; other site 1163748009605 ATP binding site [chemical binding]; other site 1163748009606 Q-loop/lid; other site 1163748009607 ABC transporter signature motif; other site 1163748009608 Walker B; other site 1163748009609 D-loop; other site 1163748009610 H-loop/switch region; other site 1163748009611 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1163748009612 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1163748009613 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163748009614 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163748009615 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1163748009616 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1163748009617 RNase E interface [polypeptide binding]; other site 1163748009618 trimer interface [polypeptide binding]; other site 1163748009619 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1163748009620 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1163748009621 RNase E interface [polypeptide binding]; other site 1163748009622 trimer interface [polypeptide binding]; other site 1163748009623 active site 1163748009624 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 1163748009625 putative nucleic acid binding region [nucleotide binding]; other site 1163748009626 G-X-X-G motif; other site 1163748009627 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 1163748009628 RNA binding site [nucleotide binding]; other site 1163748009629 domain interface; other site 1163748009630 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 1163748009631 16S/18S rRNA binding site [nucleotide binding]; other site 1163748009632 S13e-L30e interaction site [polypeptide binding]; other site 1163748009633 25S rRNA binding site [nucleotide binding]; other site 1163748009634 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1163748009635 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1163748009636 RNA binding site [nucleotide binding]; other site 1163748009637 active site 1163748009638 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1163748009639 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1163748009640 translation initiation factor IF-2; Region: IF-2; TIGR00487 1163748009641 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1163748009642 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1163748009643 G1 box; other site 1163748009644 putative GEF interaction site [polypeptide binding]; other site 1163748009645 GTP/Mg2+ binding site [chemical binding]; other site 1163748009646 Switch I region; other site 1163748009647 G2 box; other site 1163748009648 G3 box; other site 1163748009649 Switch II region; other site 1163748009650 G4 box; other site 1163748009651 G5 box; other site 1163748009652 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 1163748009653 Translation-initiation factor 2; Region: IF-2; pfam11987 1163748009654 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 1163748009655 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1163748009656 NusA N-terminal domain; Region: NusA_N; pfam08529 1163748009657 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 1163748009658 RNA binding site [nucleotide binding]; other site 1163748009659 homodimer interface [polypeptide binding]; other site 1163748009660 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 1163748009661 G-X-X-G motif; other site 1163748009662 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 1163748009663 G-X-X-G motif; other site 1163748009664 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1163748009665 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1163748009666 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1163748009667 Sm and related proteins; Region: Sm_like; cl00259 1163748009668 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1163748009669 putative oligomer interface [polypeptide binding]; other site 1163748009670 putative RNA binding site [nucleotide binding]; other site 1163748009671 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1163748009672 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 1163748009673 triosephosphate isomerase; Provisional; Region: PRK14567 1163748009674 dimer interface [polypeptide binding]; other site 1163748009675 substrate binding site [chemical binding]; other site 1163748009676 catalytic triad [active] 1163748009677 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1163748009678 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 1163748009679 active site 1163748009680 substrate binding site [chemical binding]; other site 1163748009681 metal binding site [ion binding]; metal-binding site 1163748009682 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 1163748009683 dihydropteroate synthase; Region: DHPS; TIGR01496 1163748009684 substrate binding pocket [chemical binding]; other site 1163748009685 dimer interface [polypeptide binding]; other site 1163748009686 inhibitor binding site; inhibition site 1163748009687 FtsH Extracellular; Region: FtsH_ext; pfam06480 1163748009688 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1163748009689 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 1163748009690 Walker A motif; other site 1163748009691 ATP binding site [chemical binding]; other site 1163748009692 Walker B motif; other site 1163748009693 arginine finger; other site 1163748009694 Peptidase family M41; Region: Peptidase_M41; pfam01434 1163748009695 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1163748009696 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1163748009697 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163748009698 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163748009699 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1163748009700 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748009701 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163748009702 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1163748009703 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748009704 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163748009705 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 1163748009706 IMP binding site; other site 1163748009707 dimer interface [polypeptide binding]; other site 1163748009708 interdomain contacts; other site 1163748009709 partial ornithine binding site; other site 1163748009710 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1163748009711 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1163748009712 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1163748009713 catalytic site [active] 1163748009714 subunit interface [polypeptide binding]; other site 1163748009715 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1163748009716 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1163748009717 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1163748009718 chaperone protein DnaJ; Provisional; Region: PRK10767 1163748009719 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 1163748009720 HSP70 interaction site [polypeptide binding]; other site 1163748009721 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1163748009722 substrate binding site [polypeptide binding]; other site 1163748009723 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1163748009724 Zn binding sites [ion binding]; other site 1163748009725 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163748009726 dimer interface [polypeptide binding]; other site 1163748009727 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1163748009728 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163748009729 nucleotide binding site [chemical binding]; other site 1163748009730 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1163748009731 GrpE; Region: GrpE; pfam01025 1163748009732 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 1163748009733 dimer interface [polypeptide binding]; other site 1163748009734 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1163748009735 recombination and repair protein; Provisional; Region: PRK10869 1163748009736 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163748009737 Walker A/P-loop; other site 1163748009738 ATP binding site [chemical binding]; other site 1163748009739 Q-loop/lid; other site 1163748009740 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163748009741 ABC transporter signature motif; other site 1163748009742 Walker B; other site 1163748009743 D-loop; other site 1163748009744 H-loop/switch region; other site 1163748009745 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163748009746 metal binding site 2 [ion binding]; metal-binding site 1163748009747 putative DNA binding helix; other site 1163748009748 metal binding site 1 [ion binding]; metal-binding site 1163748009749 dimer interface [polypeptide binding]; other site 1163748009750 structural Zn2+ binding site [ion binding]; other site 1163748009751 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1163748009752 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1163748009753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1163748009754 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1163748009755 putative coenzyme Q binding site [chemical binding]; other site 1163748009756 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163748009757 Na2 binding site [ion binding]; other site 1163748009758 putative substrate binding site 1 [chemical binding]; other site 1163748009759 Na binding site 1 [ion binding]; other site 1163748009760 putative substrate binding site 2 [chemical binding]; other site 1163748009761 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 1163748009762 SmpB-tmRNA interface; other site 1163748009763 potential frameshift: common BLAST hit: gi|385332832|ref|YP_005886783.1| acyltransferase, WS/DGAT/MGAT 1163748009764 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1163748009765 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748009766 Ion channel; Region: Ion_trans_2; pfam07885 1163748009767 integrase; Provisional; Region: int; PHA02601 1163748009768 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 1163748009769 active site 1163748009770 DNA binding site [nucleotide binding] 1163748009771 Int/Topo IB signature motif; other site 1163748009772 Predicted transcriptional regulator [Transcription]; Region: COG2932 1163748009773 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 1163748009774 Catalytic site [active] 1163748009775 Predicted ATPase [General function prediction only]; Region: COG5293 1163748009776 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1163748009777 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748009778 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1163748009779 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1163748009780 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1163748009781 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163748009782 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748009783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009784 active site 1163748009785 phosphorylation site [posttranslational modification] 1163748009786 intermolecular recognition site; other site 1163748009787 dimerization interface [polypeptide binding]; other site 1163748009788 acetolactate synthase; Reviewed; Region: PRK08322 1163748009789 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163748009790 PYR/PP interface [polypeptide binding]; other site 1163748009791 dimer interface [polypeptide binding]; other site 1163748009792 TPP binding site [chemical binding]; other site 1163748009793 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163748009794 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 1163748009795 TPP-binding site [chemical binding]; other site 1163748009796 dimer interface [polypeptide binding]; other site 1163748009797 malate:quinone oxidoreductase; Validated; Region: PRK05257 1163748009798 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1163748009799 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1163748009800 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163748009801 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163748009802 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163748009803 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748009804 putative acyl-acceptor binding pocket; other site 1163748009805 sulfite oxidase; Provisional; Region: PLN00177 1163748009806 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 1163748009807 Moco binding site; other site 1163748009808 metal coordination site [ion binding]; other site 1163748009809 dimerization interface [polypeptide binding]; other site 1163748009810 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748009811 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163748009812 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1163748009813 SelR domain; Region: SelR; pfam01641 1163748009814 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1163748009815 phosphodiesterase YaeI; Provisional; Region: PRK11340 1163748009816 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1163748009817 putative active site [active] 1163748009818 putative metal binding site [ion binding]; other site 1163748009819 Putative integral membrane protein DUF46; Region: DUF46; cl17511 1163748009820 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1163748009821 Class II fumarases; Region: Fumarase_classII; cd01362 1163748009822 active site 1163748009823 tetramer interface [polypeptide binding]; other site 1163748009824 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748009825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009826 active site 1163748009827 phosphorylation site [posttranslational modification] 1163748009828 intermolecular recognition site; other site 1163748009829 dimerization interface [polypeptide binding]; other site 1163748009830 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748009831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1163748009832 active site 1163748009833 phosphorylation site [posttranslational modification] 1163748009834 intermolecular recognition site; other site 1163748009835 dimerization interface [polypeptide binding]; other site 1163748009836 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 1163748009837 DNA binding residues [nucleotide binding] 1163748009838 dimerization interface [polypeptide binding]; other site 1163748009839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748009840 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 1163748009841 dimer interface [polypeptide binding]; other site 1163748009842 phosphorylation site [posttranslational modification] 1163748009843 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748009844 ATP binding site [chemical binding]; other site 1163748009845 Mg2+ binding site [ion binding]; other site 1163748009846 G-X-G motif; other site 1163748009847 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1163748009848 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1163748009849 putative metal binding residues [ion binding]; other site 1163748009850 signature motif; other site 1163748009851 dimer interface [polypeptide binding]; other site 1163748009852 active site 1163748009853 polyP binding site; other site 1163748009854 substrate binding site [chemical binding]; other site 1163748009855 acceptor-phosphate pocket; other site 1163748009856 CotH protein; Region: CotH; pfam08757 1163748009857 PAS domain S-box; Region: sensory_box; TIGR00229 1163748009858 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 1163748009859 putative active site [active] 1163748009860 heme pocket [chemical binding]; other site 1163748009861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748009862 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 1163748009863 dimer interface [polypeptide binding]; other site 1163748009864 phosphorylation site [posttranslational modification] 1163748009865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748009866 ATP binding site [chemical binding]; other site 1163748009867 Mg2+ binding site [ion binding]; other site 1163748009868 G-X-G motif; other site 1163748009869 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748009870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009871 active site 1163748009872 phosphorylation site [posttranslational modification] 1163748009873 intermolecular recognition site; other site 1163748009874 dimerization interface [polypeptide binding]; other site 1163748009875 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1163748009876 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1163748009877 putative active site [active] 1163748009878 metal binding site [ion binding]; metal-binding site 1163748009879 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163748009880 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163748009881 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1163748009882 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 1163748009883 FeS/SAM binding site; other site 1163748009884 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1163748009885 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1163748009886 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1163748009887 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1163748009888 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1163748009889 FMN-binding domain; Region: FMN_bind; cl01081 1163748009890 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1163748009891 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163748009892 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1163748009893 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1163748009894 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1163748009895 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1163748009896 NADP binding site [chemical binding]; other site 1163748009897 dimer interface [polypeptide binding]; other site 1163748009898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748009899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748009900 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1163748009901 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1163748009902 NAD(P) binding site [chemical binding]; other site 1163748009903 catalytic residues [active] 1163748009904 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1163748009905 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1163748009906 acyl-activating enzyme (AAE) consensus motif; other site 1163748009907 putative AMP binding site [chemical binding]; other site 1163748009908 putative active site [active] 1163748009909 putative CoA binding site [chemical binding]; other site 1163748009910 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748009911 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748009912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748009913 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1163748009914 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1163748009915 dimer interface [polypeptide binding]; other site 1163748009916 Trp docking motif [polypeptide binding]; other site 1163748009917 active site 1163748009918 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 1163748009919 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748009920 substrate binding pocket [chemical binding]; other site 1163748009921 membrane-bound complex binding site; other site 1163748009922 hinge residues; other site 1163748009923 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163748009924 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163748009925 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1163748009926 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1163748009927 dimer interface [polypeptide binding]; other site 1163748009928 Trp docking motif [polypeptide binding]; other site 1163748009929 active site 1163748009930 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1163748009931 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748009932 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748009933 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1163748009934 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748009935 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163748009936 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748009937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748009938 active site 1163748009939 phosphorylation site [posttranslational modification] 1163748009940 intermolecular recognition site; other site 1163748009941 dimerization interface [polypeptide binding]; other site 1163748009942 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 1163748009943 DNA binding residues [nucleotide binding] 1163748009944 dimerization interface [polypeptide binding]; other site 1163748009945 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 1163748009946 dimerization interface [polypeptide binding]; other site 1163748009947 Histidine kinase; Region: HisKA_3; pfam07730 1163748009948 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1163748009949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748009950 ATP binding site [chemical binding]; other site 1163748009951 Mg2+ binding site [ion binding]; other site 1163748009952 G-X-G motif; other site 1163748009953 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 1163748009954 ligand binding site [chemical binding]; other site 1163748009955 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1163748009956 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1163748009957 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 1163748009958 structural tetrad; other site 1163748009959 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1163748009960 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1163748009961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748009962 Walker A/P-loop; other site 1163748009963 ATP binding site [chemical binding]; other site 1163748009964 Q-loop/lid; other site 1163748009965 ABC transporter signature motif; other site 1163748009966 Walker B; other site 1163748009967 D-loop; other site 1163748009968 H-loop/switch region; other site 1163748009969 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163748009970 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163748009971 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1163748009972 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 1163748009973 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1163748009974 putative ligand binding site [chemical binding]; other site 1163748009975 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1163748009976 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1163748009977 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1163748009978 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1163748009979 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1163748009980 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163748009981 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1163748009982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748009983 Walker A/P-loop; other site 1163748009984 ATP binding site [chemical binding]; other site 1163748009985 Q-loop/lid; other site 1163748009986 ABC transporter signature motif; other site 1163748009987 Walker B; other site 1163748009988 D-loop; other site 1163748009989 H-loop/switch region; other site 1163748009990 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1163748009991 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 1163748009992 dimer interface [polypeptide binding]; other site 1163748009993 conserved gate region; other site 1163748009994 putative PBP binding loops; other site 1163748009995 ABC-ATPase subunit interface; other site 1163748009996 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1163748009997 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 1163748009998 membrane-bound complex binding site; other site 1163748009999 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748010000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010001 active site 1163748010002 phosphorylation site [posttranslational modification] 1163748010003 intermolecular recognition site; other site 1163748010004 dimerization interface [polypeptide binding]; other site 1163748010005 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 1163748010006 DNA binding residues [nucleotide binding] 1163748010007 dimerization interface [polypeptide binding]; other site 1163748010008 PAS fold; Region: PAS_7; pfam12860 1163748010009 PAS fold; Region: PAS_4; pfam08448 1163748010010 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 1163748010011 putative active site [active] 1163748010012 heme pocket [chemical binding]; other site 1163748010013 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010014 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 1163748010015 dimer interface [polypeptide binding]; other site 1163748010016 phosphorylation site [posttranslational modification] 1163748010017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010018 ATP binding site [chemical binding]; other site 1163748010019 Mg2+ binding site [ion binding]; other site 1163748010020 G-X-G motif; other site 1163748010021 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748010022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010023 active site 1163748010024 phosphorylation site [posttranslational modification] 1163748010025 intermolecular recognition site; other site 1163748010026 dimerization interface [polypeptide binding]; other site 1163748010027 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1163748010028 FIST N domain; Region: FIST; pfam08495 1163748010029 FIST C domain; Region: FIST_C; pfam10442 1163748010030 Gram-negative porin; Region: Porin_4; pfam13609 1163748010031 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1163748010032 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1163748010033 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 1163748010034 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748010035 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 1163748010036 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1163748010037 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 1163748010038 S-adenosylmethionine binding site [chemical binding]; other site 1163748010039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1163748010040 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1163748010041 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1163748010042 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1163748010043 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1163748010044 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 1163748010045 metal binding site [ion binding]; metal-binding site 1163748010046 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1163748010047 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1163748010048 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1163748010049 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1163748010050 RNA methyltransferase, RsmE family; Region: TIGR00046 1163748010051 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1163748010052 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163748010053 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1163748010054 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1163748010055 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1163748010056 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1163748010057 proline aminopeptidase P II; Provisional; Region: PRK10879 1163748010058 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 1163748010059 active site 1163748010060 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1163748010061 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1163748010062 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1163748010063 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163748010064 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163748010065 Walker A/P-loop; other site 1163748010066 ATP binding site [chemical binding]; other site 1163748010067 Q-loop/lid; other site 1163748010068 ABC transporter signature motif; other site 1163748010069 Walker B; other site 1163748010070 D-loop; other site 1163748010071 H-loop/switch region; other site 1163748010072 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163748010073 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1163748010074 FtsX-like permease family; Region: FtsX; pfam02687 1163748010075 TIGR02449 family protein; Region: TIGR02449 1163748010076 Cell division protein ZapA; Region: ZapA; pfam05164 1163748010077 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163748010078 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1163748010079 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1163748010080 threonine dehydratase; Reviewed; Region: PRK09224 1163748010081 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 1163748010082 tetramer interface [polypeptide binding]; other site 1163748010083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748010084 catalytic residue [active] 1163748010085 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1163748010086 putative Ile/Val binding site [chemical binding]; other site 1163748010087 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1163748010088 putative Ile/Val binding site [chemical binding]; other site 1163748010089 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 1163748010090 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163748010091 active site 1163748010092 dimer interface [polypeptide binding]; other site 1163748010093 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163748010094 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748010095 active site 1163748010096 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 1163748010097 dimer interface [polypeptide binding]; other site 1163748010098 substrate binding site [chemical binding]; other site 1163748010099 metal binding sites [ion binding]; metal-binding site 1163748010100 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1163748010101 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1163748010102 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 1163748010103 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010104 metal binding site [ion binding]; metal-binding site 1163748010105 active site 1163748010106 I-site; other site 1163748010107 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 1163748010108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1163748010109 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1163748010110 active site 1163748010111 phosphorylation site [posttranslational modification] 1163748010112 intermolecular recognition site; other site 1163748010113 dimerization interface [polypeptide binding]; other site 1163748010114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010115 active site 1163748010116 phosphorylation site [posttranslational modification] 1163748010117 intermolecular recognition site; other site 1163748010118 dimerization interface [polypeptide binding]; other site 1163748010119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010120 metal binding site [ion binding]; metal-binding site 1163748010121 active site 1163748010122 I-site; other site 1163748010123 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 1163748010124 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1163748010125 trimer interface [polypeptide binding]; other site 1163748010126 active site 1163748010127 dimer interface [polypeptide binding]; other site 1163748010128 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1163748010129 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 1163748010130 carboxyltransferase (CT) interaction site; other site 1163748010131 biotinylation site [posttranslational modification]; other site 1163748010132 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1163748010133 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163748010134 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163748010135 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163748010136 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1163748010137 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1163748010138 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1163748010139 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1163748010140 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1163748010141 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 1163748010142 FMN binding site [chemical binding]; other site 1163748010143 active site 1163748010144 catalytic residues [active] 1163748010145 substrate binding site [chemical binding]; other site 1163748010146 BTB/POZ domain; Region: BTB; cl02518 1163748010147 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1163748010148 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1163748010149 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 1163748010150 purine monophosphate binding site [chemical binding]; other site 1163748010151 dimer interface [polypeptide binding]; other site 1163748010152 putative catalytic residues [active] 1163748010153 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1163748010154 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1163748010155 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1163748010156 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1163748010157 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1163748010158 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748010159 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748010160 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1163748010161 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1163748010162 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163748010163 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1163748010164 TrkA-N domain; Region: TrkA_N; pfam02254 1163748010165 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1163748010166 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1163748010167 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163748010168 Protein export membrane protein; Region: SecD_SecF; cl14618 1163748010169 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748010170 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163748010171 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748010172 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1163748010173 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748010174 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1163748010175 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 1163748010176 transmembrane helices; other site 1163748010177 TrkA-C domain; Region: TrkA_C; pfam02080 1163748010178 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163748010179 TrkA-C domain; Region: TrkA_C; pfam02080 1163748010180 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 1163748010181 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1163748010182 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 1163748010183 Walker A motif; other site 1163748010184 ATP binding site [chemical binding]; other site 1163748010185 Walker B motif; other site 1163748010186 arginine finger; other site 1163748010187 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163748010188 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_C39G; cd02423 1163748010189 putative active site [active] 1163748010190 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748010191 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 1163748010192 tetramer interface [polypeptide binding]; other site 1163748010193 active site 1163748010194 Mg2+/Mn2+ binding site [ion binding]; other site 1163748010195 isocitrate lyase; Region: PLN02892 1163748010196 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1163748010197 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 1163748010198 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748010199 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 1163748010200 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1163748010201 HAMP domain; Region: HAMP; pfam00672 1163748010202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010204 metal binding site [ion binding]; metal-binding site 1163748010205 active site 1163748010206 I-site; other site 1163748010207 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 1163748010208 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748010209 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 1163748010210 DNA binding residues [nucleotide binding] 1163748010211 dimerization interface [polypeptide binding]; other site 1163748010212 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1163748010213 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748010214 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 1163748010215 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1163748010216 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163748010217 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1163748010218 Walker A/P-loop; other site 1163748010219 ATP binding site [chemical binding]; other site 1163748010220 Q-loop/lid; other site 1163748010221 ABC transporter signature motif; other site 1163748010222 Walker B; other site 1163748010223 D-loop; other site 1163748010224 H-loop/switch region; other site 1163748010225 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1163748010226 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163748010227 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748010228 ligand binding site [chemical binding]; other site 1163748010229 Cellulose synthase-like protein; Region: PLN02893 1163748010230 PA14 domain; Region: PA14; cl08459 1163748010231 putative transporter; Provisional; Region: PRK11660 1163748010232 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1163748010233 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163748010234 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 1163748010235 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1163748010236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1163748010237 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 1163748010238 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1163748010239 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1163748010240 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1163748010241 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1163748010242 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1163748010243 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1163748010244 DctM-like transporters; Region: DctM; pfam06808 1163748010245 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1163748010246 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 1163748010247 S-adenosylmethionine binding site [chemical binding]; other site 1163748010248 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1163748010249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163748010250 Gram-negative porin; Region: Porin_4; pfam13609 1163748010251 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 1163748010252 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1163748010253 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1163748010254 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1163748010255 dimerization interface [polypeptide binding]; other site 1163748010256 DPS ferroxidase diiron center [ion binding]; other site 1163748010257 ion pore; other site 1163748010258 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1163748010259 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1163748010260 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748010261 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163748010262 LysE type translocator; Region: LysE; cl00565 1163748010263 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1163748010264 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163748010265 phage assembly protein; Region: IV; PHA00019 1163748010266 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163748010267 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 1163748010268 HSP70 interaction site [polypeptide binding]; other site 1163748010269 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748010270 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748010271 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 1163748010272 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748010273 multidrug efflux protein; Reviewed; Region: PRK09579 1163748010274 Protein export membrane protein; Region: SecD_SecF; cl14618 1163748010275 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163748010276 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 1163748010277 PAS domain; Region: PAS_9; pfam13426 1163748010278 putative active site [active] 1163748010279 heme pocket [chemical binding]; other site 1163748010280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010282 metal binding site [ion binding]; metal-binding site 1163748010283 active site 1163748010284 I-site; other site 1163748010285 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 1163748010286 PAS domain; Region: PAS_9; pfam13426 1163748010287 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 1163748010288 putative active site [active] 1163748010289 heme pocket [chemical binding]; other site 1163748010290 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748010291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748010292 dimer interface [polypeptide binding]; other site 1163748010293 putative CheW interface [polypeptide binding]; other site 1163748010294 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1163748010295 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1163748010296 lipase chaperone; Provisional; Region: PRK01294 1163748010297 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1163748010298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010299 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 1163748010300 dimer interface [polypeptide binding]; other site 1163748010301 phosphorylation site [posttranslational modification] 1163748010302 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010303 ATP binding site [chemical binding]; other site 1163748010304 Mg2+ binding site [ion binding]; other site 1163748010305 G-X-G motif; other site 1163748010306 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163748010307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010308 active site 1163748010309 phosphorylation site [posttranslational modification] 1163748010310 intermolecular recognition site; other site 1163748010311 dimerization interface [polypeptide binding]; other site 1163748010312 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 1163748010313 DNA binding residues [nucleotide binding] 1163748010314 dimerization interface [polypeptide binding]; other site 1163748010315 PBP superfamily domain; Region: PBP_like_2; cl17296 1163748010316 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748010317 ligand binding site [chemical binding]; other site 1163748010318 aspartate aminotransferase; Provisional; Region: PRK05764 1163748010319 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 1163748010320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748010321 homodimer interface [polypeptide binding]; other site 1163748010322 catalytic residue [active] 1163748010323 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1163748010324 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 1163748010325 active site 1163748010326 dimerization interface [polypeptide binding]; other site 1163748010327 division inhibitor protein; Provisional; Region: slmA; PRK09480 1163748010328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748010329 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 1163748010330 ThiS interaction site; other site 1163748010331 putative active site [active] 1163748010332 tetramer interface [polypeptide binding]; other site 1163748010333 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1163748010334 thiS-thiF/thiG interaction site; other site 1163748010335 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1163748010336 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1163748010337 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1163748010338 active site 1163748010339 metal binding site [ion binding]; metal-binding site 1163748010340 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1163748010341 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1163748010342 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1163748010343 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1163748010344 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1163748010345 SurA N-terminal domain; Region: SurA_N; pfam09312 1163748010346 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163748010347 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163748010348 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1163748010349 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1163748010350 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1163748010351 Phosphotransferase enzyme family; Region: APH; pfam01636 1163748010352 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1163748010353 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1163748010354 Substrate binding site; other site 1163748010355 metal-binding site 1163748010356 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1163748010357 putative metal binding site [ion binding]; other site 1163748010358 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 1163748010359 HSP70 interaction site [polypeptide binding]; other site 1163748010360 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1163748010361 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 1163748010362 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1163748010363 substrate binding site [chemical binding]; other site 1163748010364 hexamer interface [polypeptide binding]; other site 1163748010365 metal binding site [ion binding]; metal-binding site 1163748010366 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1163748010367 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 1163748010368 motif II; other site 1163748010369 anthranilate synthase component I; Provisional; Region: PRK13565 1163748010370 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163748010371 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163748010372 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1163748010373 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1163748010374 glutamine binding [chemical binding]; other site 1163748010375 catalytic triad [active] 1163748010376 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1163748010377 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1163748010378 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1163748010379 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 1163748010380 active site 1163748010381 ribulose/triose binding site [chemical binding]; other site 1163748010382 phosphate binding site [ion binding]; other site 1163748010383 substrate (anthranilate) binding pocket [chemical binding]; other site 1163748010384 product (indole) binding pocket [chemical binding]; other site 1163748010385 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1163748010386 putative efflux protein, MATE family; Region: matE; TIGR00797 1163748010387 IucA / IucC family; Region: IucA_IucC; pfam04183 1163748010388 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1163748010389 IucA / IucC family; Region: IucA_IucC; pfam04183 1163748010390 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1163748010391 acyl-CoA synthetase; Validated; Region: PRK08308 1163748010392 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163748010393 acyl-activating enzyme (AAE) consensus motif; other site 1163748010394 AMP binding site [chemical binding]; other site 1163748010395 active site 1163748010396 CoA binding site [chemical binding]; other site 1163748010397 acyl carrier protein; Provisional; Region: PRK07639 1163748010398 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1163748010399 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 1163748010400 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1163748010401 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163748010402 Walker A/P-loop; other site 1163748010403 ATP binding site [chemical binding]; other site 1163748010404 Q-loop/lid; other site 1163748010405 ABC transporter signature motif; other site 1163748010406 Walker B; other site 1163748010407 D-loop; other site 1163748010408 H-loop/switch region; other site 1163748010409 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163748010410 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 1163748010411 ABC-ATPase subunit interface; other site 1163748010412 dimer interface [polypeptide binding]; other site 1163748010413 putative PBP binding regions; other site 1163748010414 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1163748010415 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1163748010416 intersubunit interface [polypeptide binding]; other site 1163748010417 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1163748010418 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 1163748010419 N-terminal plug; other site 1163748010420 ligand-binding site [chemical binding]; other site 1163748010421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010422 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 1163748010423 dimerization interface [polypeptide binding]; other site 1163748010424 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 1163748010425 dimer interface [polypeptide binding]; other site 1163748010426 phosphorylation site [posttranslational modification] 1163748010427 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010428 ATP binding site [chemical binding]; other site 1163748010429 Mg2+ binding site [ion binding]; other site 1163748010430 G-X-G motif; other site 1163748010431 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748010432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010433 active site 1163748010434 phosphorylation site [posttranslational modification] 1163748010435 intermolecular recognition site; other site 1163748010436 dimerization interface [polypeptide binding]; other site 1163748010437 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 1163748010438 DNA binding site [nucleotide binding] 1163748010439 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 1163748010440 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748010441 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 1163748010442 putative C-terminal domain interface [polypeptide binding]; other site 1163748010443 putative GSH binding site (G-site) [chemical binding]; other site 1163748010444 putative dimer interface [polypeptide binding]; other site 1163748010445 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1163748010446 N-terminal domain interface [polypeptide binding]; other site 1163748010447 dimer interface [polypeptide binding]; other site 1163748010448 substrate binding pocket (H-site) [chemical binding]; other site 1163748010449 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163748010450 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 1163748010451 putative active site [active] 1163748010452 Zn binding site [ion binding]; other site 1163748010453 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 1163748010454 substrate binding pocket [chemical binding]; other site 1163748010455 membrane-bound complex binding site; other site 1163748010456 hinge residues; other site 1163748010457 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1163748010458 Predicted membrane protein [Function unknown]; Region: COG3650 1163748010459 META domain; Region: META; pfam03724 1163748010460 META domain; Region: META; pfam03724 1163748010461 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163748010462 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1163748010463 C-terminal domain interface [polypeptide binding]; other site 1163748010464 GSH binding site (G-site) [chemical binding]; other site 1163748010465 dimer interface [polypeptide binding]; other site 1163748010466 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1163748010467 N-terminal domain interface [polypeptide binding]; other site 1163748010468 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1163748010469 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1163748010470 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1163748010471 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748010472 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1163748010473 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163748010474 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 1163748010475 dimer interface [polypeptide binding]; other site 1163748010476 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1163748010477 conserved gate region; other site 1163748010478 putative PBP binding loops; other site 1163748010479 ABC-ATPase subunit interface; other site 1163748010480 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1163748010481 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748010482 Walker A/P-loop; other site 1163748010483 ATP binding site [chemical binding]; other site 1163748010484 Q-loop/lid; other site 1163748010485 ABC transporter signature motif; other site 1163748010486 Walker B; other site 1163748010487 D-loop; other site 1163748010488 H-loop/switch region; other site 1163748010489 TOBE domain; Region: TOBE; pfam03459 1163748010490 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163748010491 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163748010492 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 1163748010493 metal ion-dependent adhesion site (MIDAS); other site 1163748010494 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1163748010495 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 1163748010496 ligand binding site [chemical binding]; other site 1163748010497 flexible hinge region; other site 1163748010498 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 1163748010499 putative switch regulator; other site 1163748010500 non-specific DNA interactions [nucleotide binding]; other site 1163748010501 DNA binding site [nucleotide binding] 1163748010502 sequence specific DNA binding site [nucleotide binding]; other site 1163748010503 putative cAMP binding site [chemical binding]; other site 1163748010504 OsmC-like protein; Region: OsmC; cl00767 1163748010505 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1163748010506 Pirin-related protein [General function prediction only]; Region: COG1741 1163748010507 Pirin; Region: Pirin; pfam02678 1163748010508 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163748010509 phosphoribulokinase; Provisional; Region: PRK15453 1163748010510 active site 1163748010511 PilZ domain; Region: PilZ; pfam07238 1163748010512 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163748010513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010515 metal binding site [ion binding]; metal-binding site 1163748010516 active site 1163748010517 I-site; other site 1163748010518 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 1163748010519 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1163748010520 N-acetylglutamate synthase; Validated; Region: PRK05279 1163748010521 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 1163748010522 putative feedback inhibition sensing region; other site 1163748010523 putative nucleotide binding site [chemical binding]; other site 1163748010524 putative substrate binding site [chemical binding]; other site 1163748010525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163748010526 Coenzyme A binding pocket [chemical binding]; other site 1163748010527 acetylornithine deacetylase; Provisional; Region: PRK05111 1163748010528 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1163748010529 metal binding site [ion binding]; metal-binding site 1163748010530 putative dimer interface [polypeptide binding]; other site 1163748010531 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1163748010532 feedback inhibition sensing region; other site 1163748010533 homohexameric interface [polypeptide binding]; other site 1163748010534 nucleotide binding site [chemical binding]; other site 1163748010535 N-acetyl-L-glutamate binding site [chemical binding]; other site 1163748010536 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1163748010537 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 1163748010538 active site 1163748010539 substrate binding site [chemical binding]; other site 1163748010540 metal binding site [ion binding]; metal-binding site 1163748010541 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163748010542 trimer interface [polypeptide binding]; other site 1163748010543 active site 1163748010544 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1163748010545 Flavoprotein; Region: Flavoprotein; pfam02441 1163748010546 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1163748010547 hypothetical protein; Reviewed; Region: PRK00024 1163748010548 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1163748010549 MPN+ (JAMM) motif; other site 1163748010550 Zinc-binding site [ion binding]; other site 1163748010551 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1163748010552 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1163748010553 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1163748010554 putative catalytic site [active] 1163748010555 putative metal binding site [ion binding]; other site 1163748010556 putative phosphate binding site [ion binding]; other site 1163748010557 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 1163748010558 catalytic residues [active] 1163748010559 hinge region; other site 1163748010560 alpha helical domain; other site 1163748010561 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163748010562 Cytochrome c; Region: Cytochrom_C; cl11414 1163748010563 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1163748010564 G1 box; other site 1163748010565 GTP/Mg2+ binding site [chemical binding]; other site 1163748010566 Switch I region; other site 1163748010567 G2 box; other site 1163748010568 G3 box; other site 1163748010569 Switch II region; other site 1163748010570 G4 box; other site 1163748010571 G5 box; other site 1163748010572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748010573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748010574 Bacterial transcriptional repressor; Region: TetR; pfam13972 1163748010575 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1163748010576 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1163748010577 NAD(P) binding site [chemical binding]; other site 1163748010578 catalytic residues [active] 1163748010579 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1163748010580 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163748010581 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1163748010582 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1163748010583 active site 1163748010584 (T/H)XGH motif; other site 1163748010585 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1163748010586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1163748010587 polyphosphate kinase; Provisional; Region: PRK05443 1163748010588 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1163748010589 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1163748010590 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1163748010591 putative active site [active] 1163748010592 catalytic site [active] 1163748010593 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1163748010594 putative domain interface [polypeptide binding]; other site 1163748010595 putative active site [active] 1163748010596 catalytic site [active] 1163748010597 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 1163748010598 dimer interface [polypeptide binding]; other site 1163748010599 active site 1163748010600 aspartate-rich active site metal binding site; other site 1163748010601 allosteric magnesium binding site [ion binding]; other site 1163748010602 Schiff base residues; other site 1163748010603 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1163748010604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748010605 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748010606 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1163748010607 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748010608 active site 1163748010609 Protein of unknown function (DUF503); Region: DUF503; pfam04456 1163748010610 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 1163748010611 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163748010612 catalytic residue [active] 1163748010613 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1163748010614 Phosphate transporter family; Region: PHO4; pfam01384 1163748010615 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010617 metal binding site [ion binding]; metal-binding site 1163748010618 active site 1163748010619 I-site; other site 1163748010620 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163748010621 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748010622 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748010623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010624 metal binding site [ion binding]; metal-binding site 1163748010625 active site 1163748010626 I-site; other site 1163748010627 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 1163748010628 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1163748010629 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 1163748010630 active site 1163748010631 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 1163748010632 catalytic triad [active] 1163748010633 dimer interface [polypeptide binding]; other site 1163748010634 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1163748010635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748010636 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163748010637 Rubredoxin [Energy production and conversion]; Region: COG1773 1163748010638 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1163748010639 iron binding site [ion binding]; other site 1163748010640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748010641 active site 1163748010642 Chorismate lyase; Region: Chor_lyase; cl01230 1163748010643 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1163748010644 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163748010645 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1163748010646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010647 active site 1163748010648 phosphorylation site [posttranslational modification] 1163748010649 intermolecular recognition site; other site 1163748010650 dimerization interface [polypeptide binding]; other site 1163748010651 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 1163748010652 DNA binding site [nucleotide binding] 1163748010653 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1163748010654 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163748010655 PAS domain; Region: PAS; smart00091 1163748010656 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 1163748010657 dimer interface [polypeptide binding]; other site 1163748010658 phosphorylation site [posttranslational modification] 1163748010659 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010660 ATP binding site [chemical binding]; other site 1163748010661 Mg2+ binding site [ion binding]; other site 1163748010662 G-X-G motif; other site 1163748010663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010664 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748010665 active site 1163748010666 phosphorylation site [posttranslational modification] 1163748010667 intermolecular recognition site; other site 1163748010668 dimerization interface [polypeptide binding]; other site 1163748010669 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1163748010670 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 1163748010671 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163748010672 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163748010673 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1163748010674 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1163748010675 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1163748010676 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 1163748010677 RNA binding surface [nucleotide binding]; other site 1163748010678 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1163748010679 active site 1163748010680 uracil binding [chemical binding]; other site 1163748010681 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1163748010682 active site 1163748010683 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1163748010684 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1163748010685 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748010686 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748010687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010688 metal binding site [ion binding]; metal-binding site 1163748010689 active site 1163748010690 I-site; other site 1163748010691 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 1163748010692 PAAR motif; Region: PAAR_motif; pfam05488 1163748010693 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1163748010694 XFP N-terminal domain; Region: XFP_N; pfam09364 1163748010695 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1163748010696 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1163748010697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163748010698 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1163748010699 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 1163748010700 motif II; other site 1163748010701 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1163748010702 PhoD-like phosphatase; Region: PhoD; pfam09423 1163748010703 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1163748010704 putative active site [active] 1163748010705 putative metal binding site [ion binding]; other site 1163748010706 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163748010707 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748010708 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1163748010709 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1163748010710 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163748010711 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 1163748010712 DNA-binding site [nucleotide binding]; DNA binding site 1163748010713 RNA-binding motif; other site 1163748010714 chromosome condensation membrane protein; Provisional; Region: PRK14196 1163748010715 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1163748010716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748010717 active site 1163748010718 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1163748010719 ATP-dependent helicase HepA; Validated; Region: PRK04914 1163748010720 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 1163748010721 ATP binding site [chemical binding]; other site 1163748010722 putative Mg++ binding site [ion binding]; other site 1163748010723 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 1163748010724 nucleotide binding region [chemical binding]; other site 1163748010725 ATP-binding site [chemical binding]; other site 1163748010726 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1163748010727 VanZ like family; Region: VanZ; cl01971 1163748010728 Predicted methyltransferase [General function prediction only]; Region: COG3897 1163748010729 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1163748010730 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1163748010731 active site residue [active] 1163748010732 mechanosensitive channel MscS; Provisional; Region: PRK10334 1163748010733 Conserved TM helix; Region: TM_helix; pfam05552 1163748010734 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163748010735 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1163748010736 putative deacylase active site [active] 1163748010737 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163748010738 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1163748010739 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 1163748010740 nucleotide binding site/active site [active] 1163748010741 HIT family signature motif; other site 1163748010742 catalytic residue [active] 1163748010743 Domain of unknown function DUF21; Region: DUF21; pfam01595 1163748010744 FOG: CBS domain [General function prediction only]; Region: COG0517 1163748010745 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 1163748010746 transcriptional regulator PhoU; Provisional; Region: PRK11115 1163748010747 PhoU domain; Region: PhoU; pfam01895 1163748010748 PhoU domain; Region: PhoU; pfam01895 1163748010749 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1163748010750 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1163748010751 Walker A/P-loop; other site 1163748010752 ATP binding site [chemical binding]; other site 1163748010753 Q-loop/lid; other site 1163748010754 ABC transporter signature motif; other site 1163748010755 Walker B; other site 1163748010756 D-loop; other site 1163748010757 H-loop/switch region; other site 1163748010758 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1163748010759 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1163748010760 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 1163748010761 dimer interface [polypeptide binding]; other site 1163748010762 conserved gate region; other site 1163748010763 putative PBP binding loops; other site 1163748010764 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; cl00427 1163748010765 ABC-ATPase subunit interface; other site 1163748010766 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1163748010767 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1163748010768 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 1163748010769 dimer interface [polypeptide binding]; other site 1163748010770 conserved gate region; other site 1163748010771 putative PBP binding loops; other site 1163748010772 ABC-ATPase subunit interface; other site 1163748010773 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1163748010774 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 1163748010775 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 1163748010776 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163748010777 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; cd01635 1163748010778 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1163748010779 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1163748010780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1163748010781 Walker A/P-loop; other site 1163748010782 ATP binding site [chemical binding]; other site 1163748010783 Q-loop/lid; other site 1163748010784 ABC transporter signature motif; other site 1163748010785 Walker B; other site 1163748010786 D-loop; other site 1163748010787 H-loop/switch region; other site 1163748010788 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 1163748010789 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1163748010790 NADP binding site [chemical binding]; other site 1163748010791 homodimer interface [polypeptide binding]; other site 1163748010792 active site 1163748010793 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1163748010794 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1163748010795 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163748010796 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 1163748010797 dimerization interface [polypeptide binding]; other site 1163748010798 putative DNA binding site [nucleotide binding]; other site 1163748010799 putative Zn2+ binding site [ion binding]; other site 1163748010800 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1163748010801 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163748010802 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1163748010803 arsenical-resistance protein; Region: acr3; TIGR00832 1163748010804 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1163748010805 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1163748010806 Part of AAA domain; Region: AAA_19; pfam13245 1163748010807 Family description; Region: UvrD_C_2; pfam13538 1163748010808 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163748010809 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 1163748010810 dimerization interface [polypeptide binding]; other site 1163748010811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748010812 dimer interface [polypeptide binding]; other site 1163748010813 putative CheW interface [polypeptide binding]; other site 1163748010814 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 1163748010815 PBP superfamily domain; Region: PBP_like_2; cl17296 1163748010816 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1163748010817 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1163748010818 tetramerization interface [polypeptide binding]; other site 1163748010819 NAD(P) binding site [chemical binding]; other site 1163748010820 catalytic residues [active] 1163748010821 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1163748010822 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1163748010823 active site 1163748010824 Zn binding site [ion binding]; other site 1163748010825 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1163748010826 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1163748010827 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1163748010828 Ligand Binding Site [chemical binding]; other site 1163748010829 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 1163748010830 active site residue [active] 1163748010831 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1163748010832 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1163748010833 Cytochrome c; Region: Cytochrom_C; cl11414 1163748010834 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1163748010835 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 1163748010836 substrate binding site [chemical binding]; other site 1163748010837 oxyanion hole (OAH) forming residues; other site 1163748010838 trimer interface [polypeptide binding]; other site 1163748010839 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1163748010840 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 1163748010841 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1163748010842 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163748010843 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1163748010844 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1163748010845 Helicase; Region: Helicase_RecD; pfam05127 1163748010846 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1163748010847 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1163748010848 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163748010849 Part of AAA domain; Region: AAA_19; pfam13245 1163748010850 Family description; Region: UvrD_C_2; pfam13538 1163748010851 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1163748010852 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163748010853 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748010854 ligand binding site [chemical binding]; other site 1163748010855 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 1163748010856 S-adenosylmethionine binding site [chemical binding]; other site 1163748010857 putative RNA methyltransferase; Provisional; Region: PRK10433 1163748010858 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1163748010859 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1163748010860 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163748010861 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1163748010862 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163748010863 active site 1163748010864 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1163748010865 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1163748010866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748010867 Zn2+ binding site [ion binding]; other site 1163748010868 Mg2+ binding site [ion binding]; other site 1163748010869 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1163748010870 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1163748010871 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1163748010872 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 1163748010873 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1163748010874 putative active site [active] 1163748010875 heme pocket [chemical binding]; other site 1163748010876 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 1163748010877 putative active site [active] 1163748010878 heme pocket [chemical binding]; other site 1163748010879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010881 metal binding site [ion binding]; metal-binding site 1163748010882 active site 1163748010883 I-site; other site 1163748010884 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1163748010885 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1163748010886 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 1163748010887 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1163748010888 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748010889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010890 active site 1163748010891 phosphorylation site [posttranslational modification] 1163748010892 intermolecular recognition site; other site 1163748010893 dimerization interface [polypeptide binding]; other site 1163748010894 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748010895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010896 active site 1163748010897 phosphorylation site [posttranslational modification] 1163748010898 intermolecular recognition site; other site 1163748010899 dimerization interface [polypeptide binding]; other site 1163748010900 HDOD domain; Region: HDOD; pfam08668 1163748010901 Hpt domain; Region: Hpt; pfam01627 1163748010902 putative binding surface; other site 1163748010903 active site 1163748010904 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748010905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010906 active site 1163748010907 phosphorylation site [posttranslational modification] 1163748010908 intermolecular recognition site; other site 1163748010909 dimerization interface [polypeptide binding]; other site 1163748010910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748010911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748010912 metal binding site [ion binding]; metal-binding site 1163748010913 active site 1163748010914 I-site; other site 1163748010915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010916 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 1163748010917 dimer interface [polypeptide binding]; other site 1163748010918 phosphorylation site [posttranslational modification] 1163748010919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010920 ATP binding site [chemical binding]; other site 1163748010921 Mg2+ binding site [ion binding]; other site 1163748010922 G-X-G motif; other site 1163748010923 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163748010924 GAF domain; Region: GAF; pfam01590 1163748010925 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163748010926 GAF domain; Region: GAF; pfam01590 1163748010927 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 1163748010928 putative active site [active] 1163748010929 PAS fold; Region: PAS_3; pfam08447 1163748010930 heme pocket [chemical binding]; other site 1163748010931 PAS domain S-box; Region: sensory_box; TIGR00229 1163748010932 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 1163748010933 putative active site [active] 1163748010934 heme pocket [chemical binding]; other site 1163748010935 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010936 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 1163748010937 dimer interface [polypeptide binding]; other site 1163748010938 phosphorylation site [posttranslational modification] 1163748010939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010940 ATP binding site [chemical binding]; other site 1163748010941 Mg2+ binding site [ion binding]; other site 1163748010942 G-X-G motif; other site 1163748010943 CHASE domain; Region: CHASE; cl01369 1163748010944 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163748010945 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748010946 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 1163748010947 dimer interface [polypeptide binding]; other site 1163748010948 phosphorylation site [posttranslational modification] 1163748010949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010950 ATP binding site [chemical binding]; other site 1163748010951 Mg2+ binding site [ion binding]; other site 1163748010952 G-X-G motif; other site 1163748010953 aconitate hydratase; Validated; Region: PRK09277 1163748010954 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1163748010955 substrate binding site [chemical binding]; other site 1163748010956 ligand binding site [chemical binding]; other site 1163748010957 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 1163748010958 substrate binding site [chemical binding]; other site 1163748010959 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1163748010960 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163748010961 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163748010962 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163748010963 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163748010964 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 1163748010965 putative active site [active] 1163748010966 heme pocket [chemical binding]; other site 1163748010967 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 1163748010968 dimer interface [polypeptide binding]; other site 1163748010969 phosphorylation site [posttranslational modification] 1163748010970 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748010971 ATP binding site [chemical binding]; other site 1163748010972 Mg2+ binding site [ion binding]; other site 1163748010973 G-X-G motif; other site 1163748010974 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748010975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010976 active site 1163748010977 phosphorylation site [posttranslational modification] 1163748010978 intermolecular recognition site; other site 1163748010979 dimerization interface [polypeptide binding]; other site 1163748010980 Hpt domain; Region: Hpt; pfam01627 1163748010981 putative binding surface; other site 1163748010982 active site 1163748010983 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1163748010984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748010985 active site 1163748010986 phosphorylation site [posttranslational modification] 1163748010987 intermolecular recognition site; other site 1163748010988 dimerization interface [polypeptide binding]; other site 1163748010989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748010990 Zn2+ binding site [ion binding]; other site 1163748010991 Mg2+ binding site [ion binding]; other site 1163748010992 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748010993 dimer interface [polypeptide binding]; other site 1163748010994 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1163748010995 putative CheW interface [polypeptide binding]; other site 1163748010996 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1163748010997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163748010998 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163748010999 ligand binding site [chemical binding]; other site 1163748011000 MAPEG family; Region: MAPEG; cl09190 1163748011001 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163748011002 putative acyl-acceptor binding pocket; other site 1163748011003 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 1163748011004 active site 1163748011005 catalytic site [active] 1163748011006 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1163748011007 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1163748011008 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 1163748011009 metal ion-dependent adhesion site (MIDAS); other site 1163748011010 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1163748011011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011012 active site 1163748011013 phosphorylation site [posttranslational modification] 1163748011014 intermolecular recognition site; other site 1163748011015 dimerization interface [polypeptide binding]; other site 1163748011016 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 1163748011017 DNA binding site [nucleotide binding] 1163748011018 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1163748011019 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 1163748011020 putative ligand binding site [chemical binding]; other site 1163748011021 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 1163748011022 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 1163748011023 dimer interface [polypeptide binding]; other site 1163748011024 phosphorylation site [posttranslational modification] 1163748011025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748011026 ATP binding site [chemical binding]; other site 1163748011027 Mg2+ binding site [ion binding]; other site 1163748011028 G-X-G motif; other site 1163748011029 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1163748011030 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1163748011031 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 1163748011032 Walker A motif; other site 1163748011033 ATP binding site [chemical binding]; other site 1163748011034 Walker B motif; other site 1163748011035 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748011036 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 1163748011037 substrate binding pocket [chemical binding]; other site 1163748011038 membrane-bound complex binding site; other site 1163748011039 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748011040 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 1163748011041 substrate binding pocket [chemical binding]; other site 1163748011042 membrane-bound complex binding site; other site 1163748011043 hinge residues; other site 1163748011044 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163748011045 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 1163748011046 substrate binding pocket [chemical binding]; other site 1163748011047 membrane-bound complex binding site; other site 1163748011048 hinge residues; other site 1163748011049 Tetrahydromethanopterin S-methyltransferase, subunit E; Region: MtrE; cl01675 1163748011050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011052 metal binding site [ion binding]; metal-binding site 1163748011053 active site 1163748011054 I-site; other site 1163748011055 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1163748011056 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 1163748011057 dimer interface [polypeptide binding]; other site 1163748011058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748011059 catalytic residue [active] 1163748011060 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1163748011061 PGAP1-like protein; Region: PGAP1; pfam07819 1163748011062 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1163748011063 DNA ligase; Provisional; Region: PRK09125 1163748011064 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1163748011065 DNA binding site [nucleotide binding] 1163748011066 active site 1163748011067 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 1163748011068 DNA binding site [nucleotide binding] 1163748011069 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 1163748011070 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 1163748011071 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1163748011072 putative active site [active] 1163748011073 catalytic site [active] 1163748011074 putative metal binding site [ion binding]; other site 1163748011075 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1163748011076 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1163748011077 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 1163748011078 Walker A motif; other site 1163748011079 ATP binding site [chemical binding]; other site 1163748011080 Walker B motif; other site 1163748011081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1163748011082 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 1163748011083 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1163748011084 PspA/IM30 family; Region: PspA_IM30; pfam04012 1163748011085 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 1163748011086 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1163748011087 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1163748011088 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163748011089 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1163748011090 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1163748011091 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1163748011092 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1163748011093 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1163748011094 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1163748011095 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1163748011096 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1163748011097 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1163748011098 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1163748011099 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1163748011100 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 1163748011101 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1163748011102 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 1163748011103 Walker A motif; other site 1163748011104 ATP binding site [chemical binding]; other site 1163748011105 Walker B motif; other site 1163748011106 arginine finger; other site 1163748011107 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1163748011108 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1163748011109 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 1163748011110 Walker A motif; other site 1163748011111 ATP binding site [chemical binding]; other site 1163748011112 Walker B motif; other site 1163748011113 arginine finger; other site 1163748011114 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 1163748011115 Walker A motif; other site 1163748011116 ATP binding site [chemical binding]; other site 1163748011117 Walker B motif; other site 1163748011118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163748011119 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1163748011120 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1163748011121 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1163748011122 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1163748011123 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1163748011124 FHA domain; Region: FHA; pfam00498 1163748011125 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1163748011126 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1163748011127 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1163748011128 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1163748011129 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1163748011130 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1163748011131 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1163748011132 Acyl CoA binding protein; Region: ACBP; pfam00887 1163748011133 acyl-CoA binding pocket [chemical binding]; other site 1163748011134 CoA binding site [chemical binding]; other site 1163748011135 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1163748011136 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1163748011137 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163748011138 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163748011139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163748011140 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 1163748011141 dimerization interface [polypeptide binding]; other site 1163748011142 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 1163748011143 dimer interface [polypeptide binding]; other site 1163748011144 phosphorylation site [posttranslational modification] 1163748011145 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748011146 ATP binding site [chemical binding]; other site 1163748011147 Mg2+ binding site [ion binding]; other site 1163748011148 G-X-G motif; other site 1163748011149 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163748011150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011151 active site 1163748011152 phosphorylation site [posttranslational modification] 1163748011153 intermolecular recognition site; other site 1163748011154 dimerization interface [polypeptide binding]; other site 1163748011155 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 1163748011156 DNA binding site [nucleotide binding] 1163748011157 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1163748011158 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1163748011159 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163748011160 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1163748011161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163748011162 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 1163748011163 DNA binding residues [nucleotide binding] 1163748011164 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1163748011165 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1163748011166 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1163748011167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163748011168 Walker A/P-loop; other site 1163748011169 ATP binding site [chemical binding]; other site 1163748011170 Q-loop/lid; other site 1163748011171 ABC transporter signature motif; other site 1163748011172 Walker B; other site 1163748011173 D-loop; other site 1163748011174 H-loop/switch region; other site 1163748011175 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1163748011176 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1163748011177 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 1163748011178 P loop; other site 1163748011179 GTP binding site [chemical binding]; other site 1163748011180 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1163748011181 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 1163748011182 S-adenosylmethionine binding site [chemical binding]; other site 1163748011183 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163748011184 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 1163748011185 Di-iron ligands [ion binding]; other site 1163748011186 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 1163748011187 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1163748011188 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1163748011189 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1163748011190 DNA binding site [nucleotide binding] 1163748011191 catalytic residue [active] 1163748011192 H2TH interface [polypeptide binding]; other site 1163748011193 putative catalytic residues [active] 1163748011194 turnover-facilitating residue; other site 1163748011195 intercalation triad [nucleotide binding]; other site 1163748011196 8OG recognition residue [nucleotide binding]; other site 1163748011197 putative reading head residues; other site 1163748011198 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1163748011199 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1163748011200 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1163748011201 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 1163748011202 motif II; other site 1163748011203 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 1163748011204 RNA binding surface [nucleotide binding]; other site 1163748011205 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1163748011206 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 1163748011207 dimerization interface [polypeptide binding]; other site 1163748011208 domain crossover interface; other site 1163748011209 redox-dependent activation switch; other site 1163748011210 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 1163748011211 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1163748011212 active site 1163748011213 substrate-binding site [chemical binding]; other site 1163748011214 metal-binding site [ion binding] 1163748011215 ATP binding site [chemical binding]; other site 1163748011216 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1163748011217 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 1163748011218 IHF dimer interface [polypeptide binding]; other site 1163748011219 IHF - DNA interface [nucleotide binding]; other site 1163748011220 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1163748011221 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 1163748011222 dihydroorotase; Validated; Region: pyrC; PRK09357 1163748011223 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 1163748011224 active site 1163748011225 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1163748011226 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163748011227 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163748011228 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163748011229 active site 1163748011230 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1163748011231 hypothetical protein; Validated; Region: PRK00228 1163748011232 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163748011233 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163748011234 glutathione synthetase; Provisional; Region: PRK05246 1163748011235 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1163748011236 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1163748011237 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748011238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011239 active site 1163748011240 phosphorylation site [posttranslational modification] 1163748011241 intermolecular recognition site; other site 1163748011242 dimerization interface [polypeptide binding]; other site 1163748011243 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748011244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011245 active site 1163748011246 phosphorylation site [posttranslational modification] 1163748011247 intermolecular recognition site; other site 1163748011248 dimerization interface [polypeptide binding]; other site 1163748011249 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163748011250 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1163748011251 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163748011252 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163748011253 dimer interface [polypeptide binding]; other site 1163748011254 putative CheW interface [polypeptide binding]; other site 1163748011255 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1163748011256 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1163748011257 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 1163748011258 S-adenosylmethionine binding site [chemical binding]; other site 1163748011259 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 1163748011260 putative binding surface; other site 1163748011261 active site 1163748011262 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 1163748011263 putative binding surface; other site 1163748011264 active site 1163748011265 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 1163748011266 putative binding surface; other site 1163748011267 active site 1163748011268 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 1163748011269 putative binding surface; other site 1163748011270 active site 1163748011271 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 1163748011272 putative binding surface; other site 1163748011273 active site 1163748011274 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163748011275 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 1163748011276 putative binding surface; other site 1163748011277 active site 1163748011278 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163748011279 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163748011280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748011281 ATP binding site [chemical binding]; other site 1163748011282 Mg2+ binding site [ion binding]; other site 1163748011283 G-X-G motif; other site 1163748011284 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 1163748011285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011286 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748011287 active site 1163748011288 phosphorylation site [posttranslational modification] 1163748011289 intermolecular recognition site; other site 1163748011290 dimerization interface [polypeptide binding]; other site 1163748011291 CheB methylesterase; Region: CheB_methylest; pfam01339 1163748011292 CheW-like domain; Region: CheW; pfam01584 1163748011293 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163748011294 metal binding site 2 [ion binding]; metal-binding site 1163748011295 putative DNA binding helix; other site 1163748011296 metal binding site 1 [ion binding]; metal-binding site 1163748011297 dimer interface [polypeptide binding]; other site 1163748011298 structural Zn2+ binding site [ion binding]; other site 1163748011299 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1163748011300 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1163748011301 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1163748011302 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 1163748011303 ABC-ATPase subunit interface; other site 1163748011304 dimer interface [polypeptide binding]; other site 1163748011305 putative PBP binding regions; other site 1163748011306 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 1163748011307 PAS domain; Region: PAS_9; pfam13426 1163748011308 putative active site [active] 1163748011309 heme pocket [chemical binding]; other site 1163748011310 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011312 metal binding site [ion binding]; metal-binding site 1163748011313 active site 1163748011314 I-site; other site 1163748011315 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163748011316 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1163748011317 homodecamer interface [polypeptide binding]; other site 1163748011318 GTP cyclohydrolase I; Provisional; Region: PLN03044 1163748011319 active site 1163748011320 putative catalytic site residues [active] 1163748011321 zinc binding site [ion binding]; other site 1163748011322 GTP-CH-I/GFRP interaction surface; other site 1163748011323 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 1163748011324 active site 1163748011325 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1163748011326 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1163748011327 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1163748011328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163748011329 Zn2+ binding site [ion binding]; other site 1163748011330 Mg2+ binding site [ion binding]; other site 1163748011331 CHASE domain; Region: CHASE; cl01369 1163748011332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011334 metal binding site [ion binding]; metal-binding site 1163748011335 active site 1163748011336 I-site; other site 1163748011337 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 1163748011338 Protein of unknown function, DUF; Region: DUF411; cl01142 1163748011339 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1163748011340 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748011341 ATP binding site [chemical binding]; other site 1163748011342 Mg2+ binding site [ion binding]; other site 1163748011343 G-X-G motif; other site 1163748011344 Z1 domain; Region: Z1; pfam10593 1163748011345 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 1163748011346 AIPR protein; Region: AIPR; pfam10592 1163748011347 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163748011348 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163748011349 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163748011350 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163748011351 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1163748011352 cofactor binding site; other site 1163748011353 DNA binding site [nucleotide binding] 1163748011354 substrate interaction site [chemical binding]; other site 1163748011355 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1163748011356 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1163748011357 additional DNA contacts [nucleotide binding]; other site 1163748011358 mismatch recognition site; other site 1163748011359 active site 1163748011360 zinc binding site [ion binding]; other site 1163748011361 DNA intercalation site [nucleotide binding]; other site 1163748011362 SeqA protein; Region: SeqA; cl11470 1163748011363 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 1163748011364 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 1163748011365 DNA binding residues [nucleotide binding] 1163748011366 dimer interface [polypeptide binding]; other site 1163748011367 copper exporting ATPase; Provisional; Region: copA; PRK10671 1163748011368 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 1163748011369 metal-binding site [ion binding] 1163748011370 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 1163748011371 metal-binding site [ion binding] 1163748011372 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163748011373 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163748011374 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1163748011375 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 1163748011376 dimerization interface [polypeptide binding]; other site 1163748011377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011379 metal binding site [ion binding]; metal-binding site 1163748011380 active site 1163748011381 I-site; other site 1163748011382 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 1163748011383 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 1163748011384 RNA binding site [nucleotide binding]; other site 1163748011385 RNB domain; Region: RNB; pfam00773 1163748011386 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 1163748011387 RNA binding site [nucleotide binding]; other site 1163748011388 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163748011389 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1163748011390 putative acyl-acceptor binding pocket; other site 1163748011391 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 1163748011392 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1163748011393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748011394 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 1163748011395 putative Zn2+ binding site [ion binding]; other site 1163748011396 putative DNA binding site [nucleotide binding]; other site 1163748011397 dimerization interface [polypeptide binding]; other site 1163748011398 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 1163748011399 substrate binding pocket [chemical binding]; other site 1163748011400 dimerization interface [polypeptide binding]; other site 1163748011401 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1163748011402 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 1163748011403 putative substrate translocation pore; other site 1163748011404 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 1163748011405 dimer interface [polypeptide binding]; other site 1163748011406 catalytic triad [active] 1163748011407 peroxidatic and resolving cysteines [active] 1163748011408 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163748011409 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1163748011410 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 1163748011411 active site 1163748011412 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 1163748011413 nudix motif; other site 1163748011414 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1163748011415 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1163748011416 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1163748011417 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1163748011418 putative active site [active] 1163748011419 Zn binding site [ion binding]; other site 1163748011420 EamA-like transporter family; Region: EamA; pfam00892 1163748011421 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1163748011422 EamA-like transporter family; Region: EamA; pfam00892 1163748011423 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 1163748011424 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 1163748011425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163748011426 homodimer interface [polypeptide binding]; other site 1163748011427 catalytic residue [active] 1163748011428 Predicted permeases [General function prediction only]; Region: COG0679 1163748011429 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1163748011430 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1163748011431 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748011432 active site 1163748011433 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1163748011434 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163748011435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748011436 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 1163748011437 dimerization interface [polypeptide binding]; other site 1163748011438 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163748011439 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 1163748011440 putative active site pocket [active] 1163748011441 dimerization interface [polypeptide binding]; other site 1163748011442 putative catalytic residue [active] 1163748011443 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1163748011444 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163748011445 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 1163748011446 RNA binding surface [nucleotide binding]; other site 1163748011447 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1163748011448 probable active site [active] 1163748011449 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1163748011450 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1163748011451 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1163748011452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1163748011453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163748011454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748011455 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163748011456 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 1163748011457 putative active site [active] 1163748011458 putative FMN binding site [chemical binding]; other site 1163748011459 putative substrate binding site [chemical binding]; other site 1163748011460 putative catalytic residue [active] 1163748011461 Predicted transcriptional regulators [Transcription]; Region: COG1733 1163748011462 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1163748011463 OmpW family; Region: OmpW; cl17427 1163748011464 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1163748011465 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 1163748011466 ATP binding site [chemical binding]; other site 1163748011467 Mg++ binding site [ion binding]; other site 1163748011468 motif III; other site 1163748011469 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 1163748011470 nucleotide binding region [chemical binding]; other site 1163748011471 ATP-binding site [chemical binding]; other site 1163748011472 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1163748011473 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 1163748011474 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163748011475 catalytic residues [active] 1163748011476 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1163748011477 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1163748011478 DNA binding residues [nucleotide binding] 1163748011479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163748011480 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1163748011481 NAD(P) binding site [chemical binding]; other site 1163748011482 active site 1163748011483 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1163748011484 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1163748011485 Uncharacterized conserved protein [Function unknown]; Region: COG3461 1163748011486 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1163748011487 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1163748011488 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1163748011489 active site 1163748011490 Zn binding site [ion binding]; other site 1163748011491 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1163748011492 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1163748011493 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163748011494 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163748011495 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1163748011496 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 1163748011497 catalytic residue [active] 1163748011498 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 1163748011499 catalytic residues [active] 1163748011500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163748011501 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163748011502 peroxiredoxin; Region: AhpC; TIGR03137 1163748011503 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 1163748011504 dimer interface [polypeptide binding]; other site 1163748011505 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1163748011506 catalytic triad [active] 1163748011507 peroxidatic and resolving cysteines [active] 1163748011508 BCCT family transporter; Region: BCCT; cl00569 1163748011509 choline dehydrogenase; Validated; Region: PRK02106 1163748011510 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163748011511 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1163748011512 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1163748011513 tetrameric interface [polypeptide binding]; other site 1163748011514 NAD binding site [chemical binding]; other site 1163748011515 catalytic residues [active] 1163748011516 transcriptional regulator BetI; Validated; Region: PRK00767 1163748011517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163748011518 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1163748011519 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1163748011520 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 1163748011521 substrate binding site [chemical binding]; other site 1163748011522 oxyanion hole (OAH) forming residues; other site 1163748011523 trimer interface [polypeptide binding]; other site 1163748011524 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1163748011525 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1163748011526 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011528 metal binding site [ion binding]; metal-binding site 1163748011529 active site 1163748011530 I-site; other site 1163748011531 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 1163748011532 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1163748011533 Cytochrome P450; Region: p450; cl12078 1163748011534 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 1163748011535 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1163748011536 catalytic loop [active] 1163748011537 iron binding site [ion binding]; other site 1163748011538 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1163748011539 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163748011540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748011541 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1163748011542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011544 metal binding site [ion binding]; metal-binding site 1163748011545 active site 1163748011546 I-site; other site 1163748011547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163748011548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163748011549 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 1163748011550 dimerization interface [polypeptide binding]; other site 1163748011551 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163748011552 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 1163748011553 active site 1163748011554 metal binding site [ion binding]; metal-binding site 1163748011555 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 1163748011556 active site 1163748011557 YcxB-like protein; Region: YcxB; pfam14317 1163748011558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163748011559 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163748011560 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163748011561 FRG domain; Region: FRG; pfam08867 1163748011562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163748011563 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163748011564 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163748011565 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1163748011566 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 1163748011567 active site 1163748011568 motif I; other site 1163748011569 motif II; other site 1163748011570 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1163748011571 Putative transposase; Region: Y2_Tnp; pfam04986 1163748011572 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1163748011573 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 1163748011574 active site 1163748011575 DNA binding site [nucleotide binding] 1163748011576 Int/Topo IB signature motif; other site 1163748011577 Calcium-activated chloride channel; Region: CLCA_N; pfam08434 1163748011578 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1163748011579 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1163748011580 putative ligand binding site [chemical binding]; other site 1163748011581 putative NAD binding site [chemical binding]; other site 1163748011582 catalytic site [active] 1163748011583 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1163748011584 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1163748011585 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163748011586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748011587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163748011588 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1163748011589 CHASE2 domain; Region: CHASE2; cl01732 1163748011590 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1163748011591 dimer interface [polypeptide binding]; other site 1163748011592 putative radical transfer pathway; other site 1163748011593 diiron center [ion binding]; other site 1163748011594 tyrosyl radical; other site 1163748011595 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1163748011596 ATP cone domain; Region: ATP-cone; pfam03477 1163748011597 ATP cone domain; Region: ATP-cone; pfam03477 1163748011598 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1163748011599 active site 1163748011600 dimer interface [polypeptide binding]; other site 1163748011601 catalytic residues [active] 1163748011602 effector binding site; other site 1163748011603 R2 peptide binding site; other site 1163748011604 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 1163748011605 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 1163748011606 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1163748011607 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1163748011608 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 1163748011609 Walker A motif; other site 1163748011610 ATP binding site [chemical binding]; other site 1163748011611 Walker B motif; other site 1163748011612 arginine finger; other site 1163748011613 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163748011614 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1163748011615 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1163748011616 multimer interface [polypeptide binding]; other site 1163748011617 active site 1163748011618 catalytic triad [active] 1163748011619 dimer interface [polypeptide binding]; other site 1163748011620 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1163748011621 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1163748011622 Walker A/P-loop; other site 1163748011623 ATP binding site [chemical binding]; other site 1163748011624 Q-loop/lid; other site 1163748011625 ABC transporter signature motif; other site 1163748011626 Walker B; other site 1163748011627 D-loop; other site 1163748011628 H-loop/switch region; other site 1163748011629 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1163748011630 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1163748011631 Walker A/P-loop; other site 1163748011632 ATP binding site [chemical binding]; other site 1163748011633 Q-loop/lid; other site 1163748011634 ABC transporter signature motif; other site 1163748011635 Walker B; other site 1163748011636 D-loop; other site 1163748011637 H-loop/switch region; other site 1163748011638 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1163748011639 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 1163748011640 TM-ABC transporter signature motif; other site 1163748011641 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1163748011642 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 1163748011643 TM-ABC transporter signature motif; other site 1163748011644 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1163748011645 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1163748011646 putative ligand binding site [chemical binding]; other site 1163748011647 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1163748011648 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 1163748011649 dimer interface [polypeptide binding]; other site 1163748011650 phosphorylation site [posttranslational modification] 1163748011651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1163748011652 ATP binding site [chemical binding]; other site 1163748011653 Mg2+ binding site [ion binding]; other site 1163748011654 G-X-G motif; other site 1163748011655 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163748011656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011657 active site 1163748011658 phosphorylation site [posttranslational modification] 1163748011659 intermolecular recognition site; other site 1163748011660 dimerization interface [polypeptide binding]; other site 1163748011661 Response regulator receiver domain; Region: Response_reg; pfam00072 1163748011662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1163748011663 active site 1163748011664 phosphorylation site [posttranslational modification] 1163748011665 intermolecular recognition site; other site 1163748011666 dimerization interface [polypeptide binding]; other site 1163748011667 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 1163748011668 DNA binding residues [nucleotide binding] 1163748011669 dimerization interface [polypeptide binding]; other site 1163748011670 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163748011671 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 1163748011672 substrate binding pocket [chemical binding]; other site 1163748011673 membrane-bound complex binding site; other site 1163748011674 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1163748011675 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1163748011676 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1163748011677 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 1163748011678 putative active site [active] 1163748011679 PAS fold; Region: PAS_3; pfam08447 1163748011680 heme pocket [chemical binding]; other site 1163748011681 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 1163748011682 PAS domain; Region: PAS_9; pfam13426 1163748011683 putative active site [active] 1163748011684 heme pocket [chemical binding]; other site 1163748011685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011687 metal binding site [ion binding]; metal-binding site 1163748011688 active site 1163748011689 I-site; other site 1163748011690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163748011691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163748011692 active site 1163748011693 I-site; other site 1163748011694 metal binding site [ion binding]; metal-binding site 1163748011695 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 1163748011696 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 1163748011697 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1163748011698 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 1163748011699 glutaminase active site [active] 1163748011700 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 1163748011701 dimer interface [polypeptide binding]; other site 1163748011702 active site 1163748011703 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 1163748011704 dimer interface [polypeptide binding]; other site 1163748011705 active site 1163748011706 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1163748011707 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1163748011708 Substrate binding site; other site 1163748011709 Mg++ binding site; other site 1163748011710 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 1163748011711 active site 1163748011712 substrate binding site [chemical binding]; other site 1163748011713 CoA binding site [chemical binding]; other site 1163748011714 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1163748011715 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1163748011716 gamma subunit interface [polypeptide binding]; other site 1163748011717 epsilon subunit interface [polypeptide binding]; other site 1163748011718 LBP interface [polypeptide binding]; other site 1163748011719 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1163748011720 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163748011721 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 1163748011722 alpha subunit interaction interface [polypeptide binding]; other site 1163748011723 Walker A motif; other site 1163748011724 ATP binding site [chemical binding]; other site 1163748011725 Walker B motif; other site 1163748011726 inhibitor binding site; inhibition site 1163748011727 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163748011728 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1163748011729 core domain interface [polypeptide binding]; other site 1163748011730 delta subunit interface [polypeptide binding]; other site 1163748011731 epsilon subunit interface [polypeptide binding]; other site 1163748011732 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1163748011733 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163748011734 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 1163748011735 beta subunit interaction interface [polypeptide binding]; other site 1163748011736 Walker A motif; other site 1163748011737 ATP binding site [chemical binding]; other site 1163748011738 Walker B motif; other site 1163748011739 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163748011740 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1163748011741 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1163748011742 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1163748011743 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1163748011744 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1163748011745 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1163748011746 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1163748011747 ATP synthase I chain; Region: ATP_synt_I; cl09170 1163748011748 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1163748011749 ParB-like nuclease domain; Region: ParBc; pfam02195 1163748011750 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 1163748011751 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163748011752 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 1163748011753 P-loop; other site 1163748011754 Magnesium ion binding site [ion binding]; other site 1163748011755 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 1163748011756 Magnesium ion binding site [ion binding]; other site 1163748011757 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1163748011758 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1163748011759 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1163748011760 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1163748011761 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1163748011762 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 1163748011763 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163748011764 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163748011765 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163748011766 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163748011767 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1163748011768 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163748011769 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163748011770 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163748011771 active site 1163748011772 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163748011773 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1163748011774 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1163748011775 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 1163748011776 substrate binding pocket [chemical binding]; other site 1163748011777 membrane-bound complex binding site; other site 1163748011778 hinge residues; other site 1163748011779 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1163748011780 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1163748011781 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1163748011782 G1 box; other site 1163748011783 GTP/Mg2+ binding site [chemical binding]; other site 1163748011784 Switch I region; other site 1163748011785 G2 box; other site 1163748011786 Switch II region; other site 1163748011787 G3 box; other site 1163748011788 G4 box; other site 1163748011789 G5 box; other site 1163748011790 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1163748011791 membrane protein insertase; Provisional; Region: PRK01318 1163748011792 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1163748011793 Ribonuclease P; Region: Ribonuclease_P; cl00457 1163748011794 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399