5JKI Hydrolase date Apr 26, 2016
title Crystal Structure Of The First Transmembrane Pap2 Type Phosphatidylglycerolphosphate Phosphatase From Bacillus Sub
authors M.El Ghachi, N.Howe, A.Lampion, F.Delbrassine, L.Vogeley, M.Caffr E.Sauvage, R.Auger, A.Guiseppe, S.Roure, S.Perlier, D.Mengin-Lec M.Foglino, T.Touze
compound source
Molecule: Putative Lipid Phosphate Phosphatase Yodm
Chain: A
Ec: 3.1.3.-
Engineered: Yes
Organism_scientific: Bacillus Subtilis (Strain 168)
Organism_taxid: 224308
Strain: 168
Gene: Yodm, Bsu19650
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: C43
Expression_system_vector_type: Plasmide
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: I 2 2 2
R_factor 0.201 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.066 76.961 99.629 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand OLC, UNL, WO4 enzyme Hydrolase E.C.3.1.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • phosphatidylglycerophosphata...


  • Primary referenceCrystal structure and biochemical characterization of the transmembrane PAP2 type phosphatidylglycerol phosphate phosphatase from Bacillus subtilis., Ghachi ME, Howe N, Auger R, Lambion A, Guiseppi A, Delbrassine F, Manat G, Roure S, Peslier S, Sauvage E, Vogeley L, Rengifo-Gonzalez JC, Charlier P, Mengin-Lecreulx D, Foglino M, Touze T, Caffrey M, Kerff F, Cell Mol Life Sci. 2017 Feb 6. doi: 10.1007/s00018-017-2464-6. PMID:28168443
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (5jki.pdb1.gz) 67 Kb
  • LPC: Ligand-Protein Contacts for 5JKI
  • CSU: Contacts of Structural Units for 5JKI
  • Structure Factors (257 Kb)
  • Retrieve 5JKI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JKI from S2C, [Save to disk]
  • Re-refined 5jki structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
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  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5JKI
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jki] [5jki_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5JKI
  • Community annotation for 5JKI at PDBWiki (http://pdbwiki.org)

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