3D5K Membrane Protein date May 16, 2008
title Crystal Structure Of The Oprm Channel In A Non-Symmetrical S
authors G.Phan, I.Broutin, A.Ducruix
compound source
Molecule: Outer Membrane Protein Oprm
Chain: A, B, C
Synonym: Oprm
Engineered: Yes
Organism_scientific: Pseudomonas Aeruginosa
Organism_taxid: 287
Strain: Pao1
Gene: Oprm, Oprk, Pa0427
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: C43
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbad33
symmetry Space Group: P 21 21 21
R_factor 0.236 R_Free 0.293
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.900 70.200 344.500 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand CL, NA, SCY enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B
  • xenobiotic transmembrane tra...


  • Primary referenceStructural and dynamical insights into the opening mechanism of P. aeruginosa OprM channel., Phan G, Benabdelhak H, Lascombe MB, Benas P, Rety S, Picard M, Ducruix A, Etchebest C, Broutin I, Structure. 2010 Mar 14;18(4):507-17. PMID:20399187
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (221 Kb) [Save to disk]
  • Biological Unit Coordinates (3d5k.pdb1.gz) 215 Kb
  • LPC: Ligand-Protein Contacts for 3D5K
  • CSU: Contacts of Structural Units for 3D5K
  • Likely Quarternary Molecular Structure file(s) for 3D5K
  • Structure Factors (1066 Kb)
  • Retrieve 3D5K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3D5K from S2C, [Save to disk]
  • Re-refined 3d5k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3D5K in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3D5K
  • 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
  • 3D motif for 3D5K, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3d5k_A] [3d5k_C] [3d5k_B] [3d5k]
  • SWISS-PROT database: [Q51487]
  • Belongs to the resistance-nodulation-cell division (rnd) superfamily according to TCDB.
  • Domain organization of [OPRM_PSEAE] by SWISSPFAM
  • Other resources with information on 3D5K
  • Community annotation for 3D5K at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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