3SY9 Membrane Protein date Jul 16, 2011
title Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
authors B.Van Den Berg, E.Eren
compound source
Molecule: Histidine Porin Opdc
Chain: A, B, C, D
Engineered: Yes
Organism_scientific: Pseudomonas Aeruginosa
Organism_taxid: 287
Gene: Opdc, Pa0162
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.217 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.353 102.828 101.696 77.67 62.57 62.95
method X-Ray Diffractionresolution 2.80 Å
ligand BOG, C8E enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • channel activity
  • porin activity


  • Primary referenceSubstrate Specificity within a Family of Outer Membrane Carboxylate Channels., Eren E, Vijayaraghavan J, Liu J, Cheneke BR, Touw DS, Lepore BW, Indic M, Movileanu L, van den Berg B, PLoS Biol. 2012 Jan;10(1):e1001242. Epub 2012 Jan 17. PMID:22272184
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (492 Kb) [Save to disk]
  • Biological Unit Coordinates (3sy9.pdb1.gz) 125 Kb
  • Biological Unit Coordinates (3sy9.pdb2.gz) 126 Kb
  • Biological Unit Coordinates (3sy9.pdb3.gz) 120 Kb
  • Biological Unit Coordinates (3sy9.pdb4.gz) 120 Kb
  • LPC: Ligand-Protein Contacts for 3SY9
  • CSU: Contacts of Structural Units for 3SY9
  • Structure Factors (527 Kb)
  • Retrieve 3SY9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3SY9 from S2C, [Save to disk]
  • Re-refined 3sy9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3SY9 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 3SY9
  • 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 3SY9, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3sy9] [3sy9_C] [3sy9_A] [3sy9_D] [3sy9_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3SY9
  • Community annotation for 3SY9 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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