3WBN Transport Protein Inhibitor date May 20, 2013
title Crystal Structure Of Mate In Complex With Mal6
authors Y.Tanaka, R.Ishitani, O.Nureki
compound source
Molecule: Putative Uncharacterized Protein
Chain: A
Engineered: Yes
Organism_scientific: Pyrococcus Furiosus
Organism_taxid: 186497
Strain: Jcm 8422
Gene: Pf0708
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: C41(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a

Molecule: Mal6
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: Selected By The Rapid System Protocol
symmetry Space Group: C 1 2 1
R_factor 0.187 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
152.728 59.828 68.034 90.00 91.34 90.00
method X-Ray Diffractionresolution 2.45 Å
ligand OLC enzyme
note 3WBN supersedes 3VVQ
Gene
Ontology
ChainFunctionProcessComponent
A
  • xenobiotic transmembrane tra...


  • Primary referenceStructural basis for the drug extrusion mechanism by a MATE multidrug transporter., Tanaka Y, Hipolito CJ, Maturana AD, Ito K, Kuroda T, Higuchi T, Katoh T, Kato HE, Hattori M, Kumazaki K, Tsukazaki T, Ishitani R, Suga H, Nureki O, Nature. 2013 Apr 11;496(7444):247-51. doi: 10.1038/nature12014. Epub 2013 Mar 27. PMID:23535598
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (147 Kb) [Save to disk]
  • Biological Unit Coordinates (3wbn.pdb1.gz) 141 Kb
  • LPC: Ligand-Protein Contacts for 3WBN
  • CSU: Contacts of Structural Units for 3WBN
  • Structure Factors (245 Kb)
  • Retrieve 3WBN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3WBN from S2C, [Save to disk]
  • Re-refined 3wbn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3WBN 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 3WBN
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3WBN, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3wbn] [3wbn_A] [3wbn_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3WBN
  • Community annotation for 3WBN at PDBWiki (http://pdbwiki.org)

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