5MDR Sugar Binding Protein date Nov 13, 2016
title Crystal Structure Of In Vitro Folded Chitoporin Vhchip From Harveyi In Complex With Chitohexaose
authors M.Zahn, B.Van Den Berg
compound source
Molecule: Chitoporin
Chain: A, B, C, D, E, F
Engineered: Yes
 Organism_scientific: Vibrio Harveyi
Organism_taxid: 669
Gene: Chip
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.172 R_Free 0.184
crystal
cell
length a length b length c angle alpha angle beta angle gamma
146.552 121.941 147.155 90.00 117.92 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand C8E, MSE, NA, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructural basis for chitin acquisition by marine Vibrio species., Aunkham A, Zahn M, Kesireddy A, Pothula KR, Schulte A, Basle A, Kleinekathofer U, Suginta W, van den Berg B, Nat Commun. 2018 Jan 15;9(1):220. doi: 10.1038/s41467-017-02523-y. PMID:29335469
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (710 Kb) [Save to disk]
  • Biological Unit Coordinates (5mdr.pdb1.gz) 350 Kb
  • Biological Unit Coordinates (5mdr.pdb2.gz) 349 Kb
  • LPC: Ligand-Protein Contacts for 5MDR
  • CSU: Contacts of Structural Units for 5MDR
  • Structure Factors (15558 Kb)
  • Retrieve 5MDR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MDR from S2C, [Save to disk]
    • View 5MDR 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 5MDR
  • 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: [5mdr_F] [5mdr_D] [5mdr_E] [5mdr_B] [5mdr_C] [5mdr_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5MDR
  • Community annotation for 5MDR at PDBWiki (http://pdbwiki.org)

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