5EQX Cell Adhesion date Nov 13, 2015
title Crystal Structure Of Human Desmoglein-3 Ectodomain
authors O.J.Harrison, J.Brasch, L.Shapiro
compound source
Molecule: Desmoglein-3
Chain: A
Synonym: 130 Kda Pemphigus Vulgaris Antigen,Pva,Cadherin Fa Member 6;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dsg3, Cdhf6
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293
symmetry Space Group: P 1 2 1
R_factor 0.236 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.909 44.862 106.699 90.00 102.92 90.00
method X-Ray Diffractionresolution 3.05 Å
ligand CA, MAN, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of adhesive binding by desmocollins and desmogleins., Harrison OJ, Brasch J, Lasso G, Katsamba PS, Ahlsen G, Honig B, Shapiro L, Proc Natl Acad Sci U S A. 2016 Jun 28;113(26):7160-5. doi:, 10.1073/pnas.1606272113. Epub 2016 Jun 13. PMID:27298358
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (5eqx.pdb1.gz) 139 Kb
  • LPC: Ligand-Protein Contacts for 5EQX
  • CSU: Contacts of Structural Units for 5EQX
  • Structure Factors (187 Kb)
  • Retrieve 5EQX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EQX from S2C, [Save to disk]
  • Re-refined 5eqx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5EQX 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 5EQX
  • 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: [5eqx] [5eqx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5EQX: [CA ] by SMART
    • Other resources with information on 5EQX
  • Community annotation for 5EQX at PDBWiki (http://pdbwiki.org)

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