4FMF Crystal structure of human nectin-1 full ectodomain (D1-D3) date 2012-06-16
authors Harrison, O.J., Brasch, J., Shapiro, L.
compound source
symmetry
R_factor
R_Free 0.25841
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.20
ligand FMT, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceNectin ectodomain structures reveal a canonical adhesive interface., Harrison OJ, Vendome J, Brasch J, Jin X, Hong S, Katsamba PS, Ahlsen G, Troyanovsky RB, Troyanovsky SM, Honig B, Shapiro L, Nat Struct Mol Biol. 2012 Aug 19. doi: 10.1038/nsmb.2366. PMID:22902367
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (410 Kb) [Save to disk]
  • Biological Unit Coordinates (4fmf.pdb1.gz) 202 Kb
  • Biological Unit Coordinates (4fmf.pdb2.gz) 202 Kb
  • LPC: Ligand-Protein Contacts for 4FMF
  • CSU: Contacts of Structural Units for 4FMF
  • Structure Factors (448 Kb)
  • Retrieve 4FMF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FMF from S2C, [Save to disk]
  • Re-refined 4fmf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4FMF 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 4FMF
  • 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 4FMF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fmf_B] [4fmf_A] [4fmf] [4fmf_D] [4fmf_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4FMF: [IG_like] [IGv ] by SMART
    • Other resources with information on 4FMF
  • Community annotation for 4FMF at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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