3S4R Structural Protein date May 20, 2011
title Crystal Structure Of Vimentin Coil1a1b Fragment With A Stab Mutation
authors A.A.Chernyatina, S.V.Strelkov
compound source
Molecule: Vimentin
Chain: A, B
Fragment: Coil 1a1b Fragment (Unp Residues 99-189)
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Flj36605, Vim
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppep-Tev
symmetry Space Group: H 3 2
R_factor 0.292 R_Free 0.315
length a length b length c angle alpha angle beta angle gamma
65.329 65.329 377.339 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.45 Å
ligand GOL enzyme
A, B

Primary referenceAtomic structure of the vimentin central alpha-helical domain and its implications for intermediate filament assembly., Chernyatina AA, Nicolet S, Aebi U, Herrmann H, Strelkov SV, Proc Natl Acad Sci U S A. 2012 Aug 21;109(34):13620-5. doi:, 10.1073/pnas.1206836109. Epub 2012 Aug 6. PMID:22869704
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk]
  • Biological Unit Coordinates (3s4r.pdb1.gz) 32 Kb
  • LPC: Ligand-Protein Contacts for 3S4R
  • CSU: Contacts of Structural Units for 3S4R
  • Structure Factors (234 Kb)
  • Retrieve 3S4R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3S4R from S2C, [Save to disk]
  • Re-refined 3s4r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3S4R 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 3S4R
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3S4R, from MSDmotif at EBI
  • Fold representative 3s4r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3s4r_A] [3s4r] [3s4r_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3S4R
  • Community annotation for 3S4R at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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