3VF0 Cell Adhesion Protein Binding date Jan 09, 2012
title Raver1 In Complex With Metavinculin L954 Deletion Mutant
authors J.H.Lee, C.Vonrhein, G.Bricogne, T.Izard
compound source
Molecule: Vinculin
Chain: A
Synonym: Metavinculin
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vcl
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21 (De3)

Molecule: Ribonucleoprotein Ptb-Binding 1
Chain: B
Synonym: Protein Raver-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Kiaa1978, Raver1
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21 (De3)
symmetry Space Group: P 65 2 2
R_factor 0.168 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
164.905 164.905 102.594 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.54 Å
ligand EPE, GOL enzyme
Primary referenceThe Metavinculin Tail Domain Directs Constitutive Interactions with Raver1 and vinculin RNA., Lee JH, Rangarajan ES, Vonrhein C, Bricogne G, Izard T, J Mol Biol. 2012 Jun 15. PMID:22709580
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (3vf0.pdb1.gz) 160 Kb
  • LPC: Ligand-Protein Contacts for 3VF0
  • CSU: Contacts of Structural Units for 3VF0
  • Structure Factors (532 Kb)
  • Retrieve 3VF0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VF0 from S2C, [Save to disk]
  • Re-refined 3vf0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VF0 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 3VF0
  • 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 3VF0, from MSDmotif at EBI
  • Fold representative 3vf0 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vf0_B] [3vf0_A] [3vf0]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3VF0: [RRM ] by SMART
  • Other resources with information on 3VF0
  • Community annotation for 3VF0 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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