2VX8 Endocytosis,Exocytosis date Jul 01, 2008
title Vamp7 Longin Domain Hrb Peptide Complex
authors P.R.Evans, D.J.Owen, J.P.Luzio
compound source
Molecule: Nucleoporin-Like Protein Rip, Vesicle-Associated Protein 7;
Chain: A, B, C, D
Fragment: Hrb, Residues 136-175, Vamp7 Longin Domain, Resid
Synonym: Hrb, Hiv-1 Rev-Binding Protein, Rev-Interacting Pr Revrex Activation Domain-Binding Protein, Vamp7, Vamp-7, Synaptobrevin-Like Protein 1;
Engineered: Yes
Other_details: Chimera Of Human Hrb And Mouse Vamp7
Organism_scientific: Homo Sapiens, Mus Musculus
Organism_common: Human, Mouse
Organism_taxid: 9606, 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_plasmid: Pgex 4t-2
symmetry Space Group: P 21 21 2
R_factor 0.220 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.514 115.102 55.440 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CL enzyme
Primary referenceMolecular basis for the sorting of the SNARE VAMP7 into endocytic clathrin-coated vesicles by the ArfGAP Hrb., Pryor PR, Jackson L, Gray SR, Edeling MA, Thompson A, Sanderson CM, Evans PR, Owen DJ, Luzio JP, Cell. 2008 Sep 5;134(5):817-27. PMID:18775314
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (2vx8.pdb1.gz) 46 Kb
  • Biological Unit Coordinates (2vx8.pdb2.gz) 24 Kb
  • Biological Unit Coordinates (2vx8.pdb3.gz) 24 Kb
  • Biological Unit Coordinates (2vx8.pdb4.gz) 23 Kb
  • Biological Unit Coordinates (2vx8.pdb5.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 2VX8
  • CSU: Contacts of Structural Units for 2VX8
  • Likely Quarternary Molecular Structure file(s) for 2VX8
  • Structure Factors (729 Kb)
  • Retrieve 2VX8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VX8 from S2C, [Save to disk]
  • Re-refined 2vx8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VX8 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 2VX8
  • 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 2VX8, from MSDmotif at EBI
  • Fold representative 2vx8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vx8_A] [2vx8_D] [2vx8_C] [2vx8] [2vx8_B]
  • SWISS-PROT database: [P52594] [P51809]
  • Domain organization of [AGFG1_HUMAN] [VAMP7_HUMAN] by SWISSPFAM
  • Domain found in 2VX8: [Longin ] by SMART
  • Other resources with information on 2VX8
  • Community annotation for 2VX8 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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