4B93 Exocytosis date Aug 31, 2012
title Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin Repeat Varp
authors I.B.Schaefer, D.J.Owen, J.P.Luzio, P.R.Evans
compound source
Molecule: Vesicle-Associated Membrane Protein 7
Chain: A
Fragment: Cytoplasmic Domain, Residues 1-188
Synonym: Vamp-7, Synaptobrevin-Like Protein 1
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta2 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Vamp7

Molecule: Ankyrin Repeat Domain-Containing Protein 27
Chain: B
Fragment: 2nd Ankyrin Repeat Domain, Residues 659-921
Synonym: Varp, Vps9 Domain-Containing Protein
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta2 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Varp658-921
symmetry Space Group: C 2 2 21
R_factor 0.213 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.570 122.660 158.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe binding of Varp to VAMP7 traps VAMP7 in a closed, fusogenically inactive conformation., Schafer IB, Hesketh GG, Bright NA, Gray SR, Pryor PR, Evans PR, Luzio JP, Owen DJ, Nat Struct Mol Biol. 2012 Dec;19(12):1300-9. doi: 10.1038/nsmb.2414. Epub 2012, Oct 28. PMID:23104059
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (4b93.pdb1.gz) 60 Kb
  • CSU: Contacts of Structural Units for 4B93
  • Structure Factors (5093 Kb)
  • Retrieve 4B93 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4B93 from S2C, [Save to disk]
  • Re-refined 4b93 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4B93 in 3D
  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4B93
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  • 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 4B93, from MSDmotif at EBI
  • Fold representative 4b93 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4b93] [4b93_B] [4b93_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4B93: [ANK] [Longin ] by SMART
  • Other resources with information on 4B93
  • Community annotation for 4B93 at PDBWiki (http://pdbwiki.org)
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