3RK2 Membrane Protein Exocytosis date Apr 17, 2011
title Truncated Snare Complex
authors D.Kuemmel, K.M.Reinisch
compound source
Molecule: Vesicle-Associated Membrane Protein 2
Chain: A, E
Fragment: Unp Residues 28-60
Synonym: Vamp-2, Synaptobrevin-2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vamp2, Syb2
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Syntaxin-1a
Chain: B, F
Fragment: Unp Residues 191-253
Synonym: Neuron-Specific Antigen Hpc-1, Synaptotagmin-Assoc Kda Protein, P35a;
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Brown Rat,Rat,Rats
Organism_taxid: 10116
Gene: Stx1a, Sap
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Synaptosomal-Associated Protein 25
Chain: C, G
Fragment: Unp Residues 7-82
Synonym: Snap-25, Super Protein, Sup, Synaptosomal-Associat Protein;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snap25, Snap
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Synaptosomal-Associated Protein 25
Chain: D, H
Fragment: Unp Residues 141-203
Synonym: Snap-25, Super Protein, Sup, Synaptosomal-Associat Protein;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snap25, Snap
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.227 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
27.627 39.769 102.275 83.38 89.94 89.87
method X-Ray Diffractionresolution 2.20 Å
ligand CA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


F, B


H, C, D, G


Primary referenceComplexin cross-links prefusion SNAREs into a zigzag array., Kummel D, Krishnakumar SS, Radoff DT, Li F, Giraudo CG, Pincet F, Rothman JE, Reinisch KM, Nat Struct Mol Biol. 2011 Jul 24;18(8):927-33. doi: 10.1038/nsmb.2101. PMID:21785414
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk]
  • Biological Unit Coordinates (3rk2.pdb1.gz) 80 Kb
  • Biological Unit Coordinates (3rk2.pdb2.gz) 81 Kb
  • LPC: Ligand-Protein Contacts for 3RK2
  • CSU: Contacts of Structural Units for 3RK2
  • Structure Factors (537 Kb)
  • Retrieve 3RK2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RK2 from S2C, [Save to disk]
  • Re-refined 3rk2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RK2 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 3RK2
  • 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 3RK2, from MSDmotif at EBI
  • Fold representative 3rk2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rk2_D] [3rk2] [3rk2_C] [3rk2_H] [3rk2_F] [3rk2_A] [3rk2_G] [3rk2_E] [3rk2_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3RK2: [t_SNARE ] by SMART
  • Other resources with information on 3RK2
  • Community annotation for 3RK2 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science