3RK3 Membrane Protein Exocytosis date Apr 17, 2011
title Truncated Snare Complex With Complexin
authors D.Kuemmel, K.M.Reinisch
compound source
Molecule: Vamp2
Chain: A
Fragment: Unp Residues 28-60
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Gene: Vamp2, Syb2
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Syntaxin 1a
Chain: B
Fragment: Unp Residues 191-253
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_taxid: 10116
Gene: Stx1a, Sap
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Snap25
Chain: C
Fragment: Unp Residues 7-82
Engineered: Yes

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

Molecule: Snap25
Chain: D
Fragment: Unp Residues 141-203
Engineered: Yes

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

Molecule: Complexin-1
Chain: E
Fragment: Unp Residues 26-83
Synonym: Complexin I, Cpx I, Synaphin-2
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cplx1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.270 R_Free 0.316
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.861 52.729 128.712 90.00 95.21 90.00
method X-Ray Diffractionresolution 3.50 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


D, C


E


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] (102 Kb) [Save to disk]
  • Biological Unit Coordinates (3rk3.pdb1.gz) 95 Kb
  • CSU: Contacts of Structural Units for 3RK3
  • Structure Factors (144 Kb)
  • Retrieve 3RK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RK3 from S2C, [Save to disk]
  • Re-refined 3rk3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RK3 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 3RK3
  • 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 3RK3, from MSDmotif at EBI
  • Fold representative 3rk3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rk3_B] [3rk3_C] [3rk3_A] [3rk3] [3rk3_D] [3rk3_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3RK3: [t_SNARE ] by SMART
  • Other resources with information on 3RK3
  • Community annotation for 3RK3 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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