1SFC

NEURONAL SYNAPTIC FUSION COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.265 
  • R-Value Observed: 0.265 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal structure of a SNARE complex involved in synaptic exocytosis at 2.4 A resolution.

Sutton, R.B.Fasshauer, D.Jahn, R.Brunger, A.T.

(1998) Nature 395: 347-353

  • DOI: 10.1038/26412
  • Primary Citation of Related Structures:  
    1SFC

  • PubMed Abstract: 
  • The evolutionarily conserved SNARE proteins and their complexes are involved in the fusion of vesicles with their target membranes; however, the overall organization and structural details of these complexes are unknown. Here we report the X-ray crystal structure at 2 ...

    The evolutionarily conserved SNARE proteins and their complexes are involved in the fusion of vesicles with their target membranes; however, the overall organization and structural details of these complexes are unknown. Here we report the X-ray crystal structure at 2.4 A resolution of a core synaptic fusion complex containing syntaxin-1 A, synaptobrevin-II and SNAP-25B. The structure reveals a highly twisted and parallel four-helix bundle that differs from the bundles described for the haemagglutinin and HIV/SIV gp41 membrane-fusion proteins. Conserved leucine-zipper-like layers are found at the centre of the synaptic fusion complex. Embedded within these leucine-zipper layers is an ionic layer consisting of an arginine and three glutamine residues contributed from each of the four alpha-helices. These residues are highly conserved across the entire SNARE family. The regions flanking the leucine-zipper-like layers contain a hydrophobic core similar to that of more general four-helix-bundle proteins. The surface of the synaptic fusion complex is highly grooved and possesses distinct hydrophilic, hydrophobic and charged regions. These characteristics may be important for membrane fusion and for the binding of regulatory factors affecting neurotransmission.


    Organizational Affiliation

    The Howard Hughes Medical Institute, Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SYNAPTOBREVIN 2)A, E, I96Rattus norvegicusMutation(s): 0 
Gene Names: Vamp2Syb2
UniProt
Find proteins for P63045 (Rattus norvegicus)
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Go to UniProtKB:  P63045
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SYNTAXIN 1A)B, F, J83Rattus norvegicusMutation(s): 0 
Gene Names: Stx1aSap
UniProt
Find proteins for P32851 (Rattus norvegicus)
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SNAP-25B)C, G, K83Rattus norvegicusMutation(s): 0 
Gene Names: Snap25Snap
UniProt
Find proteins for P60881 (Rattus norvegicus)
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (SNAP-25B)D, H, L87Rattus norvegicusMutation(s): 0 
Gene Names: Snap25Snap
UniProt
Find proteins for P60881 (Rattus norvegicus)
Explore P60881 
Go to UniProtKB:  P60881
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD

Download Ideal Coordinates CCD File 
AA [auth G], BA [auth I], EA [auth K], FA [auth K], O [auth A], P [auth A], W [auth F](4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
 Ligand Interaction
SR
Query on SR

Download Ideal Coordinates CCD File 
CA [auth J] , DA [auth K] , M [auth A] , N [auth A] , Q [auth B] , R [auth C] , S [auth C] , T [auth D] , 
CA [auth J],  DA [auth K],  M [auth A],  N [auth A],  Q [auth B],  R [auth C],  S [auth C],  T [auth D],  U [auth F],  V [auth F],  X [auth G],  Y [auth G],  Z [auth G]
STRONTIUM ION
Sr
PWYYWQHXAPXYMF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.265 
  • R-Value Observed: 0.265 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 98.715α = 90
b = 111.071β = 90
c = 198.844γ = 90
Software Package:
Software NamePurpose
CNSrefinement
d*TREKdata reduction
DENZOdata reduction
d*TREKdata scaling
SCALEPACKdata scaling
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-10-28
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2013-10-23
    Changes: Derived calculations