6IP1 | pdb_00006ip1

alpha-SNAP-SNARE subcomplex in the whole 20S complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Mechanistic insights into the SNARE complex disassembly.

Huang, X.Sun, S.Wang, X.Fan, F.Zhou, Q.Lu, S.Cao, Y.Wang, Q.W.Dong, M.Q.Yao, J.Sui, S.F.

(2019) Sci Adv 5: eaau8164-eaau8164

  • DOI: https://doi.org/10.1126/sciadv.aau8164
  • Primary Citation Related Structures: 
    6IP1, 6IP2

  • PubMed Abstract: 

    NSF ( N -ethylmaleimide-sensitive factor) and α-SNAP (α-soluble NSF attachment protein) bind to the SNARE (soluble NSF attachment protein receptor) complex, the minimum machinery to mediate membrane fusion, to form a 20S complex, which disassembles the SNARE complex for reuse. We report the cryo-EM structures of the α-SNAP-SNARE subcomplex and the NSF-D1D2 domain in the 20S complex at 3.9- and 3.7-Å resolutions, respectively. Combined with the biochemical and electrophysiological analyses, we find that α-SNAPs use R116 through electrostatic interactions and L197 through hydrophobic interactions to apply force mainly on two positions of the VAMP protein to execute disassembly process. Furthermore, we define the interaction between the amino terminus of the SNARE helical bundle and the pore loop of the NSF-D1 domain and demonstrate its essential role as a potential anchor for SNARE complex disassembly. Our studies provide a rotation model of α-SNAP-mediated disassembly of the SNARE complex.


  • Organizational Affiliation
    • State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China.

Macromolecule Content 

  • Total Structure Weight: 199.94 kDa 
  • Atom Count: 11,245 
  • Modeled Residue Count: 1,420 
  • Deposited Residue Count: 1,772 
  • Unique protein chains: 5

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Vesicle-associated membrane protein 297Rattus norvegicusMutation(s): 0 
Gene Names: Vamp2
UniProt
Find proteins for P63045 (Rattus norvegicus)
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UniProt GroupP63045
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Syntaxin-1A254Rattus norvegicusMutation(s): 0 
Gene Names: Stx1a
UniProt
Find proteins for P32851 (Rattus norvegicus)
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UniProt GroupP32851
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Synaptosomal-associated protein 25102Rattus norvegicusMutation(s): 0 
Gene Names: Snap25
UniProt
Find proteins for P60881 (Rattus norvegicus)
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UniProt GroupP60881
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Synaptosomal-associated protein 2583Rattus norvegicusMutation(s): 0 
Gene Names: Snap25
UniProt
Find proteins for P60881 (Rattus norvegicus)
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UniProt GroupP60881
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Alpha-soluble NSF attachment protein
E, F, G, H
309Bos taurusMutation(s): 0 
Gene Names: NAPA
UniProt
Find proteins for P81125 (Bos taurus)
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UniProt GroupP81125
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-24
    Type: Initial release
  • Version 1.1: 2019-05-01
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-06
    Changes: Data collection, Other
  • Version 1.3: 2024-03-27
    Changes: Data collection, Database references