1MQS

Crystal structure of Sly1p in complex with an N-terminal peptide of Sed5p


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.257 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structural basis for the Golgi membrane recruitment of Sly1p by Sed5p

Bracher, A.Weissenhorn, W.

(2002) Embo J. 21: 6114-6124


  • PubMed Abstract: 
  • Cytosolic Sec1/munc18-like proteins (SM proteins) are recruited to membrane fusion sites by interaction with syntaxin-type SNARE proteins, constituting indispensable positive regulators of intracellular membrane fusion. Here we present the crystal st ...

    Cytosolic Sec1/munc18-like proteins (SM proteins) are recruited to membrane fusion sites by interaction with syntaxin-type SNARE proteins, constituting indispensable positive regulators of intracellular membrane fusion. Here we present the crystal structure of the yeast SM protein Sly1p in complex with a short N-terminal peptide derived from the Golgi-resident syntaxin Sed5p. Sly1p folds, similarly to neuronal Sec1, into a three-domain arch-shaped assembly, and Sed5p interacts in a helical conformation predominantly with domain I of Sly1p on the opposite site of the nSec1/syntaxin-1-binding site. Sequence conservation of the major interactions suggests that homologues of Sly1p as well as the paralogous Vps45p group bind their respective syntaxins in the same way. Furthermore, we present indirect evidence that nSec1 might be able to contact syntaxin 1 in a similar fashion. The observed Sly1p-Sed5p interaction mode therefore indicates how SM proteins can stay associated with the assembling fusion machinery in order to participate in late fusion steps.


    Related Citations: 
    • Crystal structures of neuronal squid Sec1 implicate inter-domain hinge movement in the release of t-SNAREs
      Bracher, A.,Weissenhorn, W.
      (2001) J.Mol.Biol. 306: 7
    • Three-dimensional structure of the neuronal-Sec1-syntaxin 1a complex
      Misura, K.M.S.,Scheller, R.H.,Weis, W.I.
      (2000) Nature 404: 355
    • The X-ray crystal structure of neuronal Sec1 from squid sheds new light on the role of this protein in exocytosis
      Bracher, A.,Perrakis, A.,Dresbach, T.,Betz, H.,Weissenhorn, W.
      (2000) Structure 8: 685


    Organizational Affiliation

    European Molecular Biology Laboratory, 6 rue Jules Horowitz, 38042 Grenoble, France. bracher@embl-grenoble.fr




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Sly1 Protein
A
671Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SLY1
Find proteins for P22213 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P22213
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Integral Membrane Protein SED5
B
50Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SED5
Find proteins for Q01590 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q01590
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.257 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 161.056α = 90.00
b = 161.056β = 90.00
c = 88.209γ = 90.00
Software Package:
Software NamePurpose
SnBphasing
SCALEPACKdata scaling
DENZOdata reduction
RESOLVEphasing
CNSrefinement
SOLVEphasing
RESOLVEmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-11-20
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description