3MZL

Sec13/Sec31 edge element, loop deletion mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.267 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the Sec13-Sec16 edge element, a template for assembly of the COPII vesicle coat.

Whittle, J.R.Schwartz, T.U.

(2010) J.Cell Biol. 190: 347-361

  • DOI: 10.1083/jcb.201003092
  • Primary Citation of Related Structures:  3MZK

  • PubMed Abstract: 
  • Ancestral coatomer element 1 (ACE1) proteins assemble latticework coats for COPII vesicles and the nuclear pore complex. The ACE1 protein Sec31 and Sec13 make a 2:2 tetramer that forms the edge element of the COPII outer coat. In this study, we repor ...

    Ancestral coatomer element 1 (ACE1) proteins assemble latticework coats for COPII vesicles and the nuclear pore complex. The ACE1 protein Sec31 and Sec13 make a 2:2 tetramer that forms the edge element of the COPII outer coat. In this study, we report that the COPII accessory protein Sec16 also contains an ACE1. The 165-kD crystal structure of the central domain of Sec16 in complex with Sec13 was solved at 2.7-A resolution. Sec16 and Sec13 also make a 2:2 tetramer, another edge element for the COPII system. Domain swapping at the ACE1-ACE1 interface is observed both in the prior structure of Sec13-Sec31 and in Sec13-Sec16. A Sec31 mutant in which domain swapping is prevented adopts an unprecedented laminated structure, solved at 2.8-A resolution. Our in vivo data suggest that the ACE1 element of Sec31 can functionally replace the ACE1 element of Sec16. Our data support Sec16 as a scaffold for the COPII system and a template for the Sec13-Sec31 coat.


    Organizational Affiliation

    Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein transport protein SEC13
A, C, E, G
297Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: SEC13 (ANU3)
Find proteins for Q04491 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: SEC13
Go to UniProtKB:  Q04491
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein transport protein SEC31
B, D, F, H
345Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: SEC31 (WEB1)
Find proteins for P38968 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P38968
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.267 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 156.220α = 90.00
b = 46.620β = 93.48
c = 192.000γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PHASERphasing
XDSdata reduction
XSCALEdata scaling
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-08-18
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-08-02
    Type: Data collection, Refinement description, Source and taxonomy