4Q66

Structure of Exomer bound to Arf1.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å
  • R-Value Free: 0.310 
  • R-Value Work: 0.279 
  • R-Value Observed: 0.280 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis for membrane binding and remodeling by the exomer secretory vesicle cargo adaptor.

Paczkowski, J.E.Fromme, J.C.

(2014) Dev Cell 30: 610-624

  • DOI: 10.1016/j.devcel.2014.07.014
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Cargo adaptor subunits of vesicle coat protein complexes sort transmembrane proteins to distinct membrane compartments in eukaryotic cells. The exomer complex is the only cargo adaptor known to sort proteins at the trans-Golgi network into secretory ...

    Cargo adaptor subunits of vesicle coat protein complexes sort transmembrane proteins to distinct membrane compartments in eukaryotic cells. The exomer complex is the only cargo adaptor known to sort proteins at the trans-Golgi network into secretory vesicles. Exomer function is regulated by the Arf1 GTPase, a master regulator of trafficking at the Golgi. We report the structure of exomer bound to two copies of Arf1. Exomer interacts with each Arf1 molecule via two surfaces, one of which is a noncanonical interface that regulates GTP hydrolysis. The structure uncovers an unexpected membrane-proximal hydrophobic element that exomer uses in cooperation with Arf1 to remodel membranes. Given the constrained motion of the exomer hinge region, we envision that exomer dynamically positions multiple membrane insertion elements to drive membrane fission. In contrast to other known cargo adaptors, exomer therefore couples two functions, cargo sorting and membrane fission, into a single complex.


    Organizational Affiliation

    Department of Molecular Biology and Genetics, Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA. Electronic address: jcf14@cornell.edu.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chs5pA, D, G, J368Saccharomyces cerevisiae R008Mutation(s): 0 
Gene Names: CAL3Chs5L8543.18R008_L12446YLR330W
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein BCH1B, E, H, K739Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: BCH1YMR237WYM9959.19
Find proteins for Q05029 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q05029 
Go to UniProtKB:  Q05029
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ADP-ribosylation factor 1C, F, I, L175Saccharomyces cerevisiae S288CMutation(s): 1 
Gene Names: ARF1YDL192WD1244
Find proteins for P11076 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P11076 
Go to UniProtKB:  P11076
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GNP
Query on GNP

Download CCD File 
C, F, I, L
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download CCD File 
C, F, I, L
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å
  • R-Value Free: 0.310 
  • R-Value Work: 0.279 
  • R-Value Observed: 0.280 
  • Space Group: P 1 21 1
  • Diffraction Data DOI: 10.15785/SBGRID/75 SBGrid
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 114.659α = 90
b = 208.168β = 105.48
c = 155.078γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHASERphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-09-17
    Type: Initial release
  • Version 1.1: 2014-12-31
    Changes: Database references