4HPQ

Crystal Structure of the Atg17-Atg31-Atg29 Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.336 
  • R-Value Work: 0.303 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Architecture of the atg17 complex as a scaffold for autophagosome biogenesis.

Ragusa, M.J.Stanley, R.E.Hurley, J.H.

(2012) Cell 151: 1501-1512

  • DOI: 10.1016/j.cell.2012.11.028

  • PubMed Abstract: 
  • Macroautophagy is a bulk clearance mechanism in which the double-membraned phagophore grows and engulfs cytosolic material. In yeast, the phagophore nucleates from a cluster of 20-30 nm diameter Atg9-containing vesicles located at a multiprotein asse ...

    Macroautophagy is a bulk clearance mechanism in which the double-membraned phagophore grows and engulfs cytosolic material. In yeast, the phagophore nucleates from a cluster of 20-30 nm diameter Atg9-containing vesicles located at a multiprotein assembly known as the preautophagosomal structure (PAS). The crystal structure of a 2:2:2 complex of the earliest acting PAS proteins, Atg17, Atg29, and Atg31, was solved at 3.05 Å resolution. Atg17 is crescent shaped with a 10 nm radius of curvature. Dimerization of the Atg17-Atg31-Atg29 complex is critical for both PAS formation and autophagy, and each dimer contains two separate and complete crescents. Upon induction of autophagy, Atg17-Atg31-Atg29 assembles with Atg1 and Atg13, which in turn initiates the formation of the phagophore. The C-terminal EAT domain of Atg1 was shown to sense membrane curvature, dimerize, and tether lipid vesicles. These data suggest a structural mechanism for the organization of Atg9 vesicles into the early phagophore.


    Organizational Affiliation

    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Atg29
A, D
69Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)Mutation(s): 0 
Find proteins for C5DF24 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284))
Go to UniProtKB:  C5DF24
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Atg31
B, E
159Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)Mutation(s): 2 
Find proteins for C5DEB9 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284))
Go to UniProtKB:  C5DEB9
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Atg17
C, F
413Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)Mutation(s): 0 
Find proteins for C5DFJ6 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284))
Go to UniProtKB:  C5DFJ6
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
A, D
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.336 
  • R-Value Work: 0.303 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 144.370α = 90.00
b = 64.200β = 110.79
c = 184.210γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data reduction
HKL-2000data collection
SOLVEphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-12-26
    Type: Initial release
  • Version 1.1: 2013-01-09
    Type: Database references
  • Version 1.2: 2018-01-10
    Type: Source and taxonomy, Structure summary
  • Version 1.3: 2018-01-24
    Type: Structure summary