Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 6-mer - A2B2C2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 147.65 kDa 
• Atom Count: 9220 
• Residue Count: 1160 
• Unique protein chains: 3

4HPQ

Crystal Structure of the Atg17-Atg31-Atg29 Complex

• DOI: 10.2210/pdb4HPQ/pdb

• Classification: PROTEIN TRANSPORT
• Organism(s): Lachancea thermotolerans CBS 6340
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2012-10-24 Released: 2012-12-26 
• Deposition Author(s): Stanley, R.E., Ragusa, M.J., Hurley, J.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.06 Å
• R-Value Free: 0.336 
• R-Value Work: 0.303 
• R-Value Observed: 0.305 

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

• PubMed: 23219485 
• DOI: 10.1016/j.cell.2012.11.028
• Primary Citation of Related Structures:  
  4HPQ


• 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 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Atg29	A, D	69	Lachancea thermotolerans CBS 6340	Mutation(s): 0  Gene Names: KLTH0D11660g
Find proteins for C5DF24 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)) Explore C5DF24  Go to UniProtKB:  C5DF24

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Atg31	B, E	159	Lachancea thermotolerans CBS 6340	Mutation(s): 2  Gene Names: KLTH0C07942g
Find proteins for C5DEB9 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)) Explore C5DEB9  Go to UniProtKB:  C5DEB9

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Atg17	C, F	413	Lachancea thermotolerans CBS 6340	Mutation(s): 0  Gene Names: KLTH0D15642g
Find proteins for C5DFJ6 (Lachancea thermotolerans (strain ATCC 56472 / CBS 6340 / NRRL Y-8284)) Explore C5DFJ6  Go to UniProtKB:  C5DFJ6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.06 Å
• R-Value Free: 0.336 
• R-Value Work: 0.303 
• R-Value Observed: 0.305 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 144.37	α = 90
b = 64.2	β = 110.79
c = 184.21	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-10-24 
• Released Date: 2012-12-26 
Deposition Author(s): Stanley, R.E., Ragusa, M.J., Hurley, J.H.

Revision History 

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