› 2dyt

X-ray diffraction
2.5Å resolution

The crystal structure of Saccharomyces cerevisiae Atg3

Released:
DOI: 10.2210/pdb2dyt/pdb
PDB entry 2dyt coloured by chain, front view.
PDB entry 2dyt coloured by chain, side view.
PDB entry 2dyt coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
The crystal structure of Atg3, an autophagy-related ubiquitin carrier protein (E2) enzyme that mediates Atg8 lipidation.
Yamada Y, Suzuki NN, Hanada T, Ichimura Y, Kumeta H, Fujioka Y, Ohsumi Y, Inagaki F
J Biol Chem 282 8036-43 (2007)
PMID: 17227760

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-154099 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Autophagy-related protein 3 Chain: A
Molecule details ›
Chain: A
Length: 312 amino acids
Theoretical weight: 36.07 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P40344 (Residues: 1-310; Coverage: 100%)
Gene names: APG3, ATG3, AUT1, N2040, YNR007C
Sequence domains: Autophagocytosis associated protein, active-site domain

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P41
Unit cell:
a: 59.116Å b: 59.116Å c: 115.316Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.207 0.244
Expression system: Escherichia coli

Quick links

Citations

29 review citations

The machinery of macroautophagy.
Feng et al. (2014)
28 more

14 mentions without citation

Post-translationally-modified structures in the autophagy machinery: an integrative perspective.
Popelka et al. (2015)
13 more