› 3egd

X-ray diffraction
2.7Å resolution

Crystal structure of the mammalian COPII-coat protein Sec23a/24a complexed with the SNARE protein Sec22 and bound to the transport signal sequence of vesicular stomatitis virus glycoprotein

Released:
DOI: 10.2210/pdb3egd/pdb
PDB entry 3egd coloured by chain, front view.
PDB entry 3egd coloured by chain, side view.
PDB entry 3egd coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of cargo membrane protein discrimination by the human COPII coat machinery.
Mancias JD, Goldberg J
EMBO J 27 2918-28 (2008)
PMID: 18843296

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-130946 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Protein transport protein Sec23A Chain: A
Molecule details ›
Chain: A
Length: 764 amino acids
Theoretical weight: 86.18 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q15436 (Residues: 1-764; Coverage: 100%)
Gene name: SEC23A
Sequence domains:
Structure domains:
Protein transport protein Sec24A Chain: B
Molecule details ›
Chain: B
Length: 748 amino acids
Theoretical weight: 84.34 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O95486 (Residues: 346-1093; Coverage: 68%)
Gene name: SEC24A
Sequence domains:
Structure domains:
Vesicle-trafficking protein SEC22b Chain: C
Molecule details ›
Chain: C
Length: 157 amino acids
Theoretical weight: 18.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O75396 (Residues: 1-157; Coverage: 73%)
Gene names: SEC22B, SEC22L1
Sequence domains:
Structure domains: Longin domain
Glycoprotein Chain: D
Molecule details ›
Chain: D
Length: 10 amino acids
Theoretical weight: 1.28 KDa
Source organism: Vesicular stomatitis Indiana virus strain San Juan
Expression system: Not provided
UniProt:
  • Canonical: P03522 (Residues: 499-508; Coverage: 2%)
Gene name: G

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: C2
Unit cell:
a: 147.75Å b: 97.63Å c: 129.12Å
α: 90° β: 90.11° γ: 90°
R-values:
R R work R free
0.206 0.206 0.274
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli
  • Not provided

Quick links

Citations

44 review citations

COPII and the regulation of protein sorting in mammals.
Zanetti et al. (2012)
43 more

6 mentions without citation

O-GlcNAc Dynamics: The Sweet Side of Protein Trafficking Regulation in Mammalian Cells.
Ben Ahmed et al. (2023)
5 more