2eqb

X-ray diffraction
2.7Å resolution

Crystal structure of the Rab GTPase Sec4p, the Sec2p GEF domain, and phosphate complex

Released:
Source organism: Saccharomyces cerevisiae
Primary publication:
Crystal structure of the Sec4p.Sec2p complex in the nucleotide exchanging intermediate state.
Proc Natl Acad Sci U S A 104 8305-10 (2007)
PMID: 17488829

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-139622 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ras-related protein SEC4 Chain: A
Molecule details ›
Chain: A
Length: 174 amino acids
Theoretical weight: 19.45 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P07560 (Residues: 19-187; Coverage: 79%)
Gene names: SEC4, SRO6, YFL005W
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases
Rab guanine nucleotide exchange factor SEC2 Chains: B, C
Molecule details ›
Chains: B, C
Length: 97 amino acids
Theoretical weight: 11.39 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P17065 (Residues: 51-142; Coverage: 12%)
Gene names: N0641, SEC2, YNL272C
Sequence domains: GDP/GTP exchange factor Sec2p
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU, PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: I222
Unit cell:
a: 116.581Å b: 117.422Å c: 123.332Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.273 0.273 0.298
Expression system: Escherichia coli