› 3b13

X-ray diffraction
3.01Å resolution

Crystal structure of the DHR-2 domain of DOCK2 in complex with Rac1 (T17N mutant)

Released:
DOI: 10.2210/pdb3b13/pdb
PDB entry 3b13 coloured by chain, front view.
PDB entry 3b13 coloured by chain, side view.
PDB entry 3b13 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for mutual relief of the Rac guanine nucleotide exchange factor DOCK2 and its partner ELMO1 from their autoinhibited forms.
Hanawa-Suetsugu K, Kukimoto-Niino M, Mishima-Tsumagari C, Akasaka R, Ohsawa N, Sekine S, Ito T, Tochio N, Koshiba S, Kigawa T, Terada T, Shirouzu M, Nishikimi A, Uruno T, Katakai T, Kinashi T, Kohda D, Fukui Y, Yokoyama S
Proc Natl Acad Sci U S A 109 3305-10 (2012)
PMID: 22331897

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158913 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Dedicator of cytokinesis protein 2 Chains: A, C
Molecule details ›
Chains: A, C
Length: 431 amino acids
Theoretical weight: 51.11 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q92608 (Residues: 1196-1622; Coverage: 23%)
Gene names: DOCK2, KIAA0209
Sequence domains:
Structure domains:
Ras-related C3 botulinum toxin substrate 1 Chains: B, D
Molecule details ›
Chains: B, D
Length: 184 amino acids
Theoretical weight: 20.24 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P63000 (Residues: 1-177; Coverage: 92%)
Gene names: MIG5, RAC1, TC25
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P65
Unit cell:
a: 168.651Å b: 168.651Å c: 129.718Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.185 0.183 0.234
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli

Quick links

Citations

14 review citations

Regulation of small GTPases by GEFs, GAPs, and GDIs.
Cherfils et al. (2013)
13 more

11 mentions without citation

Structural Insights into the Regulation Mechanism of Small GTPases by GEFs.
Toma-Fukai et al. (2019)
10 more