› 1z0d

X-ray diffraction
2.2Å resolution

GDP-Bound Rab5c GTPase

Released:
DOI: 10.2210/pdb1z0d/pdb
PDB entry 1z0d coloured by chain, front view.
PDB entry 1z0d coloured by chain, side view.
PDB entry 1z0d coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structural basis of family-wide Rab GTPase recognition by rabenosyn-5.
Eathiraj S, Pan X, Ritacco C, Lambright DG
Nature 436 415-9 (2005)
PMID: 16034420

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152882 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ras-related protein Rab-5C Chains: A, C
Molecule details ›
Chains: A, C
Length: 167 amino acids
Theoretical weight: 18.5 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P35278 (Residues: 19-183; Coverage: 76%)
Gene name: Rab5c
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

3 bound ligands:
Ligand PO4 1 x PO4
Ligand MG 2 x MG
Ligand GDP 2 x GDP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: P212121
Unit cell:
a: 38.401Å b: 70.931Å c: 137.61Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.186 0.247
Expression system: Escherichia coli

Quick links

Citations

31 review citations

Rab GTPases as coordinators of vesicle traffic.
Stenmark H. (2009)
30 more

1 mention without citation

Celastrol directly binds with VAMP7 and RAB7 to inhibit autophagy and induce apoptosis in preadipocytes.
Liu et al. (2023)