› 5vbm

X-ray diffraction
1.49Å resolution

Crystal Structure of Small Molecule Disulfide 2C07 Bound to K-Ras Cys Light M72C GDP

Released:
DOI: 10.2210/pdb5vbm/pdb
PDB entry 5vbm coloured by chain, front view.
PDB entry 5vbm coloured by chain, side view.
PDB entry 5vbm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Ras Binder Induces a Modified Switch-II Pocket in GTP and GDP States.
Gentile DR, Rathinaswamy MK, Jenkins ML, Moss SM, Siempelkamp BD, Renslo AR, Burke JE, Shokat KM
Cell Chem Biol 24 1455-1466.e14 (2017)
PMID: 29033317

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:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133991 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
GTPase KRas, N-terminally processed Chain: A
Molecule details ›
Chain: A
Length: 170 amino acids
Theoretical weight: 19.28 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01116 (Residues: 1-169; Coverage: 89%)
Gene names: KRAS, KRAS2, RASK2
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

3 bound ligands:
Ligand MG 1 x MG
Ligand GDP 1 x GDP
Ligand 92V 1 x 92V
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2
Spacegroup: P212121
Unit cell:
a: 32.6Å b: 41.18Å c: 111.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.172 0.196
Expression system: Escherichia coli

Quick links

Citations

27 review citations

RAS-targeted therapies: is the undruggable drugged?
Moore et al. (2020)
26 more

4 mentions without citation

Natural Products Attenuating Biosynthesis, Processing, and Activity of Ras Oncoproteins: State of the Art and Future Perspectives.
Tisi et al. (2020)
3 more