› 5v7p

X-ray diffraction
2.3Å resolution

Atomic structure of the eukaryotic intramembrane Ras methyltransferase ICMT (isoprenylcysteine carboxyl methyltransferase), in complex with a monobody

Released:
DOI: 10.2210/pdb5v7p/pdb
PDB entry 5v7p coloured by chain, front view.
PDB entry 5v7p coloured by chain, side view.
PDB entry 5v7p coloured by chain, top view.
Source organisms:
Primary publication:
Atomic structure of the eukaryotic intramembrane RAS methyltransferase ICMT.
Diver MM, Pedi L, Koide A, Koide S, Long SB
Nature 553 526-529 (2018)
PMID: 29342140

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + protein C-terminal S-farnesyl-L-cysteine = S-adenosyl-L-homocysteine + protein C-terminal S-farnesyl-L-cysteine methyl ester
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112820 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Protein-S-isoprenylcysteine O-methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 288 amino acids
Theoretical weight: 32.86 KDa
Source organism: Tribolium castaneum
Expression system: Pichia
UniProt:
  • Canonical: D6WJ77 (Residues: 1-281; Coverage: 100%)
Gene names: ICMT, TcasGA2_TC013078
Sequence domains: Isoprenylcysteine carboxyl methyltransferase (ICMT) family
monobody Chain: D
Molecule details ›
Chain: D
Length: 95 amino acids
Theoretical weight: 10.14 KDa
Source organism: synthetic construct
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments


Cofactor: Ligand SAH 1 x SAH
3 bound ligands:
Ligand UND 3 x UND
Ligand D10 11 x D10
Ligand MPG 10 x MPG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P212121
Unit cell:
a: 40.554Å b: 87.691Å c: 147.681Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.214 0.247
Expression systems:
  • Pichia
  • Escherichia coli

Quick links

Citations

9 review citations

KRAS G12C Game of Thrones, which direct KRAS inhibitor will claim the iron throne?
Nagasaka et al. (2020)
8 more

4 mentions without citation

Multiscale Simulations of Biological Membranes: The Challenge To Understand Biological Phenomena in a Living Substance.
Enkavi et al. (2019)
3 more