MolNFT v1 · #137170 · protein
Structure of the eukaryotic intramembrane RAS methyltransferase icmt (isoprenylcysteine carboxyl methyltransferase) without a monobody
5VG9 · Protein-S-isoprenylcysteine O-methyltransferase: “Structure of the eukaryotic intramembrane RAS methyltransferase icmt (isoprenylcysteine carboxyl…”. X-ray diffraction, 1 ligand (SAH), 3 pockets (best druggability 0.79). MolNFT v1…
- PDB
- 5VG9
- Type
- protein
- Length
- 279 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein-S-isoprenylcysteine O-methyltransferase
- EC
- 2.1.1.100
- UniProt
- D6WJ77
- Ligands
- SAH
- Pockets
- 3 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 77% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein-S-isoprenylcysteine O-methyltransferase (EC 2.1.1.100) | protein | 279 | 77% helix, 0% strand | D6WJ77 |
Ligands and binding sites
- SAH · S-adenosyl-L-homocysteine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 220 | 0.79 | 0.93 | 29 | SAH |
| 2 | 324 | 0.65 | 0.80 | 32 | empty |
| 3 | 313 | 0.59 | 0.77 | 39 | empty |
Compared structures
- 5VG9 · Structure of the eukaryotic intramembrane Ras methyltransferase ICMT (isoprenylcysteine… · the same entry in another collection · chain A against A, TM-score 1.00
- D6WJ77 · AlphaFold monomer V2.0 prediction for protein-S-isoprenylcysteine O-methyltransferase… · a predicted model of the same protein · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt D6WJ77
- Elsewhere: RCSB PDB 5VG9 · PDBe 5VG9 · UniProt D6WJ77
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