MolNFT v1 · #91266 · protein
Structure analysis of geranyl diphosphate methyltransferase in complex with SAM
4F84 · Geranyl diphosphate 2-C-methyltransferase: “Structure analysis of geranyl diphosphate methyltransferase in complex with SAM”. X-ray diffraction, 1 ligand (SAM), 2 pockets (best druggability 0.49). MolNFT v1 #91266 on GenesisL1: 3D…
- PDB
- 4F84
- Type
- protein
- Length
- 248 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Geranyl diphosphate 2-C-methyltransferase
- EC
- 2.1.1.-
- UniProt
- D3KYU3
- Ligands
- SAM
- Pockets
- 2 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Geranyl diphosphate 2-C-methyltransferase (EC 2.1.1.-) | protein | 248 | 43% helix, 23% strand | D3KYU3 |
Ligands and binding sites
- SAM · S-adenosylmethionine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 183 | 0.49 | 0.77 | 26 | SAM |
| 2 | 82 | 0.43 | 0.80 | 16 | empty |
Compared structures
- 4F84 · Structure analysis of Geranyl diphosphate methyltransferase in complex with SAM · the same entry in another collection · chain A against A, TM-score 1.00
- D3KYU3 · AlphaFold monomer V2.0 prediction for geranyl diphosphate 2-C-methyltransferase (D3KYU3) · 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 D3KYU3
- Elsewhere: RCSB PDB 4F84 · PDBe 4F84 · UniProt D3KYU3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.