Research workbench
Crystal structure of mouse PRMT6 in complex with inhibitor U2
Analyse Crystal structure of mouse PRMT6 in complex with inhibitor U2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SQ4
- Type
- protein
- Length
- 661 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein arginine N-methyltransferase 6
- EC
- 2.1.1.319
- UniProt
- Q6NZB1
- Ligands
- GJV, IOD
- Pockets
- 3 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein arginine N-methyltransferase 6 (EC 2.1.1.319) | protein | 336 | 31% helix, 37% strand | Q6NZB1 |
| B | Protein arginine N-methyltransferase 6 (EC 2.1.1.319) | protein | 325 | 30% helix, 37% strand | Q6NZB1 |
Ligands and binding sites
- GJV · 9-(7-{[amino(iminio)methyl]amino}-5,6,7-trideoxy-beta-D-ribo-heptofuranosyl)-9H-purin-6-amine · ligand · 2 copies · chains A, B
- IOD · Iodide ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 225 | 0.79 | 0.92 | 40 | GJV |
| 2 | 519 | 0.73 | 0.82 | 60 | GJV |
| 3 | 94 | 0.46 | 0.80 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1819 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 6SQ4 · Crystal structure of mouse PRMT6 in complex with inhibitor U2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q6NZB1 · AlphaFold monomer V2.0 prediction for protein arginine N-methyltransferase 6 (Q6NZB1) · a predicted model of the same protein · chain B 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 Q6NZB1
- Elsewhere: RCSB PDB 6SQ4 · PDBe 6SQ4 · UniProt Q6NZB1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.