MolNFT v1 · #164209 · protein
Crystal structure of mouse PRMT6 with modified H7-4 peptide
6SQK · Protein arginine N-methyltransferase 6: “Crystal structure of mouse PRMT6 with modified H7-4 peptide”. X-ray diffraction, 6 pockets (best druggability 0.55). MolNFT v1 #164209 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6SQK
- Type
- protein
- Length
- 679 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein arginine N-methyltransferase 6; H4-7
- EC
- 2.1.1.319, 2.1.1.43
- UniProt
- Q6NZB1
- Pockets
- 6 · best druggability 0.55
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein arginine N-methyltransferase 6 (EC 2.1.1.319) | protein | 337 | 31% helix, 35% strand | Q6NZB1 |
| B | Protein arginine N-methyltransferase 6 (EC 2.1.1.319) | protein | 333 | 31% helix, 37% strand | Q6NZB1 |
| D | H4-7 (EC 2.1.1.43) | protein | 3 | 0% helix, 0% strand | — |
| E | H4-7 (EC 2.1.1.43) | protein | 6 | 0% helix, 0% strand | — |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 147 | 0.55 | 0.82 | 29 | empty |
| 2 | 107 | 0.51 | 0.82 | 28 | empty |
| 3 | 100 | 0.39 | 0.76 | 15 | empty |
| 4 | 101 | 0.36 | 0.74 | 13 | empty |
| 5 | 54 | 0.26 | 0.74 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1768 Ų buried · 16 hydrogen bonds · protein-protein
- A–E · 738 Ų buried · 22 hydrogen bonds · protein-protein
- B–D · 581 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
- 6SQK · Crystal structure of mouse PRMT6 with modified H7-4 peptide · 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 1.00
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 6SQK · PDBe 6SQK · UniProt Q6NZB1
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