MolNFT v1 · #144549 · protein
Structure of histone H3K4 methyltransferase
6BX3 · Histone-lysine N-methyltransferase, H3 lysine-4 specific: “Structure of histone H3K4 methyltransferase”. Electron microscopy, 20 pockets (best druggability 0.80). MolNFT v1 #144549 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6BX3
- Type
- protein
- Length
- 1,413 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone-lysine N-methyltransferase, H3 lysine-4 specific; Compass component BRE2; Compass…
- EC
- 2.1.1.43
- UniProt
- A6ZT27, P43132, Q03323, Q03012, P39706, P38123
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 7 distinct chains · 17% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Histone-lysine N-methyltransferase, H3 lysine-4 specific (EC 2.1.1.43) | protein | 192 | 23% helix, 8% strand | A6ZT27 |
| K | Compass component BRE2 | protein | 211 | 15% helix, 10% strand | P43132 |
| M | Compass component SDC1 | protein | 42 | 45% helix, 0% strand | Q03323 |
| N | Compass component SDC1 | protein | 40 | 58% helix, 0% strand | Q03323 |
| F | Compass component SPP1 | protein | 215 | 55% helix, 0% strand | Q03012 |
| B | Compass component SWD1 | protein | 399 | 0% helix, 23% strand | P39706 |
| A | Compass component SWD3 | protein | 314 | 0% helix, 25% strand | P38123 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 658 | 0.80 | 0.84 | 63 | empty |
| 2 | 131 | 0.79 | 0.96 | 27 | empty |
| 3 | 1017 | 0.78 | 0.80 | 74 | empty |
| 4 | 322 | 0.78 | 0.89 | 53 | empty |
| 5 | 161 | 0.71 | 0.90 | 36 | empty |
Interfaces
11 interfaces between chains.
- B–A · 1838 Ų buried · 17 hydrogen bonds · protein-protein
- E–A · 1550 Ų buried · 12 hydrogen bonds · protein-protein
- E–B · 1195 Ų buried · 10 hydrogen bonds · protein-protein
- F–B · 921 Ų buried · 9 hydrogen bonds · protein-protein
- M–N · 877 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6BX3 · Structure of histone H3k4 methyltransferase · the same entry in another collection · chain A against A, TM-score 1.00
- P38123 · AlphaFold monomer V2.0 prediction for compass component SWD3 (P38123) · a predicted model of the same protein · chain A against A, TM-score 0.92
- P39706 · AlphaFold monomer V2.0 prediction for compass component SWD1 (P39706) · a predicted model of the same protein · chain B against A, TM-score 0.90
- P43132 · AlphaFold monomer V2.0 prediction for compass component BRE2 (P43132) · a predicted model of the same protein · chain K against A, TM-score 0.87
- Q03323 · AlphaFold monomer V2.0 prediction for compass component SDC1 (Q03323) · a predicted model of the same protein · chain N against A, TM-score 0.74
- Q03012 · AlphaFold monomer V2.0 prediction for compass component SPP1 (Q03012) · a predicted model of the same protein · chain F against A, TM-score 0.64
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 A6ZT27
- Every structure of UniProt P43132
- Every structure of UniProt Q03323
- Every structure of UniProt Q03012
- Every structure of UniProt P39706
- Every structure of UniProt P38123
- Elsewhere: RCSB PDB 6BX3 · PDBe 6BX3 · UniProt A6ZT27 · UniProt P43132 · UniProt Q03323 · UniProt Q03012 · UniProt P39706 · UniProt P38123
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.