MolNFT v1 · #160999 · protein
Structure of a MAPK pathway complex
6Q0K · SERINE/THREONINE-protein kinase B-RAF: “Structure of a MAPK pathway complex”. Electron microscopy, 11 pockets (best druggability 0.82). MolNFT v1 #160999 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6Q0K
- Type
- protein
- Length
- 1,024 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase B-RAF; 14-3-3 protein ZETA/DELTA
- EC
- 2.7.11.1
- UniProt
- P15056, P63104
- Pockets
- 11 · best druggability 0.82
Structure
electron microscopy · 3 distinct chains · 49% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SERINE/THREONINE-protein kinase B-RAF (EC 2.7.11.1) | protein | 285 | 36% helix, 13% strand | P15056 |
| B | SERINE/THREONINE-protein kinase B-RAF (EC 2.7.11.1) | protein | 281 | 36% helix, 13% strand | P15056 |
| X, Y | 14-3-3 protein ZETA/DELTA | protein | 229 | 82% helix, 0% strand | P63104 |
Pockets
11 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1103 | 0.82 | 0.84 | 174 | empty |
| 2 | 678 | 0.80 | 0.84 | 91 | empty |
| 3 | 1200 | 0.74 | 0.77 | 119 | empty |
| 4 | 1150 | 0.72 | 0.76 | 135 | empty |
| 5 | 201 | 0.63 | 0.83 | 50 | empty |
Interfaces
4 interfaces between chains.
- B–Y · 235 Ų buried · 0 hydrogen bonds · protein-protein
- A–X · 232 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 153 Ų buried · 0 hydrogen bonds · protein-protein
- X–Y · 107 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 6Q0K · Structure of a MAPK pathway complex · the same entry in another collection · chain Y against Y, TM-score 1.00
- P63104 · AlphaFold monomer V2.0 prediction for 14-3-3 protein ZETA/DELTA (P63104) · a predicted model of the same protein · chain Y against A, TM-score 0.99
- P15056 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase B-RAF (P15056) · a predicted model of the same protein · chain B against A, TM-score 0.91
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 P15056
- Every structure of UniProt P63104
- Elsewhere: RCSB PDB 6Q0K · PDBe 6Q0K · UniProt P15056 · UniProt P63104
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