Research workbench
Crystal structure of the brs domain of braf in complex with the cc-SAM domain of KSR1
Analyse Crystal structure of the brs domain of braf in complex with the cc-SAM domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5VYK
- Type
- protein
- Length
- 405 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chimera protein of brs domain of braf and cc-SAM domain of KSR1,SERINE/THREONINE-protein…
- EC
- 2.7.11.1
- UniProt
- Q8IVT5, P15056
- Pockets
- 5 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chimera protein of brs domain of braf and cc-SAM domain of KSR1,SERINE/THREONINE-protein kinase B-RAF (EC 2.7.11.1) | protein | 202 | 78% helix, 0% strand | Q8IVT5, P15056 |
| C | Chimera protein of brs domain of braf and cc-SAM domain of KSR1,SERINE/THREONINE-protein kinase B-RAF (EC 2.7.11.1) | protein | 203 | 78% helix, 0% strand | Q8IVT5, P15056 |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 150 | 0.80 | 0.96 | 31 | empty |
| 2 | 109 | 0.76 | 0.96 | 34 | empty |
| 3 | 217 | 0.49 | 0.75 | 21 | empty |
| 4 | 211 | 0.49 | 0.75 | 34 | empty |
| 5 | 203 | 0.46 | 0.74 | 21 | empty |
Interfaces
1 interface between chains.
- A–C · 3284 Ų buried · 36 hydrogen bonds · protein-protein
Compared structures
- 5VYK · Crystal structure of the BRS domain of BRAF in complex with the CC-SAM domain of KSR1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q8IVT5 · AlphaFold monomer V2.0 prediction for kinase suppressor of RAS 1 (Q8IVT5) · a predicted model of the same protein · chain A against A, TM-score 0.71
- P15056 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase B-RAF (P15056) · a predicted model of the same protein · chain A against A, TM-score 0.42
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 Q8IVT5
- Every structure of UniProt P15056
- Elsewhere: RCSB PDB 5VYK · PDBe 5VYK · UniProt Q8IVT5 · UniProt P15056
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