Research workbench
Crystal structure of C-cbl-tkb domain complexed with its binding motif in C-met
Analyse Crystal structure of C-cbl-tkb domain complexed with its binding motif in C-met in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3BUX
- Type
- protein
- Length
- 626 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 13-meric peptide from hepatocyte growth factor receptor; E3 ubiquitin-protein ligase cbl
- EC
- 6.3.2.-
- UniProt
- P08581, P22681
- Pockets
- 4 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 58% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | 13-meric peptide from hepatocyte growth factor receptor | protein | 8 | 0% helix, 0% strand | P08581 |
| B, D | E3 ubiquitin-protein ligase cbl (EC 6.3.2.-) | protein | 305 | 59% helix, 8% strand | P22681 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1158 | 0.77 | 0.79 | 100 | empty |
| 2 | 58 | 0.40 | 0.81 | 13 | empty |
| 3 | 53 | 0.39 | 0.81 | 18 | empty |
| 4 | 54 | 0.37 | 0.80 | 13 | empty |
Interfaces
3 interfaces between chains.
- B–D · 622 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 588 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 587 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 3BUX · Crystal structure of c-Cbl-TKB domain complexed with its binding motif in c-Met · the same entry in another collection · chain A against A, TM-score 1.00
- P22681 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase cbl (P22681) · a predicted model of the same protein · chain D against A, TM-score 0.99
- P08581 · AlphaFold monomer V2.0 prediction for hepatocyte growth factor receptor (P08581) · a predicted model of the same protein · chain A against A, TM-score 0.57
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 P08581
- Every structure of UniProt P22681
- Elsewhere: RCSB PDB 3BUX · PDBe 3BUX · UniProt P08581 · UniProt P22681
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.