MolNFT v1 · #82586 · protein
Crystal structure of the tyrosine kinase binding domain of cbl-C in complex with phospho-src peptide
3VRO · Signal transduction protein cbl-C: “Crystal structure of the tyrosine kinase binding domain of cbl-C in complex with phospho-src peptide”. X-ray diffraction, 1 ligand (CA), 3 pockets (best druggability 0.63). MolNFT v1 #82586 on…
- PDB
- 3VRO
- Type
- protein
- Length
- 289 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Signal transduction protein cbl-C; Proto-oncogene tyrosine-protein kinase src
- EC
- 2.7.10.2
- UniProt
- Q9ULV8, P12931
- Ligands
- CA
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 55% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Signal transduction protein cbl-C | protein | 284 | 56% helix, 9% strand | Q9ULV8 |
| B | Proto-oncogene tyrosine-protein kinase src (EC 2.7.10.2) | protein | 5 | 0% helix, 0% strand | P12931 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 77 | 0.63 | 0.90 | 25 | empty |
| 2 | 138 | 0.45 | 0.77 | 18 | empty |
| 3 | 62 | 0.27 | 0.73 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 386 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 3VRO · Crystal structure of the tyrosine kinase binding domain of Cbl-c in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9ULV8 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase cbl-C (Q9ULV8) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9ULV8
- Every structure of UniProt P12931
- Elsewhere: RCSB PDB 3VRO · PDBe 3VRO · UniProt Q9ULV8 · UniProt P12931
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