MolNFT v1 · #82589 · protein

Crystal structure of the tyrosine kinase binding domain of cbl-C (pl mutant) in complex with phospho-EGFR peptide

3VRR · Signal transduction protein cbl-C: “Crystal structure of the tyrosine kinase binding domain of cbl-C (pl mutant) in complex with phospho-EGFR…”. X-ray diffraction, 1 ligand (CA), 3 pockets (best druggability 0.59). MolNFT v1 #82589…

PDB: 3VRR
Type: protein
Length: 299 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Signal transduction protein cbl-C; Epidermal growth factor receptor
EC: 2.7.10.1
UniProt: Q9ULV8, P00533
Ligands: CA
Pockets: 3 · best druggability 0.59

Structure

x-ray diffraction · 2 distinct chains · 53% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Signal transduction protein cbl-C	protein	291	54% helix, 9% strand	Q9ULV8
C	Epidermal growth factor receptor (EC 2.7.10.1)	protein	8	0% helix, 25% strand	P00533

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	292	0.59	0.78	28	empty
2	78	0.38	0.77	14	empty
3	66	0.30	0.74	21	empty

Interfaces

1 interface between chains.

A–C · 576 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (phosphorylation).

Compared structures

3VRR · Crystal structure of the tyrosine kinase binding domain of Cbl-c (PL mutant) in complex… · 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
P00533 · AlphaFold monomer V2.0 prediction for epidermal growth factor receptor (P00533) · a predicted model of the same protein · chain C against A, TM-score 0.48

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 P00533
Elsewhere: RCSB PDB 3VRR · PDBe 3VRR · UniProt Q9ULV8 · UniProt P00533

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