MolNFT v1 · #1516 · protein

Structure of the N-terminal domain of cbl in complex with its binding site in zap-70

1B47: “Structure of the N-terminal domain of cbl in complex with its binding site in zap-70”. X-ray diffraction, 1 ligand (CA), 13 pockets (best druggability 0.71). MolNFT v1 #1516 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 1B47
Type: protein
Length: 912 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cbl
UniProt: P22681
Ligands: CA
Pockets: 13 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 59% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Cbl	protein	304	59% helix, 9% strand	P22681

Ligands and binding sites

CA · Calcium ion · metal · 3 copies · chains A, B, C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	909	0.71	0.75	99	empty
2	607	0.65	0.75	61	empty
3	478	0.61	0.75	57	empty
4	252	0.53	0.76	38	empty
5	123	0.50	0.80	21	empty

Interfaces

2 interfaces between chains.

A–B · 809 Å² buried · 9 hydrogen bonds · protein-protein
B–C · 752 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

1B47 · Structure of the N-terminal domain of cbl in complex with its binding site in zap-70 · 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 A against A, TM-score 0.95

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 P22681
Elsewhere: RCSB PDB 1B47 · PDBe 1B47 · UniProt P22681

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