MolNFT v1 · #32736 · protein
N-terminal SH3 domain of CIN85 bound to cbl-B peptide
2BZ8 · SH3-domain kinase binding protein 1: “N-terminal SH3 domain of CIN85 bound to cbl-B peptide”. X-ray diffraction, 1 ligand (NA), 1 pocket (best druggability 0.34). MolNFT v1 #32736 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2BZ8
- Type
- protein
- Length
- 124 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SH3-domain kinase binding protein 1; Signal transduction protein cbl-B SH3-binding…
- UniProt
- Q96B97, Q13191
- Ligands
- NA
- Pockets
- 1 · best druggability 0.34
Structure
x-ray diffraction · 3 distinct chains · 5% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SH3-domain kinase binding protein 1 | protein | 56 | 5% helix, 48% strand | Q96B97 |
| B | SH3-domain kinase binding protein 1 | protein | 57 | 5% helix, 44% strand | Q96B97 |
| C | Signal transduction protein cbl-B SH3-binding protein cbl- B, ring finger protein 56, cbl-B | protein | 11 | 0% helix, 0% strand | Q13191 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 106 | 0.34 | 0.73 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–C · 500 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 384 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 131 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2BZ8 · N-terminal Sh3 domain of CIN85 bound to Cbl-b peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q96B97 · AlphaFold monomer V2.0 prediction for SH3 domain-containing kinase- binding protein 1… · a predicted model of the same protein · chain A against A, TM-score 0.95
- Q13191 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase cbl-B (Q13191) · a predicted model of the same protein · chain C 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 Q96B97
- Every structure of UniProt Q13191
- Elsewhere: RCSB PDB 2BZ8 · PDBe 2BZ8 · UniProt Q96B97 · UniProt Q13191
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