MolNFT v2 · #115051 · protein
Crystal structure of the murine cd44 hyaluronan binding domain complex with a small molecule
5BZL · CD44 antigen: “Crystal structure of the murine cd44 hyaluronan binding domain complex with a small molecule”. X-ray diffraction at 1.23, 2 ligands (4WO, SO4), 2 pockets (best druggability 0.33). MolNFT v2 #115051 on GenesisL1: 3D…
- PDB
- 5BZL
- Type
- protein
- Length
- 150 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.23
- Source
- Mus musculus
- Molecule
- CD44 antigen
- UniProt
- P15379
- Ligands
- 4WO, SO4
- Pockets
- 2 · best druggability 0.33
Structure
x-ray diffraction · resolution 1.23 · 1 distinct chain · 17% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CD44 antigen | protein | 150 | 17% helix, 37% strand | P15379 |
Ligands and binding sites
- 4WO · methyl 3-(8-amino-3,4-dihydroisoquinolin-2(1H)-yl)propanoate · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
- DMS · Dimethyl sulfoxide · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 60 | 0.33 | 0.77 | 15 | SO4 |
| 2 | 66 | 0.30 | 0.74 | 16 | 4WO |
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 5BZL · Crystal structure of the murine CD44 hyaluronan binding domain complex with a small… · the same entry in another collection · chain A against A, TM-score 1.00
- P15379 · AlphaFold monomer V2.0 prediction for CD44 antigen (P15379) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P15379
- Elsewhere: RCSB PDB 5BZL · PDBe 5BZL · UniProt P15379
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