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Structure of pd-L1
Analyse Structure of pd-L1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JDR
- Type
- protein
- Length
- 418 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Programmed cell death 1 ligand 1
- UniProt
- Q9NZQ7
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Programmed cell death 1 ligand 1 | protein | 209 | 4% helix, 54% strand | Q9NZQ7 |
| B | Programmed cell death 1 ligand 1 | protein | 209 | 3% helix, 54% strand | Q9NZQ7 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 899 | 0.74 | 0.78 | 80 | empty |
| 2 | 79 | 0.41 | 0.79 | 24 | empty |
| 3 | 53 | 0.40 | 0.82 | 16 | empty |
| 4 | 74 | 0.33 | 0.75 | 15 | empty |
| 5 | 63 | 0.30 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1097 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5JDR · Structure of PD-L1 · the same entry in another collection · chain A against A, TM-score 1.00
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 Q9NZQ7
- Elsewhere: RCSB PDB 5JDR · PDBe 5JDR · UniProt Q9NZQ7
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