MolNFT v1 · #116630 · protein
Structure of wt human glutathione transferase in complex with cisplatin in the presence of glutathione.
5DJL · Glutathione S-transferase P: “Structure of wt human glutathione transferase in complex with cisplatin in the presence of glutathione.”. X-ray diffraction, 5 ligands (GSH, PT, CA), 4 pockets (best druggability 0.72). MolNFT v1…
- PDB
- 5DJL
- Type
- protein
- Length
- 419 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutathione S-transferase P
- EC
- 2.5.1.18
- UniProt
- P09211
- Ligands
- GSH, PT, CA, CO3, SO4
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 62% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutathione S-transferase P (EC 2.5.1.18) | protein | 210 | 62% helix, 8% strand | P09211 |
| B | Glutathione S-transferase P (EC 2.5.1.18) | protein | 209 | 61% helix, 9% strand | P09211 |
Ligands and binding sites
- GSH · Glutathione · ligand · 2 copies · chains A, B
- PT · Platinum (II) ion · metal · 3 copies · chains A, B
- CA · Calcium ion · metal · 2 copies · chains B
- CO3 · Carbonate ion · ion · chains B
- SO4 · Sulfate ion · ion · chains B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 690 | 0.72 | 0.79 | 88 | PT, GSH |
| 2 | 101 | 0.38 | 0.75 | 18 | empty |
| 3 | 64 | 0.32 | 0.75 | 14 | empty |
| 4 | 63 | 0.29 | 0.74 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1300 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 5DJL · Structure of WT Human Glutathione Transferase in complex with cisplatin in the presence… · 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 P09211
- Elsewhere: RCSB PDB 5DJL · PDBe 5DJL · UniProt P09211
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