Research workbench
Structure of WT Human Glutathione Transferase in complex with cisplatin in the absence of glutathione.
Analyse Structure of WT Human Glutathione Transferase in complex with cisplatin in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DJM
- Type
- protein
- Length
- 396 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Homo sapiens
- Molecule
- Glutathione S-transferase P
- EC
- 2.5.1.18
- UniProt
- P09211
- Ligands
- PT
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · resolution 1.9 · 2 distinct chains · 59% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutathione S-transferase P (EC 2.5.1.18) | protein | 199 | 59% helix, 9% strand | P09211 |
| B | Glutathione S-transferase P (EC 2.5.1.18) | protein | 197 | 59% helix, 9% strand | P09211 |
Ligands and binding sites
- PT · Platinum (II) ion · metal · 3 copies · chains A, 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
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 620 | 0.74 | 0.81 | 72 | PT |
| 2 | 93 | 0.38 | 0.76 | 19 | empty |
| 3 | 52 | 0.29 | 0.74 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1298 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 5DJM · Structure of wt human glutathione transferase in complex with cisplatin in the absence of… · the same entry in another collection · chain A against A, TM-score 1.00
- P09211 · AlphaFold monomer V2.0 prediction for glutathione S-transferase P (P09211) · a predicted model of the same protein · chain B 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 5DJM · PDBe 5DJM · UniProt P09211
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