MolNFT v1 · #11898 · protein
URE2P in complex with glutathione
1K0D · URE2 protein: “URE2P in complex with glutathione”. X-ray diffraction, 1 ligand (GSH), 12 pockets (best druggability 0.79). MolNFT v1 #11898 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1K0D
- Type
- protein
- Length
- 928 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- URE2 protein
- UniProt
- P23202
- Ligands
- GSH
- Pockets
- 12 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 60% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | URE2 protein | protein | 221 | 60% helix, 8% strand | P23202 |
| B | URE2 protein | protein | 231 | 62% helix, 9% strand | P23202 |
| C | URE2 protein | protein | 239 | 59% helix, 8% strand | P23202 |
| D | URE2 protein | protein | 237 | 61% helix, 8% strand | P23202 |
Ligands and binding sites
- GSH · Glutathione · ligand · 3 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 691 | 0.79 | 0.83 | 61 | empty |
| 2 | 569 | 0.73 | 0.81 | 38 | GSH |
| 3 | 373 | 0.73 | 0.84 | 37 | GSH |
| 4 | 514 | 0.72 | 0.81 | 38 | GSH |
| 5 | 477 | 0.70 | 0.81 | 37 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1964 Ų buried · 26 hydrogen bonds · protein-protein
- C–D · 1911 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 502 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
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 P23202
- Elsewhere: RCSB PDB 1K0D · PDBe 1K0D · UniProt P23202
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