Research workbench
Crystal structure of human P53 inducible oxidoreductase (TP53I3,PIG3)
Analyse Crystal structure of human P53 inducible oxidoreductase (TP53I3,PIG3) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OBY
- Type
- protein
- Length
- 1,670 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative quinone oxidoreductase
- EC
- 1.-.-.-
- UniProt
- Q53FA7
- Ligands
- NAP
- Pockets
- 16 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E | Putative quinone oxidoreductase (EC 1.-.-.-) | protein | 334 | 33% helix, 28% strand | Q53FA7 |
Ligands and binding sites
- NAP · Nadp nicotinamide-adenine-dinucleotide phosphate · ligand · 5 copies · chains A, B, C, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 502 | 0.78 | 0.85 | 52 | NAP |
| 2 | 406 | 0.77 | 0.86 | 42 | NAP |
| 3 | 479 | 0.77 | 0.85 | 52 | NAP |
| 4 | 393 | 0.76 | 0.86 | 44 | NAP |
| 5 | 421 | 0.76 | 0.85 | 48 | NAP |
Interfaces
7 interfaces between chains.
- A–B · 1264 Ų buried · 21 hydrogen bonds · protein-protein
- C–E · 673 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 558 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 177 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 82 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2OBY · Crystal structure of Human P53 inducible oxidoreductase (TP53I3,PIG3) · the same entry in another collection · chain A against A, TM-score 1.00
- Q53FA7 · AlphaFold monomer V2.0 prediction for quinone oxidoreductase PIG3 (Q53FA7) · 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 Q53FA7
- Elsewhere: RCSB PDB 2OBY · PDBe 2OBY · UniProt Q53FA7
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