Research workbench
Crystal structure of the N-terminal domain of the yeast general corepressor TUP1P mutant
Analyse Crystal structure of the N-terminal domain of the yeast general corepressor… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3VP9
- Type
- protein
- Length
- 147 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- General transcriptional corepressor TUP1
- UniProt
- P16649
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 2 distinct chains · 84% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | General transcriptional corepressor TUP1 | protein | 70 | 83% helix, 0% strand | P16649 |
| B | General transcriptional corepressor TUP1 | protein | 77 | 84% helix, 0% strand | P16649 |
Ligands and binding sites
- DIO · 1,4-diethylene dioxide · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 83 | 0.46 | 0.81 | 17 | DIO |
Interfaces
1 interface between chains.
- A–B · 1708 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3VP9 · Crystal structure of the N-terminal domain of the yeast general corepressor Tup1p mutant · the same entry in another collection · chain A against A, TM-score 1.00
- P16649 · AlphaFold monomer V2.0 prediction for general transcriptional corepressor TUP1 (P16649) · a predicted model of the same protein · chain A against A, TM-score 0.84
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 P16649
- Elsewhere: RCSB PDB 3VP9 · PDBe 3VP9 · UniProt P16649
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