Research workbench
Native crystal structure of S. cerevisiae Csn12 in complex with Thp3 and Sem1
Analyse Native crystal structure of S. cerevisiae Csn12 in complex with Thp3 and Sem1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7EWM
- Type
- protein
- Length
- 739 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.9
- Source
- Saccharomyces cerevisiae S288C
- Molecule
- Protein THP3; Cop9 signalosome complex subunit 12; 26S proteasome complex subunit SEM1
- UniProt
- Q12049, P47130, O94742
- Pockets
- 10 · best druggability 0.71
Structure
x-ray diffraction · resolution 2.9 · 3 distinct chains · 61% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein THP3 | protein | 272 | 62% helix, 6% strand | Q12049 |
| B | Cop9 signalosome complex subunit 12 | protein | 409 | 64% helix, 4% strand | P47130 |
| C | 26S proteasome complex subunit SEM1 | protein | 58 | 33% helix, 5% strand | O94742 |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 776 | 0.71 | 0.77 | 68 | empty |
| 2 | 454 | 0.66 | 0.78 | 46 | empty |
| 3 | 232 | 0.64 | 0.82 | 25 | empty |
| 4 | 184 | 0.60 | 0.82 | 29 | empty |
| 5 | 344 | 0.57 | 0.76 | 37 | empty |
Interfaces
2 interfaces between chains.
- B–C · 2678 Ų buried · 32 hydrogen bonds · protein-protein
- A–B · 1244 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- Q12049 · AlphaFold monomer V2.0 prediction for protein THP3 (Q12049) · a predicted model of the same protein · chain A against A, TM-score 0.96
- P47130 · AlphaFold monomer V2.0 prediction for COP9 signalosome complex subunit 12 (P47130) · a predicted model of the same protein · chain B against A, TM-score 0.95
- O94742 · AlphaFold monomer V2.0 prediction for 26S proteasome complex subunit SEM1 (O94742) · a predicted model of the same protein · chain C against A, TM-score 0.47
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 Q12049
- Every structure of UniProt P47130
- Every structure of UniProt O94742
- Elsewhere: RCSB PDB 7EWM · PDBe 7EWM · UniProt Q12049 · UniProt P47130 · UniProt O94742
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