Research workbench
Crystal structure of mage-A11 bound to the PCF11 degron
Analyse Crystal structure of mage-A11 bound to the PCF11 degron in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WJH
- Type
- protein
- Length
- 882 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fusion protein of PCF11 and mage-A11
- UniProt
- O94913, P43364
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 4 distinct chains · 56% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fusion protein of PCF11 and mage-A11 | protein | 227 | 56% helix, 13% strand | O94913, P43364 |
| B | Fusion protein of PCF11 and mage-A11 | protein | 223 | 56% helix, 13% strand | O94913, P43364 |
| C | Fusion protein of PCF11 and mage-A11 | protein | 214 | 56% helix, 14% strand | O94913, P43364 |
| D | Fusion protein of PCF11 and mage-A11 | protein | 218 | 55% helix, 13% strand | O94913, P43364 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 433 | 0.70 | 0.81 | 47 | empty |
| 2 | 422 | 0.70 | 0.81 | 44 | empty |
| 3 | 54 | 0.28 | 0.74 | 12 | empty |
| 4 | 60 | 0.28 | 0.73 | 18 | empty |
Interfaces
4 interfaces between chains.
- A–C · 837 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 787 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 407 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 352 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6WJH · Crystal structure of MAGE-A11 bound to the PCF11 degron · the same entry in another collection · chain A against A, TM-score 1.00
- P43364 · AlphaFold monomer V2.0 prediction for melanoma-associated antigen 11 (P43364) · a predicted model of the same protein · chain C against A, TM-score 0.96
- O94913 · AlphaFold monomer V2.0 prediction for pre-mRNA cleavage complex 2 protein PCF11 (O94913) · a predicted model of the same protein · chain A against A, TM-score 0.28
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 O94913
- Every structure of UniProt P43364
- Elsewhere: RCSB PDB 6WJH · PDBe 6WJH · UniProt O94913 · UniProt P43364
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