Research workbench
Crystal structure of B30.2 pryspry domain of TRIM10
Analyse Crystal structure of B30.2 pryspry domain of TRIM10 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7QS0
- Type
- protein
- Length
- 529 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tripartite motif-containing protein 10
- UniProt
- Q9UDY6
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 2% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tripartite motif-containing protein 10 | protein | 177 | 2% helix, 45% strand | Q9UDY6 |
| B, C | Tripartite motif-containing protein 10 | protein | 176 | 2% helix, 45% strand | Q9UDY6 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1030 | 0.74 | 0.77 | 68 | empty |
| 2 | 149 | 0.63 | 0.86 | 31 | empty |
| 3 | 343 | 0.58 | 0.76 | 42 | empty |
| 4 | 55 | 0.31 | 0.76 | 15 | empty |
| 5 | 64 | 0.29 | 0.74 | 18 | empty |
Interfaces
3 interfaces between chains.
- B–C · 458 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 281 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 266 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7QS0 · Crystal structure of B30.2 PRYSPRY domain of TRIM10 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UDY6 · AlphaFold monomer V2.0 prediction for tripartite motif-containing protein 10 (Q9UDY6) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q9UDY6
- Elsewhere: RCSB PDB 7QS0 · PDBe 7QS0 · UniProt Q9UDY6
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