Research workbench
2.5 ångström resolution structure of the spliceosomal protein P14 bound to region of SF3B155
Analyse 2.5 ångström resolution structure of the spliceosomal protein P14 bound to… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2F9D
- Type
- protein
- Length
- 306 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pre-mRNA branch site protein P14; Splicing factor 3B subunit 1
- UniProt
- Q9Y3B4, O75533
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Pre-mRNA branch site protein P14 | protein | 114 | 34% helix, 23% strand | Q9Y3B4 |
| P, Q | Splicing factor 3B subunit 1 | protein | 39 | 54% helix, 8% strand | O75533 |
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 | 463 | 0.72 | 0.82 | 62 | empty |
| 2 | 203 | 0.57 | 0.80 | 27 | empty |
| 3 | 50 | 0.42 | 0.83 | 23 | empty |
| 4 | 93 | 0.39 | 0.76 | 19 | empty |
Interfaces
4 interfaces between chains.
- B–Q · 1406 Ų buried · 21 hydrogen bonds · protein-protein
- A–P · 1384 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 528 Ų buried · 8 hydrogen bonds · protein-protein
- B–P · 170 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 2F9D · 2.5 angstrom resolution structure of the spliceosomal protein p14 bound to region of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y3B4 · AlphaFold monomer V2.0 prediction for splicing factor 3B subunit 6 (Q9Y3B4) · a predicted model of the same protein · chain A against A, TM-score 0.98
- O75533 · AlphaFold monomer V2.0 prediction for splicing factor 3B subunit 1 (O75533) · a predicted model of the same protein · chain P against A, TM-score 0.58
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 Q9Y3B4
- Every structure of UniProt O75533
- Elsewhere: RCSB PDB 2F9D · PDBe 2F9D · UniProt Q9Y3B4 · UniProt O75533
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