MolNFT v1 · #36560 · protein
2.5 ångström resolution structure of the spliceosomal protein P14 bound to region of SF3B155
2F9D · Pre-mRNA branch site protein P14: “2.5 ångström resolution structure of the spliceosomal protein P14 bound to region of SF3B155”. X-ray diffraction, 4 pockets (best druggability 0.72). MolNFT v1 #36560 on GenesisL1: 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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