Research workbench
Crystal structure of the N-terminal 3 RNA binding domains of the yeast splicing factor PRP24
Analyse Crystal structure of the N-terminal 3 RNA binding domains of the yeast splicing… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GHP
- Type
- protein
- Length
- 1,870 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- U4/U6 snrna-associated splicing factor PRP24
- UniProt
- P49960
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 27% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D, E, G, H | U4/U6 snrna-associated splicing factor PRP24 | protein | 232 | 26% helix, 34% strand | P49960 |
| B, F | U4/U6 snrna-associated splicing factor PRP24 | protein | 239 | 27% helix, 35% strand | P49960 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1119 | 0.82 | 0.83 | 127 | empty |
| 2 | 438 | 0.78 | 0.86 | 60 | empty |
| 3 | 603 | 0.77 | 0.83 | 70 | empty |
| 4 | 393 | 0.75 | 0.85 | 63 | empty |
| 5 | 411 | 0.74 | 0.85 | 41 | empty |
Interfaces
14 interfaces between chains.
- A–C · 1266 Ų buried · 43 hydrogen bonds · protein-protein
- E–G · 1265 Ų buried · 44 hydrogen bonds · protein-protein
- B–D · 1252 Ų buried · 39 hydrogen bonds · protein-protein
- F–H · 1242 Ų buried · 38 hydrogen bonds · protein-protein
- A–B · 879 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 32 modified (engineered).
Compared structures
- 2GHP · Crystal structure of the N-terminal 3 RNA binding domains of the yeast splicing factor… · the same entry in another collection · chain H against H, TM-score 1.00
- P49960 · AlphaFold monomer V2.0 prediction for U4/U6 snrna-associated-splicing factor PRP24… · a predicted model of the same protein · chain A against A, TM-score 0.68
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 P49960
- Elsewhere: RCSB PDB 2GHP · PDBe 2GHP · UniProt P49960
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