Research workbench
Crystal structure of human caperalpha uhm bound to SF3B155 ULM5
Analyse Crystal structure of human caperalpha uhm bound to SF3B155 ULM5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OZ1
- Type
- protein
- Length
- 229 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-binding protein 39; Splicing factor 3B subunit 1
- UniProt
- Q14498, O75533
- Ligands
- LYS, K, CL
- Pockets
- 2 · best druggability 0.37
Structure
x-ray diffraction · 3 distinct chains · 33% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-binding protein 39 | protein | 111 | 32% helix, 20% strand | Q14498 |
| B | RNA-binding protein 39 | protein | 110 | 36% helix, 20% strand | Q14498 |
| C | Splicing factor 3B subunit 1 | protein | 8 | 0% helix, 13% strand | O75533 |
Ligands and binding sites
- LYS · Lysine · ligand · chains A
- K · Potassium ion · metal · chains A
- CL · Chloride ion · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 95 | 0.37 | 0.75 | 22 | empty |
| 2 | 66 | 0.29 | 0.74 | 16 | empty |
Interfaces
3 interfaces between chains.
- B–C · 488 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 409 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 64 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4OZ1 · Crystal structure of human CAPERalpha UHM bound to SF3b155 ULM5 · the same entry in another collection · chain A against A, TM-score 1.00
- Q14498 · AlphaFold monomer V2.0 prediction for RNA-binding protein 39 (Q14498) · a predicted model of the same protein · chain B against A, TM-score 0.96
- O75533 · AlphaFold monomer V2.0 prediction for splicing factor 3B subunit 1 (O75533) · a predicted model of the same protein · chain C against A, TM-score 0.42
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 Q14498
- Every structure of UniProt O75533
- Elsewhere: RCSB PDB 4OZ1 · PDBe 4OZ1 · UniProt Q14498 · UniProt O75533
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