Research workbench
Crystal structure of BRR2 in complex with the JAB1/MPN domain of PRP8
Analyse Crystal structure of BRR2 in complex with the JAB1/MPN domain of PRP8 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BGD
- Type
- protein
- Length
- 1,955 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pre-mRNA-splicing helicase BRR2; Pre-mRNA-splicing factor 8
- EC
- 3.6.4.13
- UniProt
- P32639, P33334
- Ligands
- ADP, MG
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pre-mRNA-splicing helicase BRR2 (EC 3.6.4.13) | protein | 1707 | 45% helix, 18% strand | P32639 |
| C | Pre-mRNA-splicing factor 8 | protein | 248 | 23% helix, 31% strand | P33334 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- PE5 · 3,6,9,12,15,18,21,24-octaoxahexacosan-1-ol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 831 | 0.84 | 0.86 | 89 | empty |
| 2 | 1143 | 0.83 | 0.84 | 121 | empty |
| 3 | 1168 | 0.82 | 0.83 | 113 | empty |
| 4 | 700 | 0.79 | 0.83 | 76 | empty |
| 5 | 686 | 0.76 | 0.81 | 74 | empty |
Interfaces
1 interface between chains.
- A–C · 1635 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 4BGD · Crystal structure of Brr2 in complex with the Jab1/MPN domain of Prp8 · the same entry in another collection · chain A against A, TM-score 1.00
- P32639 · AlphaFold monomer V2.0 prediction for pre-mRNA-splicing helicase BRR2 (P32639) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P32639
- Every structure of UniProt P33334
- Elsewhere: RCSB PDB 4BGD · PDBe 4BGD · UniProt P32639 · UniProt P33334
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.