Research workbench
Tetrameric BAP29 vded with disulfide bonds in crystal contacts
Analyse Tetrameric BAP29 vded with disulfide bonds in crystal contacts in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4W80
- Type
- protein
- Length
- 245 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B-cell receptor-associated protein 29
- UniProt
- Q9UHQ4
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.54
Structure
x-ray diffraction · 3 distinct chains · 94% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | B-cell receptor-associated protein 29 | protein | 64 | 92% helix, 0% strand | Q9UHQ4 |
| C | B-cell receptor-associated protein 29 | protein | 59 | 95% helix, 0% strand | Q9UHQ4 |
| D | B-cell receptor-associated protein 29 | protein | 58 | 97% helix, 0% strand | Q9UHQ4 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 10 copies · chains A, C, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 134 | 0.54 | 0.81 | 32 | empty |
| 2 | 72 | 0.49 | 0.84 | 21 | empty |
Interfaces
6 interfaces between chains.
- B–D · 1443 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 1435 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1035 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1023 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 375 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4W80 · Tetrameric BAP29 vDED with disulfide bonds in crystal contacts · the same entry in another collection · chain D against D, TM-score 1.00
- Q9UHQ4 · AlphaFold monomer V2.0 prediction for B-cell receptor-associated protein 29 (Q9UHQ4) · a predicted model of the same protein · chain D against A, TM-score 0.92
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 Q9UHQ4
- Elsewhere: RCSB PDB 4W80 · PDBe 4W80 · UniProt Q9UHQ4
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