Research workbench
Crystal structure of the oligomerization domain of VP35 from reston virus
Analyse Crystal structure of the oligomerization domain of VP35 from reston virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GBQ
- Type
- protein
- Length
- 530 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polymerase cofactor VP35
- UniProt
- Q8JPY0
- Pockets
- 1 · best druggability 0.64
Structure
x-ray diffraction · 8 distinct chains · 92% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymerase cofactor VP35 | protein | 70 | 96% helix, 0% strand | Q8JPY0 |
| B | Polymerase cofactor VP35 | protein | 65 | 86% helix, 0% strand | Q8JPY0 |
| C | Polymerase cofactor VP35 | protein | 69 | 96% helix, 0% strand | Q8JPY0 |
| D | Polymerase cofactor VP35 | protein | 68 | 94% helix, 0% strand | Q8JPY0 |
| E | Polymerase cofactor VP35 | protein | 62 | 95% helix, 0% strand | Q8JPY0 |
| F | Polymerase cofactor VP35 | protein | 67 | 91% helix, 0% strand | Q8JPY0 |
| G | Polymerase cofactor VP35 | protein | 66 | 88% helix, 0% strand | Q8JPY0 |
| H | Polymerase cofactor VP35 | protein | 63 | 94% helix, 0% strand | Q8JPY0 |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 495 | 0.64 | 0.77 | 50 | empty |
Interfaces
14 interfaces between chains.
- B–C · 1677 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 1631 Ų buried · 18 hydrogen bonds · protein-protein
- G–H · 1525 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 1519 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1401 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6GBQ · Crystal Structure of the oligomerization domain of Vp35 from Reston virus · the same entry in another collection · chain A against A, TM-score 1.00
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 Q8JPY0
- Elsewhere: RCSB PDB 6GBQ · PDBe 6GBQ · UniProt Q8JPY0
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