Research workbench
Crystal structure of the orsay virus delta protein N-terminal fragment (aa 1~66)
Analyse Crystal structure of the orsay virus delta protein N-terminal fragment (aa 1~66) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JIE
- Type
- protein
- Length
- 294 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein delta
- UniProt
- E9KNV6
- Pockets
- 1 · best druggability 0.83
Structure
x-ray diffraction · 5 distinct chains · 78% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Protein delta | protein | 57 | 79% helix, 7% strand | E9KNV6 |
| C | Protein delta | protein | 57 | 79% helix, 7% strand | E9KNV6 |
| E | Protein delta | protein | 62 | 79% helix, 6% strand | E9KNV6 |
| D | Protein delta | protein | 59 | 80% helix, 7% strand | E9KNV6 |
| A | Protein delta | protein | 59 | 73% helix, 7% strand | E9KNV6 |
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 | 714 | 0.83 | 0.86 | 90 | empty |
Interfaces
10 interfaces between chains.
- C–D · 1525 Ų buried · 13 hydrogen bonds · protein-protein
- B–E · 1500 Ų buried · 15 hydrogen bonds · protein-protein
- B–D · 1462 Ų buried · 9 hydrogen bonds · protein-protein
- C–A · 1418 Ų buried · 9 hydrogen bonds · protein-protein
- E–A · 1378 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5JIE · Crystal structure of the Orsay virus delta protein N-terminal fragment (aa 1~66) · the same entry in another collection · chain B against B, 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 E9KNV6
- Elsewhere: RCSB PDB 5JIE · PDBe 5JIE · UniProt E9KNV6
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