Research workbench
Canine panleukopenia virus empty capsid structure
Analyse Canine panleukopenia virus empty capsid structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1C8D
- Type
- protein
- Length
- 548 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Canine parvovirus capsid
- UniProt
- P30129
- Ligands
- CA
- Pockets
- 9 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 10% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Canine parvovirus capsid | protein | 548 | 10% helix, 29% strand | P30129 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.71 | 0.97 | 17 | empty |
| 2 | 722 | 0.70 | 0.77 | 84 | empty |
| 3 | 457 | 0.57 | 0.74 | 34 | empty |
| 4 | 161 | 0.53 | 0.80 | 26 | empty |
| 5 | 85 | 0.49 | 0.83 | 23 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1C8D · Canine panleukopenia virus empty capsid structure · 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 P30129
- Elsewhere: RCSB PDB 1C8D · PDBe 1C8D · UniProt P30129
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