MolNFT v1 · #24999 · protein
Semliki forest virus capsid protein (crystal form I)
1VCP: “Semliki forest virus capsid protein (crystal form I)”. X-ray diffraction, 1 ligand (HG), 2 pockets (best druggability 0.71). MolNFT v1 #24999 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1VCP
- Type
- protein
- Length
- 447 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Semliki forest virus capsid protein
- UniProt
- P03315
- Ligands
- HG
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Semliki forest virus capsid protein | protein | 149 | 7% helix, 50% strand | P03315 |
Ligands and binding sites
- HG · Mercury (II) ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 305 | 0.71 | 0.84 | 45 | empty |
| 2 | 143 | 0.57 | 0.83 | 17 | empty |
Interfaces
2 interfaces between chains.
- B–C · 519 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 377 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 1VCP · Semliki forest virus capsid protein (crystal form I) · 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 P03315
- Elsewhere: RCSB PDB 1VCP · PDBe 1VCP · UniProt P03315
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