MolNFT v1 · #21768 · protein
Crystal structure of D-63 from sulfolobus spindle virus 1
1SKV · Hypothetical 7.5 kda protein: “Crystal structure of D-63 from sulfolobus spindle virus 1”. X-ray diffraction, 1 pocket (best druggability 0.37). MolNFT v1 #21768 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1SKV
- Type
- protein
- Length
- 239 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical 7.5 kda protein
- UniProt
- P20215
- Pockets
- 1 · best druggability 0.37
Structure
x-ray diffraction · 4 distinct chains · 87% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical 7.5 kda protein | protein | 64 | 88% helix, 0% strand | P20215 |
| B | Hypothetical 7.5 kda protein | protein | 61 | 84% helix, 0% strand | P20215 |
| C | Hypothetical 7.5 kda protein | protein | 58 | 86% helix, 0% strand | P20215 |
| D | Hypothetical 7.5 kda protein | protein | 56 | 89% helix, 0% strand | P20215 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.37 | 0.75 | 18 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1377 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1326 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 391 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 263 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 253 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 7 modified (engineered).
Compared structures
- 1SKV · Crystal Structure of D-63 from Sulfolobus Spindle Virus 1 · 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 P20215
- Elsewhere: RCSB PDB 1SKV · PDBe 1SKV · UniProt P20215
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