Research workbench
Pacifastin related protease inhibitors
Analyse Pacifastin related protease inhibitors in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SND
- Type
- protein
- Length
- 131 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pacifastin-related peptide
- UniProt
- R4UK43
- Ligands
- PO4
- Pockets
- 1 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 0% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D | Pacifastin-related peptide | protein | 33 | 0% helix, 42% strand | R4UK43 |
| B | Pacifastin-related peptide | protein | 32 | 0% helix, 44% strand | R4UK43 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 85 | 0.38 | 0.77 | 16 | empty |
Interfaces
6 interfaces between chains.
- A–B · 457 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 457 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 281 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 193 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 134 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 7SND · Pacifastin related protease inhibitors · 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 R4UK43
- Elsewhere: RCSB PDB 7SND · PDBe 7SND · UniProt R4UK43
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