Research workbench
Short PCSK9 delta-P' complex with FUSION2 peptide
Analyse Short PCSK9 delta-P' complex with FUSION2 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5VLA
- Type
- protein
- Length
- 376 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proprotein convertase SUBTILISIN/KEXIN type 9…
- EC
- 3.4.21.-
- UniProt
- Q8NBP7
- Ligands
- CA
- Pockets
- 2 · best druggability 0.25
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proprotein convertase SUBTILISIN/KEXIN type 9 (EC 3.4.21.-) | protein | 352 | 30% helix, 29% strand | Q8NBP7 |
| Z | Thr-val-phe-thr-ser-TRP-glu-glu-tyr-leu-asp-TRP-val-met- pro-TRP-asn-leu-val-arg-ile-gly-leu-leu | protein | 24 | 50% helix, 4% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 56 | 0.25 | 0.73 | 15 | empty |
| 2 | 53 | 0.25 | 0.72 | 17 | empty |
Interfaces
1 interface between chains.
- A–Z · 857 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 5VLA · Short PCSK9 delta-P' complex with Fusion2 peptide · 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 Q8NBP7
- Elsewhere: RCSB PDB 5VLA · PDBe 5VLA · UniProt Q8NBP7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.