MolNFT v1 · #75315 · protein
Crystal structure of the vesicular stomatitis virus RNA free NUCLEOPROTEIN/PHOSPHOPROTEIN complex
3PMK · Nucleocapsid protein: “Crystal structure of the vesicular stomatitis virus RNA free NUCLEOPROTEIN/PHOSPHOPROTEIN complex”. X-ray diffraction, 20 pockets (best druggability 0.79). MolNFT v1 #75315 on GenesisL1: 3D structure, binding…
- PDB
- 3PMK
- Type
- protein
- Length
- 2,167 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleocapsid protein; Phosphoprotein
- UniProt
- B7UCZ2, B7UCZ3
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 5 distinct chains · 48% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E | Nucleocapsid protein | protein | 404 | 48% helix, 3% strand | B7UCZ2 |
| N | Phosphoprotein | protein | 30 | 47% helix, 7% strand | B7UCZ3 |
| O | Phosphoprotein | protein | 29 | 52% helix, 0% strand | B7UCZ3 |
| P, R | Phosphoprotein | protein | 29 | 52% helix, 7% strand | B7UCZ3 |
| Q | Phosphoprotein | protein | 30 | 40% helix, 0% strand | B7UCZ3 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 760 | 0.79 | 0.83 | 72 | empty |
| 2 | 1176 | 0.76 | 0.78 | 99 | empty |
| 3 | 517 | 0.75 | 0.83 | 52 | empty |
| 4 | 417 | 0.70 | 0.81 | 54 | empty |
| 5 | 393 | 0.70 | 0.82 | 46 | empty |
Interfaces
17 interfaces between chains.
- A–D · 2024 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 1989 Ų buried · 23 hydrogen bonds · protein-protein
- C–E · 1989 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 1820 Ų buried · 14 hydrogen bonds · protein-protein
- C–Q · 1534 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 3PMK · Crystal structure of the Vesicular Stomatitis Virus RNA free nucleoprotein/phosphoprotein… · 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 B7UCZ2
- Every structure of UniProt B7UCZ3
- Elsewhere: RCSB PDB 3PMK · PDBe 3PMK · UniProt B7UCZ2 · UniProt B7UCZ3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.