MolNFT v1 · #188914 · protein + RNA
Structure of vesicular stomatitis virus (helical reconstruction, 4.1 a resolution)
7UMK · Nucleoprotein: “Structure of vesicular stomatitis virus (helical reconstruction, 4.1 a resolution)”. Electron microscopy, 11 pockets (best druggability 0.70). MolNFT v1 #188914 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7UMK
- Type
- protein + RNA
- Length
- 787 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoprotein; Matrix protein; RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
- UniProt
- P03521, P03519
- Pockets
- 11 · best druggability 0.70
Structure
electron microscopy · 4 distinct chains · 32% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoprotein | protein | 421 | 40% helix, 5% strand | P03521 |
| B | Matrix protein | protein | 185 | 19% helix, 33% strand | P03519 |
| C | Matrix protein | protein | 172 | 24% helix, 32% strand | P03519 |
| R | RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*U)-3') | rna | 9 | — | — |
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 415 | 0.70 | 0.82 | 34 | empty |
| 2 | 237 | 0.61 | 0.80 | 43 | empty |
| 3 | 69 | 0.52 | 0.85 | 15 | empty |
| 4 | 112 | 0.51 | 0.82 | 21 | empty |
| 5 | 165 | 0.48 | 0.78 | 26 | empty |
Interfaces
3 interfaces between chains.
- A–R · 1045 Ų buried · 11 hydrogen bonds · protein-nucleic
- B–C · 636 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 352 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7UMK · Structure of vesicular stomatitis virus (helical reconstruction, 4.1 A resolution) · 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 P03521
- Every structure of UniProt P03519
- Elsewhere: RCSB PDB 7UMK · PDBe 7UMK · UniProt P03521 · UniProt P03519
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