MolNFT v1 · #119909 · protein + RNA
Zika virus NS3 helicase in complex with ssrna
5GJB: “Zika virus NS3 helicase in complex with ssrna”. X-ray diffraction, 6 pockets (best druggability 0.76). MolNFT v1 #119909 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5GJB
- Type
- protein + RNA
- Length
- 445 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NS3 helicase; RNA (5'-R(*AP*GP*AP*UP*CP*AP*A)-3')
- UniProt
- A0A142DS38
- Pockets
- 6 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NS3 helicase | protein | 440 | 34% helix, 18% strand | A0A142DS38 |
| B | RNA (5'-R(*AP*GP*AP*UP*CP*AP*A)-3') | rna | 5 | — | — |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 318 | 0.76 | 0.88 | 53 | empty |
| 2 | 354 | 0.71 | 0.84 | 42 | empty |
| 3 | 250 | 0.63 | 0.82 | 32 | empty |
| 4 | 74 | 0.35 | 0.76 | 20 | empty |
| 5 | 51 | 0.32 | 0.77 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 824 Ų buried · 20 hydrogen bonds · protein-nucleic
Compared structures
- 5GJB · Zika virus NS3 helicase in complex with ssRNA · 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 A0A142DS38
- Elsewhere: RCSB PDB 5GJB · PDBe 5GJB · UniProt A0A142DS38
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