Research workbench
Crystal structure of RNA silencing suppressor P19 with 1NT-5'- overhanging double-helical RNA 20MER PUUG(CUG)5CU
Analyse Crystal structure of RNA silencing suppressor P19 with 1NT-5'- overhanging… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4JGN
- Type
- protein + RNA
- Length
- 145 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA silencing suppressor P19; 5'-R(P*UP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*G…
- UniProt
- P69517
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA silencing suppressor P19 | protein | 125 | 38% helix, 26% strand | P69517 |
| E | 5'-R(P*UP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*G P*CP*U)-3' | rna | 20 | — | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A
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 | 100 | 0.32 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–E · 718 Ų buried · 26 hydrogen bonds · protein-nucleic
Compared structures
- 4JGN · Crystal structure of RNA silencing suppressor p19 with 1nt-5'-overhanging double-helical… · 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 P69517
- Elsewhere: RCSB PDB 4JGN · PDBe 4JGN · UniProt P69517
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