Research workbench
SARS-cov-2 frameshifting pseudoknot RNA
Analyse SARS-cov-2 frameshifting pseudoknot RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MKY
- Type
- RNA
- Length
- 65 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (66-mer)
- Ligands
- NCO, MG, NA, K
- Pockets
- 1 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (66-mer) | rna | 65 | — | — |
Ligands and binding sites
- NCO · Cobalt hexammine(iii) · ligand · chains A
- MG · Magnesium ion · metal · 9 copies · chains A
- NA · Sodium ion · metal · 4 copies · chains A
- K · Potassium ion · metal · 2 copies · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1175 | 0.70 | 0.76 | 52 | NCO, K, MG, NA, MPD |
Compared structures
- 7MKY · SARS-CoV-2 frameshifting pseudoknot RNA · 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
- Elsewhere: RCSB PDB 7MKY · PDBe 7MKY
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