Research workbench
26-mer stem-loop RNA
Analyse 26-mer stem-loop RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YMC
- Type
- RNA
- Length
- 52 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (26-mer)
- Ligands
- BA
- Pockets
- 2 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | RNA (26-mer) | rna | 26 | — | — |
Ligands and binding sites
- BA · Barium ion · metal · 10 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 302 | 0.48 | 0.73 | 19 | BA |
| 2 | 224 | 0.43 | 0.73 | 18 | BA |
Interfaces
1 interface between chains.
- A–B · 208 Ų buried · 6 hydrogen bonds · nucleic-nucleic
Compared structures
- 6YMC · 26-mer stem-loop 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 6YMC · PDBe 6YMC
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