MolNFT v1 · #161716 · RNA
Structure of the glutamine II riboswitch
6QN3 · RNA (51-mer): “Structure of the glutamine II riboswitch”. X-ray diffraction, 3 ligands (GLN, MG, BR), 5 pockets (best druggability 0.70). MolNFT v1 #161716 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6QN3
- Type
- RNA
- Length
- 100 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (51-mer)
- Ligands
- GLN, MG, BR
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | RNA (51-mer) | rna | 50 | — | — |
Ligands and binding sites
- GLN · Glutamine · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 4 copies · chains A, B
- BR · Bromide ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 974 | 0.70 | 0.75 | 43 | MG, GLN |
| 2 | 621 | 0.63 | 0.75 | 33 | empty |
| 3 | 123 | 0.37 | 0.74 | 13 | GLN, MG |
| 4 | 87 | 0.35 | 0.76 | 14 | MG |
| 5 | 77 | 0.34 | 0.76 | 14 | MG |
Interfaces
1 interface between chains.
- A–B · 1538 Ų buried · 92 hydrogen bonds · nucleic-nucleic
Compared structures
- 6QN3 · Structure of the Glutamine II Riboswitch · 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 6QN3 · PDBe 6QN3
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