Research workbench
Crystal structure of the FMN riboswitch bound to FMN, cs+ soak.
Analyse Crystal structure of the FMN riboswitch bound to FMN, cs+ soak. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3F2X
- Type
- RNA
- Length
- 109 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- FMN riboswitch
- Ligands
- FMN, MG, CS
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | FMN riboswitch | rna | 109 | — | — |
Ligands and binding sites
- FMN · Flavin mononucleotide · ligand · chains X
- MG · Magnesium ion · metal · 13 copies · chains X
- CS · Cesium ion · metal · 4 copies · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 830 | 0.74 | 0.80 | 43 | FMN, MG, CS |
| 2 | 127 | 0.44 | 0.78 | 16 | empty |
| 3 | 127 | 0.36 | 0.73 | 14 | MG |
| 4 | 58 | 0.30 | 0.76 | 9 | CS |
| 5 | 55 | 0.29 | 0.76 | 14 | MG |
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 3F2X · Crystal structure of the FMN riboswitch bound to FMN, Cs+ soak. · the same entry in another collection · chain X against X, 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 3F2X · PDBe 3F2X
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