Research workbench
Vibrio vulnificus adenine riboswitch variant, grown in both SR2+ and MG2+
Analyse Vibrio vulnificus adenine riboswitch variant, grown in both SR2+ and MG2+ in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4TZY
- Type
- RNA
- Length
- 71 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vibrio vulnificus adenine riboswitch
- Ligands
- ADE, SR, MG
- Pockets
- 2 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Vibrio vulnificus adenine riboswitch | rna | 71 | — | — |
Ligands and binding sites
- ADE · Adenine · ligand · chains X
- SR · Strontium ion · metal · 7 copies · chains X
- MG · Magnesium ion · metal · 2 copies · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 809 | 0.66 | 0.75 | 37 | SR, MG |
| 2 | 243 | 0.45 | 0.73 | 21 | SR |
Compared structures
- 4TZY · Vibrio vulnificus Adenine Riboswitch Variant, grown in both Sr2+ and Mg2+ · 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 4TZY · PDBe 4TZY
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