Research workbench
Solution structure of the tobramycin-RNA aptamer complex, NMR, 13 structures
Analyse Solution structure of the tobramycin-RNA aptamer complex, NMR, 13 structures in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2TOB
- Type
- RNA
- Length
- 20 nucleotides
- Chains
- 1
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'- R(*AP*CP*UP*UP*GP*GP*UP*UP*UP*AP*GP*GP*UP*AP*AP*UP*GP*AP*GP*U)-3')
- Ligands
- TOA, TOC, 2TB
- Pockets
- 1 · best druggability 0.38
Structure
solution nmr · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (5'- R(*AP*CP*UP*UP*GP*GP*UP*UP*UP*AP*GP*GP*UP*AP*AP*UP*GP*AP*GP*U)-3') | rna | 20 | — | — |
Ligands and binding sites
- TOA · 3-ammonio-3-deoxy-alpha-D-glucopyranose · ligand · chains A
- TOC · 2,6-diammonio-2,3,6-trideoxy-alpha-D-glucopyranose · ligand · chains A
- 2TB · 1,3-diamino-4,5,6-trihydroxy-cyclohexane · ligand · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 107 | 0.38 | 0.76 | 15 | TOA, 2TB |
Compared structures
- 2TOB · Solution structure of the tobramycin-RNA aptamer complex, NMR, 13 structures · 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 2TOB · PDBe 2TOB
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