Research workbench
Complex between neamine and the 16S-rRNA a-site
Analyse Complex between neamine and the 16S-rRNA a-site in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ET8
- Type
- RNA
- Length
- 42 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-R(*CP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP *UP*CP*GP*C)-3'
- Ligands
- XXX
- Pockets
- 1 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 5'-R(*CP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP *UP*CP*GP*C)-3' | rna | 21 | — | — |
Ligands and binding sites
- XXX · (1R,2R,3S,4R,6S)-4,6-diamino-2,3-dihydroxycyclohexyl 2, 6-diamino-2,6-dideoxy-alpha-D-glucopyranoside · ligand · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 434 | 0.53 | 0.73 | 29 | empty |
Interfaces
1 interface between chains.
- A–B · 989 Ų buried · 100 hydrogen bonds · nucleic-nucleic
Compared structures
- 2ET8 · Complex Between Neamine and the 16S-RRNA A-Site · 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 2ET8 · PDBe 2ET8
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