Research workbench
Crystal structure of an RNA R(CCCIUGGG) with three independent duplexes incorporating tandem I.U wobbles
Analyse Crystal structure of an RNA R(CCCIUGGG) with three independent duplexes… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 409D
- Type
- RNA
- Length
- 48 nucleotides
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(*CP*CP*CP*IP*UP*GP*GP*G)-3')
- Pockets
- 1 · best druggability 0.29
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | RNA (5'-R(*CP*CP*CP*IP*UP*GP*GP*G)-3') | rna | 8 | — | — |
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 | 58 | 0.29 | 0.75 | 8 | empty |
Interfaces
6 interfaces between chains.
- A–B · 423 Ų buried · 52 hydrogen bonds · nucleic-nucleic
- E–F · 422 Ų buried · 39 hydrogen bonds · nucleic-nucleic
- C–D · 420 Ų buried · 42 hydrogen bonds · nucleic-nucleic
- D–F · 123 Ų buried · 3 hydrogen bonds · nucleic-nucleic
- D–E · 101 Ų buried · 3 hydrogen bonds · nucleic-nucleic
Compared structures
- 409D · Crystal structure of an RNA R(CCCIUGGG) with three independent duplexes incorporating… · 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 409D · PDBe 409D
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