MolNFT v1 · #145781 · RNA
RNA octamer containing 2'-ome, 4'- cbeta-ome U.
6CY4 · RNA (5'-R(*(CBV)P*GP*AP*AP*(UOB)P*UP*CP*G)-3'): “RNA octamer containing 2'-ome, 4'- cbeta-ome U.”. X-ray diffraction, 1 pocket (best druggability 0.32). MolNFT v1 #145781 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6CY4
- Type
- RNA
- Length
- 64 nucleotides
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(*(CBV)P*GP*AP*AP*(UOB)P*UP*CP*G)-3')
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | RNA (5'-R(*(CBV)P*GP*AP*AP*(UOB)P*UP*CP*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 | 120 | 0.32 | 0.72 | 14 | empty |
Interfaces
12 interfaces between chains.
- E–F · 390 Ų buried · 26 hydrogen bonds · nucleic-nucleic
- C–D · 387 Ų buried · 27 hydrogen bonds · nucleic-nucleic
- G–H · 385 Ų buried · 27 hydrogen bonds · nucleic-nucleic
- A–B · 383 Ų buried · 30 hydrogen bonds · nucleic-nucleic
- A–D · 114 Ų buried · 4 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 16 modified (nucleotide modification).
Compared structures
- 6CY4 · RNA octamer containing 2'-OMe, 4'- Cbeta-OMe U. · 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 6CY4 · PDBe 6CY4
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