MolNFT v1 · #95453 · RNA
RNA 8MER duplex modified with 4-se-uridine
4IQS · RNA (5'-R(*GP*UP*GP*(S5)P*AP*CP*AP*C)-3'): “RNA 8MER duplex modified with 4-se-uridine”. X-ray diffraction, 1 pocket (best druggability 0.43). MolNFT v1 #95453 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4IQS
- Type
- RNA
- Length
- 48 nucleotides
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(*GP*UP*GP*(S5)P*AP*CP*AP*C)-3')
- Pockets
- 1 · best druggability 0.43
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | RNA (5'-R(*GP*UP*GP*(S5)P*AP*CP*AP*C)-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 | 243 | 0.43 | 0.72 | 20 | empty |
Interfaces
9 interfaces between chains.
- C–D · 383 Ų buried · 39 hydrogen bonds · nucleic-nucleic
- A–B · 381 Ų buried · 32 hydrogen bonds · nucleic-nucleic
- C–F · 92 Ų buried · 4 hydrogen bonds · nucleic-nucleic
- B–C · 89 Ų buried · 3 hydrogen bonds · nucleic-nucleic
- A–D · 89 Ų buried · 3 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 6 modified (nucleotide modification).
Compared structures
- 4IQS · RNA 8mer duplex modified with 4-Se-Uridine · 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 4IQS · PDBe 4IQS
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