MolNFT v1 · #9961 · RNA
Structure of the hybrid RNA/DNA R-gcuucggc-D[F]U in presence of IR(NH3)6+++
1ICG · 5'-R(*GP*CP*UP*UP*CP*GP*GP*C)-D(P*(UFP))-3': “Structure of the hybrid RNA/DNA R-gcuucggc-D[F]U in presence of IR(NH3)6+++”. X-ray diffraction, 2 ligands (IRI, CL), 1 pocket (best druggability 0.27). MolNFT v1 #9961 on GenesisL1: 3D…
- PDB
- 1ICG
- Type
- RNA
- Length
- 18 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-R(*GP*CP*UP*UP*CP*GP*GP*C)-D(P*(UFP))-3'
- Ligands
- IRI, CL
- Pockets
- 1 · best druggability 0.27
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 5'-R(*GP*CP*UP*UP*CP*GP*GP*C)-D(P*(UFP))-3' | rna | 9 | — | — |
Ligands and binding sites
- IRI · Iridium hexammine ion · ligand · 2 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.27 | 0.73 | 11 | CL |
Interfaces
1 interface between chains.
- A–B · 360 Ų buried · 28 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 1ICG · Structure of the hybrid RNA/DNA R-gcuucggc-D[F]U in presence of IR(NH3)6+++ · 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 1ICG · PDBe 1ICG
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