MolNFT v1 · #103213 · RNA
Speciation of a group I intron into a lariat capping ribozyme (heavy atom derivative)
4P9R · RNA (189-mer): “Speciation of a group I intron into a lariat capping ribozyme (heavy atom derivative)”. X-ray diffraction, 2 ligands (IRI, MG), 6 pockets (best druggability 0.72). MolNFT v1 #103213 on GenesisL1: 3D structure…
- PDB
- 4P9R
- Type
- RNA
- Length
- 189 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (189-mer)
- Ligands
- IRI, MG
- Pockets
- 6 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (189-mer) | rna | 189 | — | — |
Ligands and binding sites
- IRI · Iridium hexammine ion · ligand · 10 copies · chains A
- MG · Magnesium ion · metal · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 875 | 0.72 | 0.78 | 36 | IRI |
| 2 | 1192 | 0.69 | 0.75 | 48 | IRI |
| 3 | 367 | 0.51 | 0.73 | 24 | IRI |
| 4 | 56 | 0.42 | 0.83 | 14 | empty |
| 5 | 171 | 0.37 | 0.72 | 19 | IRI |
Compared structures
- 4P9R · Speciation of a group I intron into a lariat capping ribozyme (Heavy atom derivative) · 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 4P9R · PDBe 4P9R
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