MolNFT v1 · #58418 · RNA
Crystal structure of domain III of the cricket paralysis virus ires RNA
3B31 · RNA (29-mer): “Crystal structure of domain III of the cricket paralysis virus ires RNA”. X-ray diffraction, 2 ligands (IRI, PO4), 1 pocket (best druggability 0.56). MolNFT v1 #58418 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3B31
- Type
- RNA
- Length
- 43 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (29-mer); RNA (5'-R(P*UP*AP*AP*GP*AP*AP*AP*UP*UP*UP*AP*CP*CP*U)-3')
- Ligands
- IRI, PO4
- Pockets
- 1 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (29-mer) | rna | 29 | — | — |
| B | RNA (5'-R(P*UP*AP*AP*GP*AP*AP*AP*UP*UP*UP*AP*CP*CP*U)-3') | rna | 14 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 390 | 0.56 | 0.75 | 24 | IRI |
Interfaces
1 interface between chains.
- A–B · 492 Ų buried · 29 hydrogen bonds · nucleic-nucleic
Compared structures
- 3B31 · Crystal structure of domain III of the Cricket Paralysis Virus IRES RNA · 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 3B31 · PDBe 3B31
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