MolNFT v1 · #122788 · RNA
Structure of the lariat form of a chimeric derivative of the oceanobacillus iheyensis group II intron in the presence of NH4+ and MG2+.
5J01 · Group II intron lariat: “Structure of the lariat form of a chimeric derivative of the oceanobacillus iheyensis group II intron in the…”. X-ray diffraction, 2 ligands (MG, NH4), 16 pockets (best druggability 0.79). MolNFT v1 #122788…
- PDB
- 5J01
- Type
- RNA
- Length
- 414 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Group II intron lariat
- Ligands
- MG, NH4
- Pockets
- 16 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Group II intron lariat | rna | 414 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 637 | 0.79 | 0.85 | 71 | MG |
| 2 | 638 | 0.79 | 0.85 | 51 | empty |
| 3 | 684 | 0.67 | 0.77 | 36 | MG |
| 4 | 294 | 0.67 | 0.84 | 34 | MG |
| 5 | 377 | 0.67 | 0.81 | 24 | empty |
Compared structures
- 5J01 · Structure of the lariat form of a chimeric derivative of the Oceanobacillus iheyensis… · 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 5J01 · PDBe 5J01
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