MolNFT v1 · #181189 · RNA
Ana modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')PPP(5')G
7LNE · RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)…: “Ana modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')PPP(5')G”. X-ray diffraction, 3 ligands (GAO, GP3, SO4), 1 pocket (best druggability 0.43). MolNFT v1…
- PDB
- 7LNE
- Type
- RNA
- Length
- 26 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG) P*AP*CP*UP*UP*AP*AP*GP*UP*CP*(GAO))-3')
- Ligands
- GAO, GP3, SO4
- Pockets
- 1 · best druggability 0.43
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG) P*AP*CP*UP*UP*AP*AP*GP*UP*CP*(GAO))-3') | rna | 13 | — | — |
Ligands and binding sites
- GAO · Guanine arabinose-5'-phosphate · ligand · 2 copies · chains A, B
- GP3 · Diguanosine-5'-triphosphate · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, 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 | 235 | 0.43 | 0.73 | 20 | SO4 |
Interfaces
1 interface between chains.
- A–B · 677 Ų buried · 44 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 8 modified, 2 covalent (nucleotide modification, covalent ligand).
Compared structures
- 7LNE · ANA modification at 3' end of RNA primer complex with guanosine dinucleotide ligand… · 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 7LNE · PDBe 7LNE
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