MolNFT v1 · #151651 · RNA
Structure of ARF1 RNA
6HU6 · RNA (19-mer): “Structure of ARF1 RNA”. X-ray diffraction, 1 ligand (NH4), 1 pocket (best druggability 0.48). MolNFT v1 #151651 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6HU6
- Type
- RNA
- Length
- 57 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (19-mer); RNA (5'-R(*GP*AP*GP*UP*GP*CP*CP*AP*GP*A)-3'); RNA…
- Ligands
- NH4
- Pockets
- 1 · best druggability 0.48
Structure
x-ray diffraction · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (19-mer) | rna | 19 | — | — |
| E | RNA (19-mer) | rna | 19 | — | — |
| B | RNA (5'-R(*GP*AP*GP*UP*GP*CP*CP*AP*GP*A)-3') | rna | 10 | — | — |
| F | RNA (5'-R(*CP*UP*GP*GP*UP*AP*CP*UP*C)-3') | rna | 9 | — | — |
Ligands and binding sites
- NH4 · Ammonium ion · ion · 3 copies · chains A
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 | 347 | 0.48 | 0.72 | 27 | empty |
Interfaces
5 interfaces between chains.
- A–E · 908 Ų buried · 109 hydrogen bonds · nucleic-nucleic
- B–F · 459 Ų buried · 54 hydrogen bonds · nucleic-nucleic
- E–F · 92 Ų buried · 2 hydrogen bonds · nucleic-nucleic
- A–B · 88 Ų buried · 2 hydrogen bonds · nucleic-nucleic
- E–B · 83 Ų buried · 2 hydrogen bonds · nucleic-nucleic
Compared structures
- 6HU6 · Structure of ARF1 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 6HU6 · PDBe 6HU6
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