Research workbench
Crystal structure of C9ORF72 antisense ccccgg repeat RNA associated with lou GEHRIG'S disease and frontotemporal dementia, crystallized with BA2+
Analyse Crystal structure of C9ORF72 antisense ccccgg repeat RNA associated with lou… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5EW7
- Type
- RNA
- Length
- 39 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'- R(*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*C)- 3')
- Ligands
- K, MG, BA
- Pockets
- 1 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA (5'- R(*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*C)- 3') | rna | 19 | — | — |
| B | RNA (5'- R(*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*CP*GP*GP*CP*CP*CP*C)- 3') | rna | 20 | — | — |
Ligands and binding sites
- K · Potassium ion · metal · 4 copies · chains A, B
- MG · Magnesium ion · metal · 4 copies · chains A, B
- BA · Barium ion · metal · chains 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 613 | 0.59 | 0.73 | 38 | K, MG |
Interfaces
1 interface between chains.
- A–B · 856 Ų buried · 80 hydrogen bonds · nucleic-nucleic
Compared structures
- 5EW7 · Crystal structure of C9ORF72 Antisense CCCCGG repeat RNA associated with Lou Gehrig's… · 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 5EW7 · PDBe 5EW7
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