Research workbench
X-ray structure of an all lna quadruplex
Analyse X-ray structure of an all lna quadruplex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4L0A
- Type
- RNA
- Length
- 40 nucleotides
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA/RNA (5'-R(*(TLN)P*(LCG)P*(LCG)P*(LCG)P*(TLN))-3')
- Ligands
- K
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | DNA/RNA (5'-R(*(TLN)P*(LCG)P*(LCG)P*(LCG)P*(TLN))-3') | rna | 5 | — | — |
Ligands and binding sites
- K · Potassium ion · metal · 6 copies · chains A, B, C, D, E, F, G, H
- GOL · Glycerol · additive · 3 copies · chains C, E, F, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
20 interfaces between chains.
- A–C · 256 Ų buried · 14 hydrogen bonds · nucleic-nucleic
- B–D · 252 Ų buried · 12 hydrogen bonds · nucleic-nucleic
- G–H · 245 Ų buried · 13 hydrogen bonds · nucleic-nucleic
- A–B · 243 Ų buried · 13 hydrogen bonds · nucleic-nucleic
- E–G · 240 Ų buried · 12 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 40 modified (nucleotide modification).
Compared structures
- 4L0A · X-ray structure of an all LNA quadruplex · 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 4L0A · PDBe 4L0A
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