MolNFT v1 · #149896 · DNA
Holliday junctions formed from telomeric DNA
6GDN · Telomere DNA (42-mer): “Holliday junctions formed from telomeric DNA”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.49). MolNFT v1 #149896 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6GDN
- Type
- DNA
- Length
- 84 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Telomere DNA (42-mer)
- Ligands
- MG
- Pockets
- 2 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Telomere DNA (42-mer) | dna | 42 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 358 | 0.49 | 0.72 | 25 | empty |
| 2 | 102 | 0.30 | 0.71 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1116 Ų buried · 64 hydrogen bonds · nucleic-nucleic
Compared structures
- 6GDN · Holliday Junctions formed from Telomeric DNA · 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 6GDN · PDBe 6GDN
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