Research workbench
Holliday junctions formed from telomeric DNA
Analyse Holliday junctions formed from telomeric DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GDS
- Type
- DNA
- Length
- 40 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Telomeric DNA (5' ctaaccctaa) 10MER; Telomeric DNA (5'-ttagggttag)-3') 10MER
- Pockets
- 2 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Telomeric DNA (5' ctaaccctaa) 10MER | dna | 10 | — | — |
| B, D | Telomeric DNA (5'-ttagggttag)-3') 10MER | dna | 10 | — | — |
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 | 166 | 0.40 | 0.73 | 17 | empty |
| 2 | 100 | 0.33 | 0.73 | 14 | empty |
Interfaces
6 interfaces between chains.
- B–C · 273 Ų buried · 22 hydrogen bonds · nucleic-nucleic
- A–D · 272 Ų buried · 22 hydrogen bonds · nucleic-nucleic
- A–C · 227 Ų buried · 7 hydrogen bonds · nucleic-nucleic
- C–D · 200 Ų buried · 17 hydrogen bonds · nucleic-nucleic
- A–B · 195 Ų buried · 16 hydrogen bonds · nucleic-nucleic
Compared structures
- 6GDS · 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 6GDS · PDBe 6GDS
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