Research workbench
Crystal structure of a complex formed between the DNA holliday junction and a bis-acridine molecule.
Analyse Crystal structure of a complex formed between the DNA holliday junction and a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GWA
- Type
- DNA
- Length
- 20 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*TP*CP*GP*GP*TP*AP*CP*CP*GP*A)-3'
- Ligands
- A4C, SPM
- Pockets
- 1 · best druggability 0.27
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 5'-D(*TP*CP*GP*GP*TP*AP*CP*CP*GP*A)-3' | dna | 10 | — | — |
Ligands and binding sites
- A4C · 9,9'-(hexane-1,6-diyldiimino)bis{n-[2-(dimethylamino)ethyl]acridine-4-carboxamide} · ligand · chains A, B
- SPM · Spermine · ligand · 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 | 65 | 0.27 | 0.74 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 304 Ų buried · 29 hydrogen bonds · nucleic-nucleic
Compared structures
- 2GWA · Crystal Structure of a Complex Formed Between the DNA Holliday Junction and a… · 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 2GWA · PDBe 2GWA
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