Research workbench
DNA-DB818 complex: the DNA sequence 5'-cgcgaattcgcg-3' presents a binding site for the heterocyclic small molecule (DB818).
Analyse DNA-DB818 complex: the DNA sequence 5'-cgcgaattcgcg-3' presents a binding site… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KU4
- Type
- DNA
- Length
- 24 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Ligands
- D1B, MG
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | — | dna | 12 | — | — |
Ligands and binding sites
- D1B · 2-(5-{4-[amino(imino)methyl]phenyl}-2-thienyl)-1H-benzimidazole-6- carboximidamide dihydrochloride · ligand · chains A, B
- MG · Magnesium ion · metal
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7KU4 · DNA-DB818 complex: The DNA sequence 5'-CGCGAATTCGCG-3' presents a binding site for the… · 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 7KU4 · PDBe 7KU4
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