MolNFT v1 · #96213 · DNA
Racemic-[RU(PHEN)2(DPPZ)]2+] bound to synthetic DNA at high resolution
4JD8 · DNA (5'-D(*AP*TP*GP*CP*AP*T)-3'): “Racemic-[RU(PHEN)2(DPPZ)]2+] bound to synthetic DNA at high resolution”. X-ray diffraction, 3 ligands (0TN, RKP, K). MolNFT v1 #96213 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4JD8
- Type
- DNA
- Length
- 12 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*AP*TP*GP*CP*AP*T)-3')
- Ligands
- 0TN, RKP, K
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA (5'-D(*AP*TP*GP*CP*AP*T)-3') | dna | 6 | — | — |
Ligands and binding sites
- 0TN · Delta-Ru(phen)2(dppz) complex · ligand · chains A, B
- RKP · Lambda-Ru(phen)2(dppz) complex · ligand · chains A, B
- K · Potassium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 271 Ų buried · 20 hydrogen bonds · nucleic-nucleic
Compared structures
- 4JD8 · Racemic-[Ru(phen)2(dppz)]2+] bound to synthetic DNA at high resolution · 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 4JD8 · PDBe 4JD8
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