MolNFT v1 · #125664 · DNA
Lambda-[RU(BPY)2(DPPZ)]2+ bound to brominated DNA
5LFS · DNA (5'-D(*GP*CP*CP*G)-3'): “Lambda-[RU(BPY)2(DPPZ)]2+ bound to brominated DNA”. X-ray diffraction, 3 ligands (R1Z, BA, CL). MolNFT v1 #125664 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LFS
- Type
- DNA
- Length
- 8 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*GP*CP*CP*G)-3'); DNA (5'-D(*(CBR)P*GP*GP*C)-3')
- Ligands
- R1Z, BA, CL
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*GP*CP*CP*G)-3') | dna | 4 | — | — |
| C | DNA (5'-D(*(CBR)P*GP*GP*C)-3') | dna | 4 | — | — |
Ligands and binding sites
- R1Z · Delta-[Ru(bpy)2dppz]2+ · ligand · chains A, C
- BA · Barium ion · metal · chains A
- CL · Chloride ion · ion · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–C · 195 Ų buried · 15 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 5LFS · Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated 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 5LFS · PDBe 5LFS
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