Research workbench
[RU(TAP)2(11,12-CN2-DPPZ)]2+ bound to D(CCGGACCCGG/CCGGGTCCGG)2
Analyse [RU(TAP)2(11,12-CN2-DPPZ)]2+ bound to D(CCGGACCCGG/CCGGGTCCGG)2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6G8S
- Type
- DNA
- Length
- 20 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*CP*GP*GP*GP*TP*CP*CP*GP*G)-3'); DNA (5'-D(*CP*CP*GP*GP*AP*CP*CP*CP*GP*G)-3')
- Ligands
- EQQ, BA
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*CP*CP*GP*GP*GP*TP*CP*CP*GP*G)-3') | dna | 10 | — | — |
| B | DNA (5'-D(*CP*CP*GP*GP*AP*CP*CP*CP*GP*G)-3') | dna | 10 | — | — |
Ligands and binding sites
- EQQ · Ruthenium (bis-(tetraazaphenanthrene)) (11,12-dicyano-dipyridophenazine) · ligand · 2 copies · chains A, B
- BA · Barium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 477 Ų buried · 43 hydrogen bonds · nucleic-nucleic
Compared structures
- 6G8S · [Ru(TAP)2(11,12-CN2-dppz)]2+ bound to d(CCGGACCCGG/CCGGGTCCGG)2 · 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 6G8S · PDBe 6G8S
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