Research workbench
[T:Ag+/Hg2+:T--(pH11-pH7; 120s)] Metal-mediated DNA base pair in tensegrity triangle grown at pH 11 and soaked in pH 7 for 120s
Analyse [T:Ag+/Hg2+:T--(pH11-pH7; 120s)] Metal-mediated DNA base pair in tensegrity… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7TFX
- Type
- DNA
- Length
- 42 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 4.99
- Molecule
- DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*TP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'); DNA…
- Ligands
- HG
Structure
x-ray diffraction · resolution 4.99 · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*TP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3') | dna | 21 | — | — |
| B | DNA (5'-D(P*CP*CP*AP*TP*AP*CP*A)-3') | dna | 7 | — | — |
| C | DNA (5'-D(P*GP*GP*CP*TP*GP*CP*T)-3') | dna | 7 | — | — |
| D | DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3') | dna | 7 | — | — |
Ligands and binding sites
- HG · Mercury (II) ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
5 interfaces between chains.
- A–B · 342 Ų buried · 22 hydrogen bonds · nucleic-nucleic
- A–C · 341 Ų buried · 27 hydrogen bonds · nucleic-nucleic
- A–D · 292 Ų buried · 26 hydrogen bonds · nucleic-nucleic
- B–C · 100 Ų buried · 3 hydrogen bonds · nucleic-nucleic
- B–D · 92 Ų buried · 4 hydrogen bonds · nucleic-nucleic
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 7TFX · PDBe 7TFX
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