› 6rio

Solution NMR

Imidazole Polyamide-DNA complex NMR structure (5'-CGATGTACATCG-3')

Released:
DOI: 10.2210/pdb6rio/pdb
PDB entry 6rio coloured by chain, ensemble of 10 models, front view.
PDB entry 6rio coloured by chain, ensemble of 10 models, side view.
PDB entry 6rio coloured by chain, ensemble of 10 models, top view.
Source organism: synthetic construct
Primary publication:
Sequence-Selective Minor Groove Recognition of a DNA Duplex Containing Synthetic Genetic Components.
Padroni G, Withers JM, Taladriz-Sender A, Reichenbach LF, Parkinson JA, Burley GA
J Am Chem Soc 141 9555-9563 (2019)
PMID: 31117639

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120547 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-(*(DC5)P*GP*AP*TP*GP*TP*AP*CP*AP*TP*CP*(DG3))-3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 12 nucleotides
Theoretical weight: 3.58 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand K4Z 1 x K4Z
No modified residues

Experiments and Validation Details

Entry percentile scores
Chemical shift assignment: 41%
Refinement method: matrix relaxation
Expression system: Not provided

Quick links

Citations

1 citations in other articles

Molecular dynamics simulation reveals DNA-specific recognition mechanism via c-Myb in pseudo-palindromic consensus of mim-1 promoter.
Weng et al. (2023)