4JD8: Racemic-[ru(phen)2(dppz)]2+] Bound To Synthetic Dna At High Resolution

Citation:
Abstract
We report an atomic resolution X-ray crystal structure containing both enantiomers of rac-[Ru(phen)2dppz](2+) with the d(ATGCAT)2 DNA duplex (phen = phenanthroline; dppz = dipyridophenazine). The first example of any enantiomeric pair crystallized with a DNA duplex shows different orientations of the Lambda and Delta binding sites, separated by a clearly defined structured water monolayer. Job plots show that the same species is present in solution. Each enantiomer is bound at a TG/CA step and shows intercalation from the minor groove. One water molecule is directly located on one phenazine N atom in the Delta-enantiomer only.
PDB ID: 4JD8Download
MMDB ID: 109452
PDB Deposition Date: 2013/2/24
Updated in MMDB: 2013/09
Experimental Method:
x-ray diffraction
Resolution: 1.16  Å
Source Organism:
Biological Unit for 4JD8: dimeric; determined by author
Molecular Components in 4JD8
Label Count Molecule
Nucleotide(1 molecule)
2
DNA (5'-d(*ap*tp*gp*cp*ap*t)-3')
Molecule annotation
Chemicals (3 molecules)
1
1
2
1
3
1
* Click molecule labels to explore molecular sequence information.

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