4WKJ

Crystallographic Structure of a Dodecameric RNA-DNA Hybrid

Summary for 4WKJ

• Entry DOI: 10.2210/pdb4wkj/pdb
• Descriptor: RNA (5'-R(*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*C)-3'), DNA (5'-D(*GP*AP*AP*TP*CP*AP*GP*GP*TP*GP*TP*C)-3'), MAGNESIUM ION, ... (4 entities in total)
• Functional Keywords: rna, dna, hybrid, duplex, rna-dna complex, rna/dna
• Biological source: Escherichia coli; More
• Total number of polymer chains: 8
• Total formula weight: 29923.20

Authors

Davis, R.R.,Shaban, N.M.,Perrino, F.W.,Hollis, T. (deposition date: 2014-10-02, release date: 2014-10-22, Last modification date: 2023-09-27)

Primary citation

Davis, R.R.,Shaban, N.M.,Perrino, F.W.,Hollis, T.
Crystal structure of RNA-DNA duplex provides insight into conformational changes induced by RNase H binding.
Cell Cycle, 14:668-673, 2015

PubMed Abstract: RNA-DNA hybrids play essential roles in a variety of biological processes, including DNA replication, transcription, and viral integration. Ribonucleotides incorporated within DNA are hydrolyzed by RNase H enzymes in a removal process that is necessary for maintaining genomic stability. In order to understand the structural determinants involved in recognition of a hybrid substrate by RNase H we have determined the crystal structure of a dodecameric non-polypurine/polypyrimidine tract RNA-DNA duplex. A comparison to the same sequence bound to RNase H, reveals structural changes to the duplex that include widening of the major groove to 12.5 Å from 4.2 Å and decreasing the degree of bending along the axis which may play a crucial role in the ribonucleotide recognition and cleavage mechanism within RNase H. This structure allows a direct comparison to be made about the conformational changes induced in RNA-DNA hybrids upon binding to RNase H and may provide insight into how dysfunction in the endonuclease causes disease.

PubMed: 25664393
DOI: 10.4161/15384101.2014.994996

Experimental method

X-RAY DIFFRACTION (2.8 Å)