Sequence preference and structural heterogeneity of BZ junctions

Doyoun Kim, Jeonghwan Hur, Ji Hoon Han, Sung Chul Ha, Donghyuk Shin, Sangho Lee, Soyoung Park, Hiroshi Sugiyama, Kyeong Kyu Kim

Research output: Contribution to journalArticlepeer-review

10 Citations (Scopus)

Abstract

BZ junctions, which connect B-DNA to Z-DNA, are necessary for local transformation of B-DNA to Z-DNA in the genome. However, the limited information on the junction-forming sequences and junction structures has led to a lack of understanding of the structural diversity and sequence preferences of BZ junctions. We determined three crystal structures of BZ junctions with diverse sequences followed by spectroscopic validation of DNA conformation. The structural features of the BZ junctions were well conserved regardless of sequences via the continuous base stacking through B-to-Z DNA with A-T base extrusion. However, the sequence-dependent structural heterogeneity of the junctions was also observed in base step parameters that are correlated with steric constraints imposed during Z-DNA formation. Further, circular dichroism and fluorescence-based analysis of BZ junctions revealed that a base extrusion was only found at the A-T base pair present next to a stable dinucleotide Z-DNA unit. Our findings suggest that Z-DNA formation in the genome is influenced by the sequence preference for BZ junctions.

Original languageEnglish
Pages (from-to)10504-10513
Number of pages10
JournalNucleic acids research
Volume46
Issue number19
DOIs
Publication statusPublished - 2018 Nov 2

Bibliographical note

Funding Information:
Samsung Science & Technology Foundation [SSTF-BA1301-01 to K.K.K.]. Funding for open access charge: Samsung Science & Technology Foundation [SSTF-BA1301-01 to K.K.K.]. Conflict of interest statement. None declared.

Publisher Copyright:
© The Author(s) 2018.

All Science Journal Classification (ASJC) codes

  • Genetics

Fingerprint

Dive into the research topics of 'Sequence preference and structural heterogeneity of BZ junctions'. Together they form a unique fingerprint.

Cite this