DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins

Patel, Anamika; Yang, Peng; Tinkham, Matthew; Pradhan, Mihika; Sun, Ming-An; Wang, Yixuan; Hoang, Don; Wolf, Gernot; Horton, John R.; Zhang, Xing; Macfarlan, Todd; Cheng, Xiaodong

doi:10.1016/j.cell.2018.02.058

DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins

Journal Article · Thu Mar 15 04:00:00 EDT 2018 · Cell

DOI:https://doi.org/10.1016/j.cell.2018.02.058· OSTI ID:1434722

Patel, Anamika ^[1]; Yang, Peng ^[2]; Tinkham, Matthew ^[3]; Pradhan, Mihika ^[1]; Sun, Ming-An ^[3]; Wang, Yixuan ^[3]; Hoang, Don ^[3]; Wolf, Gernot ^[3]; Horton, John R. ^[4]; Zhang, Xing ^[4]; Macfarlan, Todd ^[3]; Cheng, Xiaodong ^[5]

Emory Univ. School of Medicine, Atlanta, GA (United States)
National Inst. of Health (NIH), Bethesda, MD (United States); Tongji Univ., Shanghai (China)
National Inst. of Health (NIH), Bethesda, MD (United States)
The Univ. of Texas MD Anderson Cancer Center, Houston, TX (United States)
Emory Univ. School of Medicine, Atlanta, GA (United States); The Univ. of Texas MD Anderson Cancer Center, Houston, TX (United States)

Tandem zinc finger (ZF) proteins are the largest and most rapidly diverging family of DNA-binding transcription regulators in mammals. ZFP568 represses a transcript of placental-specific insulin like growth factor 2 (Igf2-P0) in mice. ZFP568 binds a 24-base pair sequence-specific element upstream of Igf2-P0 via the eleven-ZF array. Both DNA and protein conformations deviate from the conventional one finger-three bases recognition, with individual ZFs contacting 2, 3, or 4 bases and recognizing thymine on the opposite strand. These interactions arise from a shortened minor groove caused by an AT-rich stretch, suggesting adaptability of ZF arrays to sequence variations. Despite conservation in mammals, mutations at Igf2 and ZFP568 reduce their binding affinity in chimpanzee and humans. Furthermore, our studies provide important insights into the evolutionary and structural dynamics of ZF-DNA interactions that play a key role in mammalian development and evolution.

View Accepted Manuscript (DOE)

Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: NIH

OSTI ID:: 1434722

Journal Information:: Cell, Journal Name: Cell Journal Issue: 1 Vol. 173; ISSN 0092-8674

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: ENGLISH

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59 BASIC BIOLOGICAL SCIENCES
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C2H2 zinc fingers
DNA conformation
Igf2
KRAB
Zfp568
imprinting
shortened minor groove

DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins

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