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Role of C-Domain of a NAC Transcription Factor for pH-Tuned DNA Binding of Its N-Domain with Histidine Switch

35 Pages Posted: 5 Apr 2018 Publication Status: Published

See all articles by Mooseok Kang

Mooseok Kang

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics; Pusan National University, Department of Physics

Sangyeol Kim

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics; Pusan National University, Department of Physics

Hyo Jung Kim

Institute for Basic Science, Center for Plant Aging Research

Pravesh Shrestha

Yonsei University, Graduate School, Department of Biochemistry

Ji-hye Yun

Yonsei University, Graduate School, Department of Biochemistry

Bong-Kwan Phee

Institute for Basic Science, Center for Plant Aging Research

Weontae Lee

Yonsei University, Graduate School, Department of Biochemistry

Hong Gil Nam

Daegu Gyeongbuk Institute of Science and Technology (DGIST) - Department of New Biology; Institute for Basic Science, Center for Plant Aging Research

Iksoo Chang

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics; Daegu Gyeongbuk Institute of Science and Technology (DGIST), Department of Brain and Cognitive Sciences

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Abstract

Affinity of transcription factors(TFs) to their target DNA is a critical determinant in gene expression. TFs are composed of DNA binding domain (DBD) and regulatory domains, intrinsically disordered and/or negatively charged. Asking whether DBD alone can regulate the transcriptional control is an important question for identifying the design principle of TFs. We studied ANAC019 TF, a member of 108 Arabidopsis plant TF family proteins, and found a well-conserved histidine-switch located in its DBD. It regulates both homo-dimerization and transcriptional control of ANAC019 TF through histidine-protonation. Here, we uncovered that the removal of C-terminal domain in ANAC019 TF abolishes pH dependent binding affinity of N-terminal DBD alone to target DNA. We suggested an underlying mechanism that ANAC019 DBD alone is too strongly attracted and has too long residency time near DNA to have pH dependent binding affinity. But its full-chain, possessing an electric dipole moment, could balance DBD's strong attraction to DNA.

Suggested Citation

Kang, Mooseok and Kim, Sangyeol and Kim, Hyo Jung and Shrestha, Pravesh and Yun, Ji-hye and Phee, Bong-Kwan and Lee, Weontae and Nam, Hong Gil and Chang, Iksoo, Role of C-Domain of a NAC Transcription Factor for pH-Tuned DNA Binding of Its N-Domain with Histidine Switch (2018). Available at SSRN: https://ssrn.com/abstract=3155595 or http://dx.doi.org/10.2139/ssrn.3155595
This version of the paper has not been formally peer reviewed.

Mooseok Kang

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics

Daegu Metropolitan City
Korea, Republic of (South Korea)

Pusan National University, Department of Physics

Mulgeumup Beomyeli
Pusan
Korea, Republic of (South Korea)

Sangyeol Kim

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics

Daegu Metropolitan City
Korea, Republic of (South Korea)

Pusan National University, Department of Physics

Mulgeumup Beomyeli
Pusan
Korea, Republic of (South Korea)

Hyo Jung Kim

Institute for Basic Science, Center for Plant Aging Research

55, Expo-ro, Yuseong-gu
Daejeon
Korea, Republic of (South Korea)

Pravesh Shrestha

Yonsei University, Graduate School, Department of Biochemistry

Seoul
Korea, Republic of (South Korea)

Ji-hye Yun

Yonsei University, Graduate School, Department of Biochemistry

Seoul
Korea, Republic of (South Korea)

Bong-Kwan Phee

Institute for Basic Science, Center for Plant Aging Research

55, Expo-ro, Yuseong-gu
Daejeon
Korea, Republic of (South Korea)

Weontae Lee

Yonsei University, Graduate School, Department of Biochemistry ( email )

Seoul
Korea, Republic of (South Korea)

Hong Gil Nam

Daegu Gyeongbuk Institute of Science and Technology (DGIST) - Department of New Biology ( email )

Daegu Metropolitan City
Korea, Republic of (South Korea)

Institute for Basic Science, Center for Plant Aging Research ( email )

55, Expo-ro, Yuseong-gu
Daejeon
Korea, Republic of (South Korea)

Iksoo Chang (Contact Author)

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Center for Proteome Biophysics ( email )

Daegu Metropolitan City
Korea, Republic of (South Korea)

Daegu Gyeongbuk Institute of Science and Technology (DGIST), Department of Brain and Cognitive Sciences ( email )

Daegu Metropolitan City
Korea, Republic of (South Korea)

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