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Journal of Biochemistry Advance Access originally published online on March 20, 2009
Journal of Biochemistry 2009 146(1):103-111; doi:10.1093/jb/mvp053
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© The Authors 2009. Published by Oxford University Press on behalf of the Japanese Biochemical Society. All rights reserved

DNA-Binding Property of the Novel DNA-Binding Domain STPR in FMBP-1 of the Silkworm Bombyx mori

Shigeharu Takiya1,*, Shin Saito2, Takuya Yokoyama2, Daisuke Matsumoto2, Tomoyasu Aizawa2, Masakatsu Kamiya2, Makoto Demura2 and Keiichi Kawano2

1Department of Biological Sciences and Center for Genome Dynamics, Faculty of Science; and 2Graduate School of Life Science, Hokkaido University, North 10, West 8, Kita-Ku, Sapporo 060-0810, Japan

*To whom correspondence should be addressed. Tel: +81-11-706-3590, Fax: +81-11-706-3588, E-mail: takiya{at}rmg.hokudai.ac.jp

Received January 31, 2009; Accepted March 6, 2009


  Abstract

The STPR domain is a novel DNA-binding domain composed of repeats of 23 amino-acid-long peptide found in the fibroin-modulator-binding protein-1 (FMBP-1) of the silkworm Bombyx mori. Theoretical proteins having the STPR domain are highly conserved, particularly in vertebrates, but the functions are mostly unknown. In this study, the DNA-binding property of the STPR domain in FMBP-1 was examined. Use of reagents selecting the DNA groove and an oligonucleotide in which the dA:dT pairs of the probe were replaced with dI:dC pairs in mobility shift assay demonstrated that FMBP-1 approaches DNA from the major groove. Permutation electrophoresis using probes of the same length but containing the FMBP-1-binding site at different positions showed that FMBP-1 bends DNA through its binding. To induce the sharp bend of DNA, the STPR domain alone was insufficient and the long N-terminal extending region was necessary. Moreover, the basic region extending from the N-terminus of the STPR domain stabilized the DNA binding of the STPR domain. These results suggested that DNA-binding properties of the STPR domain are affected strongly by the structure of the flanking regions in the STPR domain-containing proteins.

Key Words: Bombyx mori, DNA bending, fibroin gene, FMBP-1, STPR domain

Abbreviations: CFR, C-terminal flanking region; DTT, dithiothreitol; FMBP-1, fibroin-modulator-binding protein-1; GST, glutathione-S-transferase; MSG, middle silk gland; NFR, N-terminal flanking region; NP40, nonidet P-40; PSG, posterior silk gland; STPR, score and three amino-acid-long peptide repeat; TFA, trifluoloacetic acid


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