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Nucleic Acids Research 2005 33(17):5494-5502; doi:10.1093/nar/gki868
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Published online 28 September 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
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Article

Characterization of the metal ion binding site in the anti-terminator protein, HutP, of Bacillus subtilis

Thirumananseri Kumarevel, Hiroshi Mizuno1 and Penmetcha K. R. Kumar*

Institute for Biological Resources and Functions, National Institute of Advanced Industrial Science and Technology (AIST) Central 6, Tsukuba, Ibaraki 305-8566, Japan 1NEC Soft Ltd 1-18-6, Shinkiba, Koto-ku, Tokyo 106-8608, Japan

*To whom correspondence should be addressed. Tel: +81 298 61 6085; Fax: +81 298 61 6095; Email: pkr-kumar{at}aist.go.jp

Received July 10, 2005. Revised August 22, 2005. Accepted September 9, 2005.

HutP is an RNA-binding protein that regulates the expression of the histidine utilization (hut) operon in Bacillus subtilis, by binding to cis-acting regulatory sequences on hut mRNA. It requires L-histidine and an Mg2+ ion for binding to the specific sequence within the hut mRNA. In the present study, we show that several divalent cations can mediate the HutP–RNA interactions. The best divalent cations were Mn2+, Zn2+ and Cd2+, followed by Mg2+, Co2+ and Ni2+, while Cu2+, Yb2+ and Hg2+ were ineffective. In the HutP–RNA interactions, divalent cations cannot be replaced by monovalent cations, suggesting that a divalent metal ion is required for mediating the protein–RNA interactions. To clarify their importance, we have crystallized HutP in the presence of three different metal ions (Mg2+, Mn2+ and Ba2+), which revealed the importance of the metal ion binding site. Furthermore, these analyses clearly demonstrated how the metal ions cause the structural rearrangements that are required for the hut mRNA recognition.

Present address: Thirumananseri Kumarevel, Structural and Molecular Biology Laboratory, RIKEN Harima Institute at SPring-8, 1-1-1 Kouto, Mikazuki-cho, Sayo-gun, Hyogo 679-5148, Japan

PDB ID: 1WRN, 1WRO and 1WPT


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S. C. B. Gopinath, D. Balasundaresan, T. Kumarevel, T. S. Misono, H. Mizuno, and P. K. R. Kumar
Insights into anti-termination regulation of the hut operon in Bacillus subtilis: importance of the dual RNA-binding surfaces of HutP
Nucleic Acids Res., June 1, 2008; 36(10): 3463 - 3473.
[Abstract] [Full Text] [PDF]


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