Distinct structural features of the peroxide response regulator from group A streptococcus drive DNA binding

Chang Sheng Huei Lin, Shi Yu Chao, Michal Hammel, Jay C. Nix, Hsiao Ling Tseng, Chih Cheng Tsou, Chun Hsien Fei, Huo Sheng Chiou, U. Ser Jeng, Yee Shin Lin, Woei Jer Chuang, Jiunn Jong Wu, Shuying Wang

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

Group A streptococcus (GAS, Streptococcus pyogenes) is a strict human pathogen that causes severe, invasive diseases. GAS does not produce catalase, but has an ability to resist killing by reactive oxygen species (ROS) through novel mechanisms. The peroxide response regulator (PerR), a member of ferric uptake regulator (Fur) family, plays a key role for GAS to cope with oxidative stress by regulating the expression of multiple genes. Our previous studies have found that expression of an iron-binding protein, Dpr, is under the direct control of PerR. To elucidate the molecular interactions of PerR with its cognate promoter, we have carried out structural studies on PerR and PerR-DNA complex. By combining crystallography and small-angle X-ray scattering (SAXS), we confirmed that the determined PerR crystal structure reflects its conformation in solution. Through mutagenesis and biochemical analysis, we have identified DNA-binding residues suggesting that PerR binds to the dpr promoter at the per box through a winged-helix motif. Furthermore, we have performed SAXS analysis and resolved the molecular architecture of PerR-DNA complex, in which two 30 bp DNA fragments wrap around two PerR homodimers by interacting with the adjacent positively-charged winged-helix motifs. Overall, we provide structural insights into molecular recognition of DNA by PerR and define the hollow structural arrangement of PerR-30bpDNA complex, which displays a unique topology distinct from currently proposed DNA-binding models for Fur family regulators.

Original languageEnglish
Article numbere89027
JournalPloS one
Volume9
Issue number2
DOIs
Publication statusPublished - 2014 Feb 21

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Streptococcus
Peroxides
peroxides
DNA
X ray scattering
Iron-Binding Proteins
X-radiation
X-Rays
promoter regions
crystallography
Molecular recognition
Mutagenesis
Crystallography
Streptococcus pyogenes
Oxidative stress
Molecular interactions
Pathogens
Catalase
crystal structure
mutagenesis

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Lin, Chang Sheng Huei ; Chao, Shi Yu ; Hammel, Michal ; Nix, Jay C. ; Tseng, Hsiao Ling ; Tsou, Chih Cheng ; Fei, Chun Hsien ; Chiou, Huo Sheng ; Jeng, U. Ser ; Lin, Yee Shin ; Chuang, Woei Jer ; Wu, Jiunn Jong ; Wang, Shuying. / Distinct structural features of the peroxide response regulator from group A streptococcus drive DNA binding. In: PloS one. 2014 ; Vol. 9, No. 2.
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abstract = "Group A streptococcus (GAS, Streptococcus pyogenes) is a strict human pathogen that causes severe, invasive diseases. GAS does not produce catalase, but has an ability to resist killing by reactive oxygen species (ROS) through novel mechanisms. The peroxide response regulator (PerR), a member of ferric uptake regulator (Fur) family, plays a key role for GAS to cope with oxidative stress by regulating the expression of multiple genes. Our previous studies have found that expression of an iron-binding protein, Dpr, is under the direct control of PerR. To elucidate the molecular interactions of PerR with its cognate promoter, we have carried out structural studies on PerR and PerR-DNA complex. By combining crystallography and small-angle X-ray scattering (SAXS), we confirmed that the determined PerR crystal structure reflects its conformation in solution. Through mutagenesis and biochemical analysis, we have identified DNA-binding residues suggesting that PerR binds to the dpr promoter at the per box through a winged-helix motif. Furthermore, we have performed SAXS analysis and resolved the molecular architecture of PerR-DNA complex, in which two 30 bp DNA fragments wrap around two PerR homodimers by interacting with the adjacent positively-charged winged-helix motifs. Overall, we provide structural insights into molecular recognition of DNA by PerR and define the hollow structural arrangement of PerR-30bpDNA complex, which displays a unique topology distinct from currently proposed DNA-binding models for Fur family regulators.",
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Lin, CSH, Chao, SY, Hammel, M, Nix, JC, Tseng, HL, Tsou, CC, Fei, CH, Chiou, HS, Jeng, US, Lin, YS, Chuang, WJ, Wu, JJ & Wang, S 2014, 'Distinct structural features of the peroxide response regulator from group A streptococcus drive DNA binding', PloS one, vol. 9, no. 2, e89027. https://doi.org/10.1371/journal.pone.0089027

Distinct structural features of the peroxide response regulator from group A streptococcus drive DNA binding. / Lin, Chang Sheng Huei; Chao, Shi Yu; Hammel, Michal; Nix, Jay C.; Tseng, Hsiao Ling; Tsou, Chih Cheng; Fei, Chun Hsien; Chiou, Huo Sheng; Jeng, U. Ser; Lin, Yee Shin; Chuang, Woei Jer; Wu, Jiunn Jong; Wang, Shuying.

In: PloS one, Vol. 9, No. 2, e89027, 21.02.2014.

Research output: Contribution to journalArticle

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T1 - Distinct structural features of the peroxide response regulator from group A streptococcus drive DNA binding

AU - Lin, Chang Sheng Huei

AU - Chao, Shi Yu

AU - Hammel, Michal

AU - Nix, Jay C.

AU - Tseng, Hsiao Ling

AU - Tsou, Chih Cheng

AU - Fei, Chun Hsien

AU - Chiou, Huo Sheng

AU - Jeng, U. Ser

AU - Lin, Yee Shin

AU - Chuang, Woei Jer

AU - Wu, Jiunn Jong

AU - Wang, Shuying

PY - 2014/2/21

Y1 - 2014/2/21

N2 - Group A streptococcus (GAS, Streptococcus pyogenes) is a strict human pathogen that causes severe, invasive diseases. GAS does not produce catalase, but has an ability to resist killing by reactive oxygen species (ROS) through novel mechanisms. The peroxide response regulator (PerR), a member of ferric uptake regulator (Fur) family, plays a key role for GAS to cope with oxidative stress by regulating the expression of multiple genes. Our previous studies have found that expression of an iron-binding protein, Dpr, is under the direct control of PerR. To elucidate the molecular interactions of PerR with its cognate promoter, we have carried out structural studies on PerR and PerR-DNA complex. By combining crystallography and small-angle X-ray scattering (SAXS), we confirmed that the determined PerR crystal structure reflects its conformation in solution. Through mutagenesis and biochemical analysis, we have identified DNA-binding residues suggesting that PerR binds to the dpr promoter at the per box through a winged-helix motif. Furthermore, we have performed SAXS analysis and resolved the molecular architecture of PerR-DNA complex, in which two 30 bp DNA fragments wrap around two PerR homodimers by interacting with the adjacent positively-charged winged-helix motifs. Overall, we provide structural insights into molecular recognition of DNA by PerR and define the hollow structural arrangement of PerR-30bpDNA complex, which displays a unique topology distinct from currently proposed DNA-binding models for Fur family regulators.

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