Structural snapshot of a bacterial phytochrome in its functional intermediate state

Andrea Schmidt; Luisa Sauthof; Michal Szczepek; Maria Fernandez Lopez; Francisco Velazquez Escobar; Bilal M. Qureshi; Norbert Michael; David Buhrke; Tammo Stevens; Dennis Kwiatkowski; David von Stetten; Maria Andrea Mroginski; Norbert Krauß; Tilman Lamparter; Peter Hildebrandt; Patrick Scheerer

doi:10.1038/s41467-018-07392-7

Structural snapshot of a bacterial phytochrome in its functional intermediate state

Andrea Schmidt, Luisa Sauthof, Michal Szczepek, Maria Fernandez Lopez, Francisco Velazquez Escobar, Bilal M. Qureshi, Norbert Michael, David Buhrke, Tammo Stevens, Dennis Kwiatkowski, David von Stetten, Maria Andrea Mroginski, Norbert Krauß, Tilman Lamparter, Peter Hildebrandt, Patrick Scheerer

King Abdullah University of Science and Technology

Research output: Contribution to journal › Article › peer-review

62 Scopus citations

Abstract

Phytochromes are modular photoreceptors of plants, bacteria and fungi that use light as a source of information to regulate fundamental physiological processes. Interconversion between the active and inactive states is accomplished by a photoinduced reaction sequence which couples the sensor with the output module. However, the underlying molecular mechanism is yet not fully understood due to the lack of structural data of functionally relevant intermediate states. Here we report the crystal structure of a Meta-F intermediate state of an Agp2 variant from Agrobacterium fabrum. This intermediate, the identity of which was verified by resonance Raman spectroscopy, was formed by irradiation of the parent Pfr state and displays significant reorientations of almost all amino acids surrounding the chromophore. Structural comparisons allow identifying structural motifs that might serve as conformational switch for initiating the functional secondary structure change that is linked to the (de-)activation of these photoreceptors.

Original language	English (US)
Journal	Nature Communications
Volume	9
Issue number	1
DOIs	https://doi.org/10.1038/s41467-018-07392-7
State	Published - Nov 21 2018

Bibliographical note

KAUST Repository Item: Exported on 2020-10-01
Acknowledgements: We thank Anja Koch and Brian Bauer for assistance in purifying reagents. We are grateful to Manfred Weiss and the scientific staff of the BESSY-MX/Helmholtz Zentrum Berlin für Materialien und Energie at beamlines BL14.1, BL14.2 and BL14.3 operated by the Joint Berlin MX-Laboratory at the BESSY II electron storage ring (Berlin-Adlershof, Germany) and the scientific staff of the European Synchrotron Radiation Facility (ESRF, Grenoble) at beamlines ID23-1, ID23-2, ID29, ID30A-1, ID30A-3 and ID30B for continuous support. This work was supported by grants from the Deutsche Forschungsgemeinschaft (SFB1078-B6 to P.H. and P.S.; SFB1078-C3 to M.A.M.; SFB740-B6 to P.S.), Integrated Graduate School fellowship of SFB1078 to L.S., European Synchrotron Radiation Facility (ESRF beamtime BAG to N.K., D.v.S. and P.S.), DFG Cluster of Excellence ‘Unifying Concepts in Catalysis’ (Research Field E4 to M.A.M., P.H. and P.S.) and the Einstein Center of Catalysis EC2 Berlin (to P.H., F.V.E., M.A.M. and P.S.).

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10.1038/s41467-018-07392-7

https://repository.kaust.edu.sa/bitstream/10754/630182/1/s41467-018-07392-7.pdf

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Schmidt, A., Sauthof, L., Szczepek, M., Lopez, M. F., Escobar, F. V., Qureshi, B. M., Michael, N., Buhrke, D., Stevens, T., Kwiatkowski, D., von Stetten, D., Mroginski, M. A., Krauß, N., Lamparter, T., Hildebrandt, P., & Scheerer, P. (2018). Structural snapshot of a bacterial phytochrome in its functional intermediate state. Nature Communications, 9(1). https://doi.org/10.1038/s41467-018-07392-7

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title = "Structural snapshot of a bacterial phytochrome in its functional intermediate state",

abstract = "Phytochromes are modular photoreceptors of plants, bacteria and fungi that use light as a source of information to regulate fundamental physiological processes. Interconversion between the active and inactive states is accomplished by a photoinduced reaction sequence which couples the sensor with the output module. However, the underlying molecular mechanism is yet not fully understood due to the lack of structural data of functionally relevant intermediate states. Here we report the crystal structure of a Meta-F intermediate state of an Agp2 variant from Agrobacterium fabrum. This intermediate, the identity of which was verified by resonance Raman spectroscopy, was formed by irradiation of the parent Pfr state and displays significant reorientations of almost all amino acids surrounding the chromophore. Structural comparisons allow identifying structural motifs that might serve as conformational switch for initiating the functional secondary structure change that is linked to the (de-)activation of these photoreceptors.",

author = "Andrea Schmidt and Luisa Sauthof and Michal Szczepek and Lopez, {Maria Fernandez} and Escobar, {Francisco Velazquez} and Qureshi, {Bilal M.} and Norbert Michael and David Buhrke and Tammo Stevens and Dennis Kwiatkowski and {von Stetten}, David and Mroginski, {Maria Andrea} and Norbert Krau{\ss} and Tilman Lamparter and Peter Hildebrandt and Patrick Scheerer",

note = "KAUST Repository Item: Exported on 2020-10-01 Acknowledgements: We thank Anja Koch and Brian Bauer for assistance in purifying reagents. We are grateful to Manfred Weiss and the scientific staff of the BESSY-MX/Helmholtz Zentrum Berlin f{\"u}r Materialien und Energie at beamlines BL14.1, BL14.2 and BL14.3 operated by the Joint Berlin MX-Laboratory at the BESSY II electron storage ring (Berlin-Adlershof, Germany) and the scientific staff of the European Synchrotron Radiation Facility (ESRF, Grenoble) at beamlines ID23-1, ID23-2, ID29, ID30A-1, ID30A-3 and ID30B for continuous support. This work was supported by grants from the Deutsche Forschungsgemeinschaft (SFB1078-B6 to P.H. and P.S.; SFB1078-C3 to M.A.M.; SFB740-B6 to P.S.), Integrated Graduate School fellowship of SFB1078 to L.S., European Synchrotron Radiation Facility (ESRF beamtime BAG to N.K., D.v.S. and P.S.), DFG Cluster of Excellence {\textquoteleft}Unifying Concepts in Catalysis{\textquoteright} (Research Field E4 to M.A.M., P.H. and P.S.) and the Einstein Center of Catalysis EC2 Berlin (to P.H., F.V.E., M.A.M. and P.S.).",

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doi = "10.1038/s41467-018-07392-7",

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Schmidt, A, Sauthof, L, Szczepek, M, Lopez, MF, Escobar, FV, Qureshi, BM, Michael, N, Buhrke, D, Stevens, T, Kwiatkowski, D, von Stetten, D, Mroginski, MA, Krauß, N, Lamparter, T, Hildebrandt, P & Scheerer, P 2018, 'Structural snapshot of a bacterial phytochrome in its functional intermediate state', Nature Communications, vol. 9, no. 1. https://doi.org/10.1038/s41467-018-07392-7

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T1 - Structural snapshot of a bacterial phytochrome in its functional intermediate state

AU - Schmidt, Andrea

AU - Sauthof, Luisa

AU - Szczepek, Michal

AU - Lopez, Maria Fernandez

AU - Escobar, Francisco Velazquez

AU - Qureshi, Bilal M.

AU - Michael, Norbert

AU - Buhrke, David

AU - Stevens, Tammo

AU - Kwiatkowski, Dennis

AU - von Stetten, David

AU - Mroginski, Maria Andrea

AU - Krauß, Norbert

AU - Lamparter, Tilman

AU - Hildebrandt, Peter

AU - Scheerer, Patrick

N1 - KAUST Repository Item: Exported on 2020-10-01 Acknowledgements: We thank Anja Koch and Brian Bauer for assistance in purifying reagents. We are grateful to Manfred Weiss and the scientific staff of the BESSY-MX/Helmholtz Zentrum Berlin für Materialien und Energie at beamlines BL14.1, BL14.2 and BL14.3 operated by the Joint Berlin MX-Laboratory at the BESSY II electron storage ring (Berlin-Adlershof, Germany) and the scientific staff of the European Synchrotron Radiation Facility (ESRF, Grenoble) at beamlines ID23-1, ID23-2, ID29, ID30A-1, ID30A-3 and ID30B for continuous support. This work was supported by grants from the Deutsche Forschungsgemeinschaft (SFB1078-B6 to P.H. and P.S.; SFB1078-C3 to M.A.M.; SFB740-B6 to P.S.), Integrated Graduate School fellowship of SFB1078 to L.S., European Synchrotron Radiation Facility (ESRF beamtime BAG to N.K., D.v.S. and P.S.), DFG Cluster of Excellence ‘Unifying Concepts in Catalysis’ (Research Field E4 to M.A.M., P.H. and P.S.) and the Einstein Center of Catalysis EC2 Berlin (to P.H., F.V.E., M.A.M. and P.S.).

PY - 2018/11/21

Y1 - 2018/11/21

N2 - Phytochromes are modular photoreceptors of plants, bacteria and fungi that use light as a source of information to regulate fundamental physiological processes. Interconversion between the active and inactive states is accomplished by a photoinduced reaction sequence which couples the sensor with the output module. However, the underlying molecular mechanism is yet not fully understood due to the lack of structural data of functionally relevant intermediate states. Here we report the crystal structure of a Meta-F intermediate state of an Agp2 variant from Agrobacterium fabrum. This intermediate, the identity of which was verified by resonance Raman spectroscopy, was formed by irradiation of the parent Pfr state and displays significant reorientations of almost all amino acids surrounding the chromophore. Structural comparisons allow identifying structural motifs that might serve as conformational switch for initiating the functional secondary structure change that is linked to the (de-)activation of these photoreceptors.

AB - Phytochromes are modular photoreceptors of plants, bacteria and fungi that use light as a source of information to regulate fundamental physiological processes. Interconversion between the active and inactive states is accomplished by a photoinduced reaction sequence which couples the sensor with the output module. However, the underlying molecular mechanism is yet not fully understood due to the lack of structural data of functionally relevant intermediate states. Here we report the crystal structure of a Meta-F intermediate state of an Agp2 variant from Agrobacterium fabrum. This intermediate, the identity of which was verified by resonance Raman spectroscopy, was formed by irradiation of the parent Pfr state and displays significant reorientations of almost all amino acids surrounding the chromophore. Structural comparisons allow identifying structural motifs that might serve as conformational switch for initiating the functional secondary structure change that is linked to the (de-)activation of these photoreceptors.

UR - http://hdl.handle.net/10754/630182

UR - https://www.nature.com/articles/s41467-018-07392-7

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U2 - 10.1038/s41467-018-07392-7

DO - 10.1038/s41467-018-07392-7

M3 - Article

C2 - 30464203

SN - 2041-1723

VL - 9

JO - Nature Communications

JF - Nature Communications

IS - 1

ER -

Structural snapshot of a bacterial phytochrome in its functional intermediate state

Abstract

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