6G1Y

Crystal structure of the photosensory core module (PCM) of a bathy phytochrome from Agrobacterium fabrum in the Pfr state.

Summary for 6G1Y

• Entry DOI: 10.2210/pdb6g1y/pdb
• Related: 6G1Z 6G20
• Descriptor: Bacteriophytochrome protein, 3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic acid, ... (4 entities in total)
• Functional Keywords: signaling protein, phytochrome, bacteriophytochrome, bilin chromophore, photoisomerization, signal transduction, pfr state, light adaptation, bathy phytochrome, methylation, photosensory core module
• Biological source: Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens (strain C58)); More
• Total number of polymer chains: 2
• Total formula weight: 114162.75

Authors

Schmidt, A.,Qureshi, B.M.,Scheerer, P. (deposition date: 2018-03-22, release date: 2018-11-28, Last modification date: 2024-02-07)

Primary citation

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.
Structural snapshot of a bacterial phytochrome in its functional intermediate state.
Nat Commun, 9:4912-4912, 2018

PubMed 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.

PubMed: 30464203
DOI: 10.1038/s41467-018-07392-7

Experimental method

X-RAY DIFFRACTION (2.5 Å)