Structure-function analysis of plant G-protein regulatory mechanisms identifies key Gα-RGS protein interactions

Torres-Rodriguez, Maria Daniela; Lee, Soon Goo; Roy Choudhury, Swarup; Paul, Rabindranath; Selvam, Balaji; Shukla, Diwakar; Jez, Joseph M.; Pandey, Sona

doi:10.1016/j.jbc.2024.107252

Cited by 2 publications

References 60 publications

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Learning Allosteric Interactions in Gα Proteins from Molecular Dynamics Simulations

Yu,

Yang,

Wang

2024

Preprint

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Gα is a key subunit of heterotrimeric guanine-nucleotide-binding regulatory proteins, yet its conformational dynamics are not fully understood. In this study, we developed a Transformer-based graph neural network framework, Dynamic-Mixed Transformer (DMFormer), to investigate conformational dynamics of Gαo. DMFormer achieved an AUC of 0.75 on the training set, demonstrating robustness in distinguishing active and inactive states. The interpretability of the model was enhanced using integrated gradients, identifying the Switch II as a critical motif in stabilizing the active state and revealing distinct movement patterns between GTPase and α-Helix domains. Our findings suggest that the conformational rigidity of Q205L mutant in the Switch II segment leads to persistent activation. Overall, our study showcases DMFormer as an effective tool for analyzing protein conformational dynamics, offering valuable insights into activation mechanisms of Gα protein.

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Learning Allosteric Interactions in Gα Proteins from Molecular Dynamics Simulations

Yu,

Yang,

Wang

2024

Preprint

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GPCR-like Protein ZmCOLD1 Regulate Plant Height in an ABA Manner

Zhang,

Peng

et al. 2024

IJMS

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G protein-coupled receptors (GPCRs) are sensors for the G protein complex to sense changes in environmental factors and molecular switches for G protein complex signal transduction. In this study, the homologous gene of GPCR-like proteins was identified from maize and named as ZmCOLD1. Subcellular analysis showed that the ZmCOLD1 protein is localized to the cell membrane and endoplasmic reticulum. A CRISPR/Cas9 knock-out line of ZmCOLD1 was further created and its plant height was significantly lower than the wild-type maize at both the seedling and adult stages. Histological analysis showed that the increased cell number but significantly smaller cell size may result in dwarfing of zmcold1, indicating that the ZmCOLD1 gene could regulate plant height development by affecting the cell division process. Additionally, ZmCOLD1 was verified to interact with the maize Gα subunit, ZmCT2, though the central hydrophilic loop domain by in vivo and in vitro methods. Abscisic acid (ABA) sensitivity analysis by seed germination assays exhibited that zmcold1 were hypersensitive to ABA, indicating its important roles in ABA signaling. Finally, transcriptome analysis was performed to investigate the transcriptional change in zmcold1 mutant. Overall, ZmCOLD1 functions as a GPCR-like protein and an important regulator to plant height.

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Structure-function analysis of plant G-protein regulatory mechanisms identifies key Gα-RGS protein interactions

Cited by 2 publications

References 60 publications

Learning Allosteric Interactions in Gα Proteins from Molecular Dynamics Simulations

Learning Allosteric Interactions in Gα Proteins from Molecular Dynamics Simulations

GPCR-like Protein ZmCOLD1 Regulate Plant Height in an ABA Manner

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