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Prediction of GABARAP interaction with the GABA type A receptor.

ABSTRACT: We have performed docking simulations on GABARAP interacting with the GABA type A receptor using SwarmDock. We have also used a novel method to study hydration sites on the surface of these two proteins; this method identifies regions around proteins where desolvation is relatively easy, and these are possible locations where proteins can bind each other. There is a high degree of consistency between the predictions of these two methods. Moreover, we have also identified binding sites on GABARAP for other proteins, and listed possible binding sites for as yet unknown proteins on both GABARAP and the GABA type A receptor intracellular domain.

SUBMITTER: Irwin BWJ

PROVIDER: S-EPMC6492159 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature

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Prediction of GABARAP interaction with the GABA type A receptor.

Irwin B W J BWJ Vukovič Siniša S Payne M C MC ElGamacy Mohammad M Chau P-L PL

Proteins 20181104 12

We have performed docking simulations on GABARAP interacting with the GABA type A receptor using SwarmDock. We have also used a novel method to study hydration sites on the surface of these two proteins; this method identifies regions around proteins where desolvation is relatively easy, and these are possible locations where proteins can bind each other. There is a high degree of consistency between the predictions of these two methods. Moreover, we have also identified binding sites on GABARAP ...[more]

PMID: 30218455

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