Protein-Protein Interactions in Live Cells: Reinventing the Wheel

G protein-coupled receptors (GPCRs) are membrane proteins that mediate physiologicalresponse to a diverse array of stimuli. In humans, they mediate the action of hundreds ofpeptide hormones, sensory stimuli, odorants, neurotransmitters, and chemokines. GPCRs alsoare targets for ~40% of all currently marketed pharmaceuticals. These receptors traditionallybeen thought to act as monomeric units. However, recent evidence suggests that GPCRs mayform dimers as part of their normal trafficking and function. While the formation of GPCRdimers/oligomers have been reported to play important roles in regulating receptorexpression, ligand binding, and second messenger activation, less is known about how GPCRdimers interact with other proteins such as G-proteins and Arrestin.We are interested in studiying the interactions between GPCRs and effect of this dimerizationon G-protein dimerization. Our group also focus on the mechanisms of receptor-arrestinbinding in live cells using Föster resonance energy transfer (FRET) and bimolecularfluorescence complementation (BiFC) assays. We designed and developed tagged receptors,G-proteins and Arrestin proteins using Green florescent protein variants that can be used inimaging studies. These constructs are suitable for testing drug candidates and/or analyzeprotein-protein interfaces for GPCRs or G-protein dimers.
6th International Drug Design Congress


Structural characterization of recombinant bovine Go alpha by spectroscopy and homology modeling
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Go, a member of heterotrimeric guanine nucleotide-binding proteins, is the most abundant form of G protein in the central and peripheral nervous systems. Go alpha has a significant role in neuronal development and function but its signal transduction mechanism remains to be clarified.
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Background: T cell receptor (TCR) molecules are involved in the adaptive immune response as they distinguish between self- and foreign-peptides, presented in major histocompatibility complex molecules (pMHC). Former studies showed that the association angles of the TCR variable domains (Va/V beta) can differ significantly and change upon binding to the pMHC complex. These changes can be described as a rotation of the domains around a general Center of Rotation, characterized by the interaction of two highly...
Enzyme prediction with word embedding approach
Akın, Erkan; Atalay, M. Volkan.; Department of Computer Engineering (2019)
Information such as molecular function, biological process, and cellular localization can be inferred from the protein sequence. However, protein sequences vary in length. Therefore, the sequence itself cannot be used directly as a feature vector for pattern recognition and machine learning algorithms since these algorithms require fixed length feature vectors. We describe an approach based on the use of the Word2vec model, more specifically continuous skip-gram model to generate the vector representation o...
Molecular docking study of fda-approved drugs to inhibit the bacterial ribosome
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Ribosomes are large macromolecular complexes responsible for cellular protein synthesis. It consists of two subunits; called 30S small and 50S large subunits in bacteria, involving antibiotic binding regions. This mac- romolecular machine is one of the significant targets of conventional antibiotics because protein synthesis can be stopped by targeting functional sites in the ribosome. For instance, several antibiotics target the decoding center responsible for deciphering the genetic code, as well as mRNA ...
Protein-based materials in load-bearing tissue-engineering applications
Sayin, Esen; Baran, Erkan Turker; Hasırcı, Vasıf Nejat (2014-01-01)
Proteins such as collagen and elastin are robust molecules that constitute nanocomponents in the hierarchically organized ultrastructures of bone and tendon as well as in some of the soft tissues that have load-bearing functions. In the present paper, the macromolecular structure and function of the proteins are reviewed and the potential of mammalian and non-mammalian proteins in the engineering of load-bearing tissue substitutes are discussed. Chimeric proteins have become an important structural biomater...
Citation Formats
Ç. D. Son, “Protein-Protein Interactions in Live Cells: Reinventing the Wheel,” presented at the 6th International Drug Design Congress, İstanbul, Turkey, 2018, Accessed: 00, 2021. [Online]. Available: