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Seeking allosteric networks in PDZ domains
Sapienza Univ Roma, Dipartimento Sci Biochim A Rossi Fanelli, Ist Pasteur, Fdn Cenci Bolognetti, I-00185 Rome, Italy;Sapienza Univ Roma, CNR, Ist Biol & Patol Mol, I-00185 Rome, Italy.
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Medical Biochemistry and Microbiology.
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Medical Biochemistry and Microbiology.ORCID iD: 0000-0003-1516-7228
Sapienza Univ Roma, Dipartimento Sci Biochim A Rossi Fanelli, Ist Pasteur, Fdn Cenci Bolognetti, I-00185 Rome, Italy;Sapienza Univ Roma, CNR, Ist Biol & Patol Mol, I-00185 Rome, Italy.
2018 (English)In: Protein Engineering Design & Selection, ISSN 1741-0126, E-ISSN 1741-0134, Vol. 31, no 10, p. 367-373Article, review/survey (Refereed) Published
Abstract [en]

Ever since Ranganathan and coworkers subjected the covariation of amino acid residues in the postsynaptic density-95/Discs large/Zonula occludens 1 (PDZ) domain family to a statistical correlation analysis, PDZ domains have represented a paradigmatic family to explore single domain protein allostery. Nevertheless, several theoretical and experimental studies in the past two decades have contributed contradicting results with regard to structural localization of the allosteric networks, or even questioned their actual existence in PDZ domains. In this review, we first describe theoretical and experimental approaches that were used to probe the energetic network (s) in PDZ domains. We then compare the proposed networks for two well-studied PDZ domains namely the third PDZ domain from PSD-95 and the second PDZ domain from PTP-BL. Our analysis highlights the contradiction between the different methods and calls for additional work to better understand these allosteric phenomena.

Place, publisher, year, edition, pages
2018. Vol. 31, no 10, p. 367-373
Keywords [en]
allostery, conformational changes, peptide binding, protein-protein interaction
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:uu:diva-398354DOI: 10.1093/protein/gzy033ISI: 000489553100002PubMedID: 30690500OAI: oai:DiVA.org:uu-398354DiVA, id: diva2:1375920
Funder
Swedish Research CouncilAvailable from: 2019-12-06 Created: 2019-12-06 Last updated: 2019-12-06Bibliographically approved

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