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Directed network wiring identifies a key protein interaction in embryonic stem cell differentiation.

Yasui N, Findlay GM, Gish GD, Hsiung MS, Huang J, Tucholska M, Taylor L, Smith L, Boldridge WC, Koide A, Pawson T, Koide S
Mol Cell 54 1034-41 (2014)
Cited: 19 times
EuropePMC logo PMID: 24910098

Abstract

Cell signaling depends on dynamic protein-protein interaction (PPI) networks, often assembled through modular domains each interacting with multiple peptide motifs. This complexity raises a conceptual challenge, namely to define whether a particular cellular response requires assembly of the complete PPI network of interest or can be driven by a specific interaction. To address this issue, we designed variants of the Grb2 SH2 domain ("pY-clamps") whose specificity is highly biased toward a single phosphotyrosine (pY) motif among many potential pYXNX Grb2-binding sites. Surprisingly, directing Grb2 predominantly to a single pY site of the Ptpn11/Shp2 phosphatase, but not other sites tested, was sufficient for differentiation of the essential primitive endoderm lineage from embryonic stem cells. Our data suggest that discrete connections within complex PPI networks can underpin regulation of particular biological events. We propose that this directed wiring approach will be of general utility in functionally annotating specific PPIs.

Articles - 4jmh mentioned but not cited (2)

  1. Quercetin conjugated with superparamagnetic iron oxide nanoparticles improves learning and memory better than free quercetin via interacting with proteins involved in LTP. Amanzadeh E, Esmaeili A, Abadi REN, Kazemipour N, Pahlevanneshan Z, Beheshti S. Sci Rep 9 6876 (2019)
  2. Directed network wiring identifies a key protein interaction in embryonic stem cell differentiation. Yasui N, Findlay GM, Gish GD, Hsiung MS, Huang J, Tucholska M, Taylor L, Smith L, Boldridge WC, Koide A, Pawson T, Koide S. Mol Cell 54 1034-1041 (2014)


Reviews citing this publication (4)

  1. Monobodies and other synthetic binding proteins for expanding protein science. Sha F, Salzman G, Gupta A, Koide S. Protein Sci 26 910-924 (2017)
  2. Synthetic protein switches: design principles and applications. Stein V, Alexandrov K. Trends Biotechnol 33 101-110 (2015)
  3. Next-generation antibodies for post-translational modifications. Hattori T, Koide S. Curr Opin Struct Biol 51 141-148 (2018)
  4. SHP2-Mediated Signal Networks in Stem Cell Homeostasis and Dysfunction. Kan C, Yang F, Wang S. Stem Cells Int 2018 8351374 (2018)

Articles citing this publication (13)

  1. Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation. Hattori T, Lai D, Dementieva IS, Montaño SP, Kurosawa K, Zheng Y, Akin LR, Świst-Rosowska KM, Grzybowski AT, Koide A, Krajewski K, Strahl BD, Kelleher NL, Ruthenburg AJ, Koide S. Proc Natl Acad Sci U S A 113 2092-2097 (2016)
  2. An injectable heparin-Laponite hydrogel bridge FGF4 for spinal cord injury by stabilizing microtubule and improving mitochondrial function. Wang C, Gong Z, Huang X, Wang J, Xia K, Ying L, Shu J, Yu C, Zhou X, Li F, Liang C, Chen Q. Theranostics 9 7016-7032 (2019)
  3. Rational Redesign of a Functional Protein Kinase-Substrate Interaction. Chen C, Nimlamool W, Miller CJ, Lou HJ, Turk BE. ACS Chem Biol 12 1194-1198 (2017)
  4. Monobodies as possible next-generation protein therapeutics - a perspective. Hantschel O. Swiss Med Wkly 147 w14545 (2017)
  5. Surface Loops in a Single SH2 Domain Are Capable of Encoding the Spectrum of Specificity of the SH2 Family. Liu H, Huang H, Voss C, Kaneko T, Qin WT, Sidhu S, Li SS. Mol Cell Proteomics 18 372-382 (2019)
  6. Xeno- and Feeder-Free Differentiation of Human iPSCs to Trabecular Meshwork-Like Cells by Recombinant Cytokines. Wang W, Miao Y, Sui S, Wang Y, Wu S, Cao Q, Duan H, Qi X, Zhou Q, Pan X, Zhang J, Chen X, Han Y, Wang N, Kuehn MH, Zhu W. Transl Vis Sci Technol 10 27 (2021)
  7. Targeting Phosphotyrosine in Native Proteins with Conditional, Bispecific Antibody Traps. Zhou XX, Bracken CJ, Zhang K, Zhou J, Mou Y, Wang L, Cheng Y, Leung KK, Wells JA. J Am Chem Soc 142 17703-17713 (2020)
  8. Structural basis for a novel interaction between TXNIP and Vav2. Liu S, Wu X, Zong M, Tempel W, Loppnau P, Liu Y. FEBS Lett 590 857-865 (2016)
  9. Shp2-Mitogen-Activated Protein Kinase Signaling Drives Proliferation during Zebrafish Embryo Caudal Fin Fold Regeneration. Hale AJ, den Hertog J. Mol Cell Biol 38 e00515-17 (2018)
  10. A computational method for the design of nested proteins by loop-directed domain insertion. Blacklock KM, Yang L, Mulligan VK, Khare SD. Proteins 86 354-369 (2018)
  11. Analysis on the interaction domain of VirG and apyrase by pull-down assay. Wang Y, Gong GH, Zhou W, Zhang B, Bao SY, Wei CX, Yue JJ, Zhang YF. Molecules 19 18090-18101 (2014)
  12. Development in Detection Methods for the Expression of Surface-Displayed Proteins. Ma C, Jiang C, Zhao D, Li S, Li R, Li L. Front Microbiol 13 899578 (2022)
  13. FGF4, A New Potential Regulator in Gestational Diabetes Mellitus. Fan M, Pan T, Jin W, Sun J, Zhang S, Du Y, Chen X, Chen Q, Xu W, Choo SW, Zhu G, Chen Y, Zhou J. Front Pharmacol 13 827617 (2022)


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