Literature DB >> 19217847

Biochemistry on a leash: the roles of tether length and geometry in signal integration proteins.

David Van Valen1, Mikko Haataja, Rob Phillips.   

Abstract

We use statistical mechanics and simple ideas from polymer physics to develop a quantitative model of proteins whose activity is controlled by flexibly tethered ligands and receptors. We predict how the properties of tethers influence the function of these proteins and demonstrate how their tether length dependence can be exploited to construct proteins whose integration of multiple signals can be tuned. One case study to which we apply these ideas is that of the Wiskott-Aldrich Syndrome Proteins as activators of actin polymerization. More generally, tethered ligands competing with those free in solution are common phenomena in biology, making this an important specific example of a widespread biological idea.

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Year:  2009        PMID: 19217847      PMCID: PMC2717227          DOI: 10.1016/j.bpj.2008.10.052

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  52 in total

1.  Actin assembly mediated by Arp2/3 complex and WASP family proteins.

Authors:  R D Mullins; L M Machesky
Journal:  Methods Enzymol       Date:  2000       Impact factor: 1.600

2.  Different WASP family proteins stimulate different Arp2/3 complex-dependent actin-nucleating activities.

Authors:  J Zalevsky; L Lempert; H Kranitz; R D Mullins
Journal:  Curr Biol       Date:  2001-12-11       Impact factor: 10.834

3.  Reprogramming control of an allosteric signaling switch through modular recombination.

Authors:  John E Dueber; Brian J Yeh; Kayam Chak; Wendell A Lim
Journal:  Science       Date:  2003-09-26       Impact factor: 47.728

4.  Visualization of spatially and temporally regulated N-WASP activity during cytoskeletal reorganization in living cells.

Authors:  Michael E Ward; Jane Y Wu; Yi Rao
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-19       Impact factor: 11.205

5.  Restoration of inactivation in mutants of Shaker potassium channels by a peptide derived from ShB.

Authors:  W N Zagotta; T Hoshi; R W Aldrich
Journal:  Science       Date:  1990-10-26       Impact factor: 47.728

6.  Formin is a processive motor that requires profilin to accelerate actin assembly and associated ATP hydrolysis.

Authors:  Stéphane Romero; Christophe Le Clainche; Dominique Didry; Coumaran Egile; Dominique Pantaloni; Marie-France Carlier
Journal:  Cell       Date:  2004-10-29       Impact factor: 41.582

7.  A fluorescence-based method for direct measurement of submicrosecond intramolecular contact formation in biopolymers: an exploratory study with polypeptides.

Authors:  Robert R Hudgins; Fang Huang; Gabriela Gramlich; Werner M Nau
Journal:  J Am Chem Soc       Date:  2002-01-30       Impact factor: 15.419

8.  Optimizing the stability of single-chain proteins by linker length and composition mutagenesis.

Authors:  C R Robinson; R T Sauer
Journal:  Proc Natl Acad Sci U S A       Date:  1998-05-26       Impact factor: 11.205

9.  Quantitative model for gene regulation by lambda phage repressor.

Authors:  G K Ackers; A D Johnson; M A Shea
Journal:  Proc Natl Acad Sci U S A       Date:  1982-02       Impact factor: 11.205

10.  Voltage-dependent gating of Shaker A-type potassium channels in Drosophila muscle.

Authors:  W N Zagotta; R W Aldrich
Journal:  J Gen Physiol       Date:  1990-01       Impact factor: 4.086

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  25 in total

1.  Interplay of Protein Binding Interactions, DNA Mechanics, and Entropy in DNA Looping Kinetics.

Authors:  Peter J Mulligan; Yi-Ju Chen; Rob Phillips; Andrew J Spakowitz
Journal:  Biophys J       Date:  2015-08-04       Impact factor: 4.033

2.  Modulation of DNA loop lifetimes by the free energy of loop formation.

Authors:  Yi-Ju Chen; Stephanie Johnson; Peter Mulligan; Andrew J Spakowitz; Rob Phillips
Journal:  Proc Natl Acad Sci U S A       Date:  2014-11-19       Impact factor: 11.205

3.  Optimal Affinity Enhancement by a Conserved Flexible Linker Controls p53 Mimicry in MdmX.

Authors:  Wade Borcherds; Andreas Becker; Lihong Chen; Jiandong Chen; Lucía B Chemes; Gary W Daughdrill
Journal:  Biophys J       Date:  2017-05-06       Impact factor: 4.033

4.  A novel dimerization interface of cyclic nucleotide binding domain, which is disrupted in presence of cAMP: implications for CNG channels gating.

Authors:  Ivan Y Gushchin; Valentin I Gordeliy; Sergei Grudinin
Journal:  J Mol Model       Date:  2012-04-03       Impact factor: 1.810

5.  Structural insights into the lipoprotein outer membrane regulator of penicillin-binding protein 1B.

Authors:  Dustin T King; Emilie Lameignere; Natalie C J Strynadka
Journal:  J Biol Chem       Date:  2014-05-07       Impact factor: 5.157

6.  Intrinsically disordered linkers control tethered kinases via effective concentration.

Authors:  Mateusz Dyla; Magnus Kjaergaard
Journal:  Proc Natl Acad Sci U S A       Date:  2020-08-18       Impact factor: 11.205

7.  Calmodulin-Calcineurin Interaction beyond the Calmodulin-Binding Region Contributes to Calcineurin Activation.

Authors:  Bin Sun; Darin Vaughan; Svetlana Tikunova; Trevor P Creamer; Jonathan P Davis; P M Kekenes-Huskey
Journal:  Biochemistry       Date:  2019-09-19       Impact factor: 3.162

8.  The CaMKII inhibitor KN93-calmodulin interaction and implications for calmodulin tuning of NaV1.5 and RyR2 function.

Authors:  Christopher N Johnson; Rekha Pattanayek; Franck Potet; Robyn T Rebbeck; Daniel J Blackwell; Roman Nikolaienko; Vasco Sequeira; Remy Le Meur; Przemysław B Radwański; Jonathan P Davis; Aleksey V Zima; Razvan L Cornea; Steven M Damo; Sandor Györke; Alfred L George; Björn C Knollmann
Journal:  Cell Calcium       Date:  2019-07-30       Impact factor: 6.817

9.  The Relationship between Effective Molarity and Affinity Governs Rate Enhancements in Tethered Kinase-Substrate Reactions.

Authors:  Elizabeth B Speltz; Jesse G Zalatan
Journal:  Biochemistry       Date:  2020-06-01       Impact factor: 3.162

10.  Electrostatic control of calcineurin's intrinsically-disordered regulatory domain binding to calmodulin.

Authors:  Bin Sun; Erik C Cook; Trevor P Creamer; Peter M Kekenes-Huskey
Journal:  Biochim Biophys Acta Gen Subj       Date:  2018-07-31       Impact factor: 3.770

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