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Items: 1 to 20 of 58


Exhaustive search of linear information encoding protein-peptide recognition.

Kelil A, Dubreuil B, Levy ED, Michnick SW.

PLoS Comput Biol. 2017 Apr 20;13(4):e1005499. doi: 10.1371/journal.pcbi.1005499. eCollection 2017 Apr.


Large-Scale Screening of Preferred Interactions of Human Src Homology-3 (SH3) Domains Using Native Target Proteins as Affinity Ligands.

Kazlauskas A, Schmotz C, Kesti T, Hepojoki J, Kleino I, Kaneko T, Li SS, Saksela K.

Mol Cell Proteomics. 2016 Oct;15(10):3270-3281. Epub 2016 Jul 20.


Predicting physiologically relevant SH3 domain mediated protein-protein interactions in yeast.

Jain S, Bader GD.

Bioinformatics. 2016 Jun 15;32(12):1865-72. doi: 10.1093/bioinformatics/btw045. Epub 2016 Feb 9.


Differential Recognition Preferences of the Three Src Homology 3 (SH3) Domains from the Adaptor CD2-associated Protein (CD2AP) and Direct Association with Ras and Rab Interactor 3 (RIN3).

Rouka E, Simister PC, Janning M, Kumbrink J, Konstantinou T, Muniz JR, Joshi D, O'Reilly N, Volkmer R, Ritter B, Knapp S, von Delft F, Kirsch KH, Feller SM.

J Biol Chem. 2015 Oct 16;290(42):25275-92. doi: 10.1074/jbc.M115.637207. Epub 2015 Aug 20.


Evolution of the SH3 Domain Specificity Landscape in Yeasts.

Verschueren E, Spiess M, Gkourtsa A, Avula T, Landgraf C, Mancilla VT, Huber A, Volkmer R, Winsor B, Serrano L, Hochstenbach F, Distel B.

PLoS One. 2015 Jun 11;10(6):e0129229. doi: 10.1371/journal.pone.0129229. eCollection 2015.


Quantifying domain-ligand affinities and specificities by high-throughput holdup assay.

Vincentelli R, Luck K, Poirson J, Polanowska J, Abdat J, Blémont M, Turchetto J, Iv F, Ricquier K, Straub ML, Forster A, Cassonnet P, Borg JP, Jacob Y, Masson M, Nominé Y, Reboul J, Wolff N, Charbonnier S, Travé G.

Nat Methods. 2015 Aug;12(8):787-93. doi: 10.1038/nmeth.3438. Epub 2015 Jun 8.


Predicting peptide-mediated interactions on a genome-wide scale.

Chen TS, Petrey D, Garzon JI, Honig B.

PLoS Comput Biol. 2015 May 4;11(5):e1004248. doi: 10.1371/journal.pcbi.1004248. eCollection 2015 May.


Quantification of the transferability of a designed protein specificity switch reveals extensive epistasis in molecular recognition.

Melero C, Ollikainen N, Harwood I, Karpiak J, Kortemme T.

Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15426-31. doi: 10.1073/pnas.1410624111. Epub 2014 Oct 13.


PAH1-encoded phosphatidate phosphatase plays a role in the growth phase- and inositol-mediated regulation of lipid synthesis in Saccharomyces cerevisiae.

Pascual F, Soto-Cardalda A, Carman GM.

J Biol Chem. 2013 Dec 13;288(50):35781-92. doi: 10.1074/jbc.M113.525766. Epub 2013 Nov 6.


Identification of Xin-repeat proteins as novel ligands of the SH3 domains of nebulin and nebulette and analysis of their interaction during myofibril formation and remodeling.

Eulitz S, Sauer F, Pelissier MC, Boisguerin P, Molt S, Schuld J, Orfanos Z, Kley RA, Volkmer R, Wilmanns M, Kirfel G, van der Ven PF, Fürst DO.

Mol Biol Cell. 2013 Oct;24(20):3215-26. doi: 10.1091/mbc.E13-04-0202. Epub 2013 Aug 28.


A graph kernel approach for alignment-free domain-peptide interaction prediction with an application to human SH3 domains.

Kundu K, Costa F, Backofen R.

Bioinformatics. 2013 Jul 1;29(13):i335-43. doi: 10.1093/bioinformatics/btt220.


Interface-resolved network of protein-protein interactions.

Johnson ME, Hummer G.

PLoS Comput Biol. 2013;9(5):e1003065. doi: 10.1371/journal.pcbi.1003065. Epub 2013 May 16.


Characterization of the yeast actin patch protein App1p phosphatidate phosphatase.

Chae M, Carman GM.

J Biol Chem. 2013 Mar 1;288(9):6427-37. doi: 10.1074/jbc.M112.449629. Epub 2013 Jan 20.


Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: a novel contribution of the carboxylate-binding loop.

Amacher JF, Cushing PR, Bahl CD, Beck T, Madden DR.

J Biol Chem. 2013 Feb 15;288(7):5114-26. doi: 10.1074/jbc.M112.401588. Epub 2012 Dec 15.


The Saccharomyces cerevisiae actin patch protein App1p is a phosphatidate phosphatase enzyme.

Chae M, Han GS, Carman GM.

J Biol Chem. 2012 Nov 23;287(48):40186-96. doi: 10.1074/jbc.M112.421776. Epub 2012 Nov 8.


Comprehensive analysis of interactions between the Src-associated protein in mitosis of 68 kDa and the human Src-homology 3 proteome.

Asbach B, Ludwig C, Saksela K, Wagner R.

PLoS One. 2012;7(6):e38540. doi: 10.1371/journal.pone.0038540. Epub 2012 Jun 20.


The application of modular protein domains in proteomics.

Jadwin JA, Ogiue-Ikeda M, Machida K.

FEBS Lett. 2012 Aug 14;586(17):2586-96. doi: 10.1016/j.febslet.2012.04.019. Epub 2012 Apr 21. Review.


Peptide array X-linking (PAX): a new peptide-protein identification approach.

Okada H, Uezu A, Soderblom EJ, Moseley MA 3rd, Gertler FB, Soderling SH.

PLoS One. 2012;7(5):e37035. doi: 10.1371/journal.pone.0037035. Epub 2012 May 14.


Transient protein-protein interaction of the SH3-peptide complex via closely located multiple binding sites.

Hahn S, Kim D.

PLoS One. 2012;7(3):e32804. doi: 10.1371/journal.pone.0032804. Epub 2012 Mar 22.

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