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The ScPex13p SH3 domain exposes two distinct binding sites for Pex5p and Pex14p.

Pires JR, Hong X, Brockmann C, Volkmer-Engert R, Schneider-Mergener J, Oschkinat H, Erdmann R
J Mol Biol 326 1427-35 (2003)
Cited: 40 times
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Abstract

Pex13p is an essential component of the peroxisomal protein import machinery and interacts via its C-terminal SH3 domain with the type II SH3-ligand Pex14p and the non-PXXP protein Pex5p. We report the solution structure of the SH3 domain of Pex13p from Saccharomyces cerevisiae and the identification of a novel-binding pocket, which binds a non-PXXP-peptide representing the binding site of Pex5p. Chemical shift assays revealed the binding sites for Pex5p and Pex14p ligand peptides to be distinct and spatially separated. Competition assays demonstrated that the two ligand peptides can bind simultaneously to the SH3 domain.

Articles - 1nm7 mentioned but not cited (1)

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Reviews citing this publication (21)

  1. Lipid droplets and peroxisomes: key players in cellular lipid homeostasis or a matter of fat--store 'em up or burn 'em down. Kohlwein SD, Veenhuis M, van der Klei IJ. Genetics 193 1-50 (2013)
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  5. Getting a camel through the eye of a needle: the import of folded proteins by peroxisomes. Lanyon-Hogg T, Warriner SL, Baker A. Biol Cell 102 245-263 (2010)
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  8. Peroxisome Function, Biogenesis, and Dynamics in Plants. Kao YT, Gonzalez KL, Bartel B. Plant Physiol 176 162-177 (2018)
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  12. Synthesis and application of peptide arrays: quo vadis SPOT technology. Volkmer R. Chembiochem 10 1431-1442 (2009)
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  14. Elucidation of the binding preferences of peptide recognition modules: SH3 and PDZ domains. Teyra J, Sidhu SS, Kim PM. FEBS Lett 586 2631-2637 (2012)
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  19. A Systematic Compilation of Human SH3 Domains: A Versatile Superfamily in Cellular Signaling. Mehrabipour M, Jasemi NSK, Dvorsky R, Ahmadian MR. Cells 12 2054 (2023)
  20. A simple recipe for the non-expert bioinformaticist for building experimentally-testable hypotheses for proteins with no known homologs. Zawaira A, Shibayama Y. J Struct Funct Genomics 13 185-200 (2012)
  21. Insights into the Structure and Function of the Pex1/Pex6 AAA-ATPase in Peroxisome Homeostasis. Judy RM, Sheedy CJ, Gardner BM. Cells 11 2067 (2022)

Articles citing this publication (18)

  1. Bayesian modeling of the yeast SH3 domain interactome predicts spatiotemporal dynamics of endocytosis proteins. Tonikian R, Xin X, Toret CP, Gfeller D, Landgraf C, Panni S, Paoluzi S, Castagnoli L, Currell B, Seshagiri S, Yu H, Winsor B, Vidal M, Gerstein MB, Bader GD, Volkmer R, Cesareni G, Drubin DG, Kim PM, Sidhu SS, Boone C. PLoS Biol 7 e1000218 (2009)
  2. Quantification of PDZ domain specificity, prediction of ligand affinity and rational design of super-binding peptides. Wiedemann U, Boisguerin P, Leben R, Leitner D, Krause G, Moelling K, Volkmer-Engert R, Oschkinat H. J Mol Biol 343 703-718 (2004)
  3. Structure of an ultraweak protein-protein complex and its crucial role in regulation of cell morphology and motility. Vaynberg J, Fukuda T, Chen K, Vinogradova O, Velyvis A, Tu Y, Ng L, Wu C, Qin J. Mol Cell 17 513-523 (2005)
  4. Identification of a new complementation group of the peroxisome biogenesis disorders and PEX14 as the mutated gene. Shimozawa N, Tsukamoto T, Nagase T, Takemoto Y, Koyama N, Suzuki Y, Komori M, Osumi T, Jeannette G, Wanders RJ, Kondo N. Hum Mutat 23 552-558 (2004)
  5. Regulation of RhoGEF activity by intramolecular and intermolecular SH3 domain interactions. Schiller MR, Chakrabarti K, King GF, Schiller NI, Eipper BA, Maciejewski MW. J Biol Chem 281 18774-18786 (2006)
  6. Regulation of NOXO1 activity through reversible interactions with p22 and NOXA1. Dutta S, Rittinger K. PLoS One 5 e10478 (2010)
  7. Identification of a novel, intraperoxisomal pex14-binding site in pex13: association of pex13 with the docking complex is essential for peroxisomal matrix protein import. Schell-Steven A, Stein K, Amoros M, Landgraf C, Volkmer-Engert R, Rottensteiner H, Erdmann R. Mol Cell Biol 25 3007-3018 (2005)
  8. A novel Pex14 protein-interacting site of human Pex5 is critical for matrix protein import into peroxisomes. Neuhaus A, Kooshapur H, Wolf J, Meyer NH, Madl T, Saidowsky J, Hambruch E, Lazam A, Jung M, Sattler M, Schliebs W, Erdmann R. J Biol Chem 289 437-448 (2014)
  9. Titin as a giant scaffold for integrating stress and Src homology domain 3-mediated signaling pathways: the clustering of novel overlap ligand motifs in the elastic PEVK segment. Ma K, Forbes JG, Gutierrez-Cruz G, Wang K. J Biol Chem 281 27539-27556 (2006)
  10. Transactivation of Abl by the Crk II adapter protein requires a PNAY sequence in the Crk C-terminal SH3 domain. Reichman C, Singh K, Liu Y, Singh S, Li H, Fajardo JE, Fiser A, Birge RB. Oncogene 24 8187-8199 (2005)
  11. A viable Arabidopsis pex13 missense allele confers severe peroxisomal defects and decreases PEX5 association with peroxisomes. Woodward AW, Fleming WA, Burkhart SE, Ratzel SE, Bjornson M, Bartel B. Plant Mol Biol 86 201-214 (2014)
  12. PEX14 binding to Arabidopsis PEX5 has differential effects on PTS1 and PTS2 cargo occupancy of the receptor. Lanyon-Hogg T, Hooper J, Gunn S, Warriner SL, Baker A. FEBS Lett 588 2223-2229 (2014)
  13. Membrane topologies of PEX13 and PEX14 provide new insights on the mechanism of protein import into peroxisomes. Barros-Barbosa A, Ferreira MJ, Rodrigues TA, Pedrosa AG, Grou CP, Pinto MP, Fransen M, Francisco T, Azevedo JE. FEBS J 286 205-222 (2019)
  14. Peroxin 5-peroxin 14 association in the protozoan Leishmania donovani involves a novel protein-protein interaction motif. Madrid KP, Jardim A. Biochem J 391 105-114 (2005)
  15. Crystal structure of the N-terminal SH3 domain of mouse betaPIX, p21-activated kinase-interacting exchange factor. Li X, Liu X, Sun F, Gao J, Zhou H, Gao GF, Bartlam M, Rao Z. Biochem Biophys Res Commun 339 407-414 (2006)
  16. Solution NMR structure of the SH3 domain of human nephrocystin and analysis of a mutation-causing juvenile nephronophthisis. le Maire A, Weber T, Saunier S, Broutin I, Antignac C, Ducruix A, Dardel F. Proteins 59 347-355 (2005)
  17. Most yeast SH3 domains bind peptide targets with high intrinsic specificity. Brown T, Brown N, Stollar EJ. PLoS One 13 e0193128 (2018)
  18. Peroxisomal Targeting as a Sensitive Tool to Detect Protein-Small RNA Interactions through in Vivo Piggybacking. Incarbone M, Ritzenthaler C, Dunoyer P. Front Plant Sci 9 135 (2018)


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