Identification of two distinct peptide-binding pockets in the SH3 domain of human mixed-lineage kinase 3

Kokoszka, Malgorzata E.; Kall, Stefanie L.; Khosla, Sehar; McGinnis, Jennifer E.; Lavie, Arnon; Kay, Brian K.

doi:10.1074/jbc.RA117.000262

Identification of two distinct peptide-binding pockets in the SH3 domain of human mixed-lineage kinase 3

Journal Article · 06 July 2018 · Journal of Biological Chemistry

DOI:https://doi.org/10.1074/jbc.RA117.000262· OSTI ID:1499734

Kokoszka, Malgorzata E.; Kall, Stefanie L.; Khosla, Sehar; McGinnis, Jennifer E.; ; Kay, Brian K.

Abstract not provided

Research Organization:: Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, IL (US)

Sponsoring Organization:: NIH

OSTI ID:: 1499734

Journal Information:: Journal of Biological Chemistry, Journal Name: Journal of Biological Chemistry Journal Issue: 35 Vol. 293; ISSN 0021-9258

Publisher:: American Society for Biochemistry and Molecular Biology

Country of Publication:: United States

Language:: ENGLISH

References (53)

Abl-interactor-1, a novel SH3 protein binding to the carboxy-terminal portion of the Abl protein, suppresses v-abl transforming activity. Shi, Y.; Alin, K.; Goff, S. P. Genes & Development, Vol. 9, Issue 21 https://doi.org/10.1101/gad.9.21.2583	journal	November 1995
From peptides to drugs via phage display Kay, Brian K.; Kurakin, Alexei V.; Hyde-DeRuyscher, Robin Drug Discovery Today, Vol. 3, Issue 8 https://doi.org/10.1016/S1359-6446(98)01220-3	journal	August 1998
The BioGRID interaction database: 2015 update Chatr-aryamontri, Andrew; Breitkreutz, Bobby-Joe; Oughtred, Rose Nucleic Acids Research, Vol. 43, Issue D1 https://doi.org/10.1093/nar/gku1204	journal	November 2014
A Specificity Map for the PDZ Domain Family Tonikian, Raffi; Zhang, Yingnan; Sazinsky, Stephen L. PLoS Biology, Vol. 6, Issue 9 https://doi.org/10.1371/journal.pbio.0060239	journal	September 2008
Topography for Independent Binding of α-Helical and PPII-Helical Ligands to a Peroxisomal SH3 Domain Douangamath, Alice; Filipp, Fabian V.; Klein, André T. J. Molecular Cell, Vol. 10, Issue 5 https://doi.org/10.1016/S1097-2765(02)00749-9	journal	November 2002
The application of modular protein domains in proteomics Jadwin, Joshua A.; Ogiue-Ikeda, Mari; Machida, Kazuya FEBS Letters, Vol. 586, Issue 17 https://doi.org/10.1016/j.febslet.2012.04.019	journal	April 2012
The hepatitis C virus NS5A protein binds to members of the Src family of tyrosine kinases and regulates kinase activity Macdonald, A. Journal of General Virology, Vol. 85, Issue 3 https://doi.org/10.1099/vir.0.19691-0	journal	March 2004
Refinement of Macromolecular Structures by the Maximum-Likelihood Method Murshudov, G. N.; Vagin, A. A.; Dodson, E. J. Acta Crystallographica Section D Biological Crystallography, Vol. 53, Issue 3 https://doi.org/10.1107/S0907444996012255	journal	May 1997
Dissection of a Signaling Pathway by Which Pathogen-associated Molecular Patterns Recruit the JNK and p38 MAPKs and Trigger Cytokine Release Zhong, Jian; Kyriakis, John M. Journal of Biological Chemistry, Vol. 282, Issue 33 https://doi.org/10.1074/jbc.M703422200	journal	June 2007
Hsp90/p50 ^cdc37 Is Required for Mixed-lineage Kinase (MLK) 3 Signaling Zhang, Hua; Wu, Wei; Du, Yan Journal of Biological Chemistry, Vol. 279, Issue 19 https://doi.org/10.1074/jbc.M311377200	journal	March 2004
Evolving specificity from variability for protein interaction domains Kaneko, Tomonori; Sidhu, Sachdev S.; Li, Shawn S. C. Trends in Biochemical Sciences, Vol. 36, Issue 4 https://doi.org/10.1016/j.tibs.2010.12.001	journal	April 2011
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega Sievers, Fabian; Wilm, Andreas; Dineen, David Molecular Systems Biology, Vol. 7, Issue 1 https://doi.org/10.1038/msb.2011.75	journal	January 2011
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, Evgenia; Simister, Philip C.; Janning, Melanie Journal of Biological Chemistry, Vol. 290, Issue 42 https://doi.org/10.1074/jbc.M115.637207	journal	August 2015
The NF2 tumor suppressor regulates microtubule-based vesicle trafficking via a novel Rac, MLK and p38SAPK pathway Hennigan, R. F.; Moon, C. A.; Parysek, L. M. Oncogene, Vol. 32, Issue 9 https://doi.org/10.1038/onc.2012.135	journal	April 2012
Nonphosphorylated Peptide Ligands for the Grb2 Src Homology 2 Domain Oligino, Lyn; Lung, Feng-Di T.; Sastry, Lakshmi Journal of Biological Chemistry, Vol. 272, Issue 46 https://doi.org/10.1074/jbc.272.46.29046	journal	November 1997
PHENIX: a comprehensive Python-based system for macromolecular structure solution Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221 https://doi.org/10.1107/S0907444909052925	journal	January 2010
Inhibition of Fast Axonal Transport by Pathogenic SOD1 Involves Activation of p38 MAP Kinase Morfini, Gerardo A.; Bosco, Daryl A.; Brown, Hannah PLoS ONE, Vol. 8, Issue 6 https://doi.org/10.1371/journal.pone.0065235	journal	June 2013
Zipper-Mediated Oligomerization of the Serine/Threonine Kinase SPRK/MLK-3 Is Not Required for Its Activation by the GTPase Cdc42 But Is Necessary for Its Activation of the JNK Pathway Vacratsis, P. O. Journal of Biological Chemistry https://doi.org/10.1074/jbc.M002858200	journal	June 2000
PROCHECK: a program to check the stereochemical quality of protein structures Laskowski, R. A.; MacArthur, M. W.; Moss, D. S. Journal of Applied Crystallography, Vol. 26, Issue 2 https://doi.org/10.1107/S0021889892009944	journal	April 1993
Large-scale interaction profiling of PDZ domains through proteomic peptide-phage display using human and viral phage peptidomes Ivarsson, Y.; Arnold, R.; McLaughlin, M. Proceedings of the National Academy of Sciences, Vol. 111, Issue 7 https://doi.org/10.1073/pnas.1312296111	journal	February 2014
Distinct ligand preferences of Src homology 3 domains from Src, Yes, Abl, Cortactin, p53bp2, PLCgamma, Crk, and Grb2. Sparks, A. B.; Rider, J. E.; Hoffman, N. G. Proceedings of the National Academy of Sciences, Vol. 93, Issue 4 https://doi.org/10.1073/pnas.93.4.1540	journal	February 1996
Mapping Protein–Protein Interactions with Phage-Displayed Combinatorial Peptide Libraries and Alanine Scanning Kokoszka, Malgorzata E.; Kay, Brian K. Peptide Libraries https://doi.org/10.1007/978-1-4939-2020-4_12	book	December 2014
Structural Basis for Specific Binding of the Gads SH3 Domain to an RxxK Motif-Containing SLP-76 Peptide Liu, Qin; Berry, Donna; Nash, Piers Molecular Cell, Vol. 11, Issue 2 https://doi.org/10.1016/S1097-2765(03)00046-7	journal	February 2003
Improvements to the Kunkel mutagenesis protocol for constructing primary and secondary phage-display libraries Huang, Renhua; Fang, Pete; Kay, Brian K. Methods, Vol. 58, Issue 1 https://doi.org/10.1016/j.ymeth.2012.08.008	journal	September 2012
Estimating the size of the human interactome Stumpf, M. P. H.; Thorne, T.; de Silva, E. Proceedings of the National Academy of Sciences, Vol. 105, Issue 19 https://doi.org/10.1073/pnas.0708078105	journal	May 2008
A Combined Experimental and Computational Strategy to Define Protein Interaction Networks for Peptide Recognition Modules Tong, A. H. Y. Science, Vol. 295, Issue 5553 https://doi.org/10.1126/science.1064987	journal	December 2001
Structure of the c-Src-SH3 domain in complex with a proline-rich motif of NS5A protein from the hepatitis C virus Bacarizo, Julio; Martínez-Rodríguez, Sergio; Cámara-Artigas, Ana Journal of Structural Biology, Vol. 189, Issue 1 https://doi.org/10.1016/j.jsb.2014.11.004	journal	January 2015
The discovery of modular binding domains: building blocks of cell signalling Mayer, Bruce J. Nature Reviews Molecular Cell Biology, Vol. 16, Issue 11 https://doi.org/10.1038/nrm4068	journal	September 2015
SH3 domain recognition of a proline-independent tyrosine-based RKxxYxxY motif in immune cell adaptor SKAP55 Kang, H. The EMBO Journal, Vol. 19, Issue 12 https://doi.org/10.1093/emboj/19.12.2889	journal	June 2000
Evolution of the neuron-specific alternative splicing product of the c-src proto-oncogene Raulf, F.; Robertson, S. M.; Schartl, M. Journal of Neuroscience Research, Vol. 24, Issue 1 https://doi.org/10.1002/jnr.490240112	journal	September 1989
MLK3 is required for mitogen activation of B-Raf, ERK and cell proliferation Chadee, Deborah N.; Kyriakis, John M. Nature Cell Biology, Vol. 6, Issue 8 https://doi.org/10.1038/ncb1152	journal	July 2004
MOLREP an Automated Program for Molecular Replacement Vagin, A.; Teplyakov, A. Journal of Applied Crystallography, Vol. 30, Issue 6, p. 1022-1025 https://doi.org/10.1107/S0021889897006766	journal	December 1997
Identification of preferred protein interactions by phage-display of the human Src homology-3 proteome Kärkkäinen, Satu; Hiipakka, Marita; Wang, Jing-Huan EMBO reports, Vol. 7, Issue 2 https://doi.org/10.1038/sj.embor.7400596	journal	February 2006
Novel recognition mode between Vav and Grb2 SH3 domains Nishida, M. The EMBO Journal, Vol. 20, Issue 12 https://doi.org/10.1093/emboj/20.12.2995	journal	June 2001
A novel peptide-SH3 interaction Mongiovi, A. M. The EMBO Journal, Vol. 18, Issue 19 https://doi.org/10.1093/emboj/18.19.5300	journal	October 1999
Characterization of the Interaction of Natural Proline-Rich Peptides with Five Different SH3 Domains Viguera, Ana R.; Arrondo, Jose L. R.; Musacchio, Andrea Biochemistry, Vol. 33, Issue 36 https://doi.org/10.1021/bi00202a011	journal	September 1994
Isolation and characterization of e3B1, an eps8 binding protein that regulates cell growth Biesova, Zuzana; Piccoli, Claudia; Wong, William T. Oncogene, Vol. 14, Issue 2 https://doi.org/10.1038/sj.onc.1200822	journal	January 1997
Mixed-lineage kinase control of JNK and p38 MAPK pathways Gallo, Kathleen A.; Johnson, Gary L. Nature Reviews Molecular Cell Biology, Vol. 3, Issue 9 https://doi.org/10.1038/nrm906	journal	September 2002
NS5A, a nonstructural protein of hepatitis C virus, binds growth factor receptor-bound protein 2 adaptor protein in a Src homology 3 domain/ligand-dependent manner and perturbs mitogenic signaling Tan, S. -L.; Nakao, H.; He, Y. Proceedings of the National Academy of Sciences, Vol. 96, Issue 10 https://doi.org/10.1073/pnas.96.10.5533	journal	May 1999
Regulation of mixed lineage kinase 3 is required for Neurofibromatosis-2-mediated growth suppression in human cancer Zhan, Y.; Modi, N.; Stewart, A. M. Oncogene, Vol. 30, Issue 7 https://doi.org/10.1038/onc.2010.453	journal	October 2010
Efficient Construction of a Large Collection of Phage-Displayed Combinatorial Peptide Libraries No authors listed Combinatorial Chemistry & High Throughput Screening, Vol. 8, Issue 6 https://doi.org/10.2174/1386207054867337	journal	September 2005
The Kinase Activation Loop Is the Key to Mixed Lineage Kinase-3 Activation via Both Autophosphorylation and Hematopoetic Progenitor Kinase 1 Phosphorylation Leung, Irene Wing-Lan; Lassam, Norman Journal of Biological Chemistry, Vol. 276, Issue 3 https://doi.org/10.1074/jbc.M004092200	journal	October 2000
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/S0907444909047337	journal	January 2010
The protein interaction network mediated by human SH3 domains Carducci, Martina; Perfetto, Livia; Briganti, Leonardo Biotechnology Advances, Vol. 30, Issue 1 https://doi.org/10.1016/j.biotechadv.2011.06.012	journal	January 2012
Diverse recognition of non-PxxP peptide ligands by the SH3 domains from p67phox, Grb2 and Pex13p Kami, K. The EMBO Journal, Vol. 21, Issue 16 https://doi.org/10.1093/emboj/cdf428	journal	August 2002
Autoinhibition of Mixed Lineage Kinase 3 through Its Src Homology 3 Domain Zhang, Hua; Gallo, Kathleen A. Journal of Biological Chemistry, Vol. 276, Issue 49 https://doi.org/10.1074/jbc.M107176200	journal	October 2001
SH3 domain ligand binding: What's the consensus and where's the specificity? Saksela, Kalle; Permi, Perttu FEBS Letters, Vol. 586, Issue 17 https://doi.org/10.1016/j.febslet.2012.04.042	journal	May 2012
Assembly of Cell Regulatory Systems Through Protein Interaction Domains Pawson, T. Science, Vol. 300, Issue 5618 https://doi.org/10.1126/science.1083653	journal	April 2003
Cdc42 Induces Activation Loop Phosphorylation and Membrane Targeting of Mixed Lineage Kinase 3 Du, Yan; Böck, Barbara C.; Schachter, Karen A. Journal of Biological Chemistry, Vol. 280, Issue 52 https://doi.org/10.1074/jbc.M502671200	journal	October 2005
Convergent evolution with combinatorial peptides Kay, Brian K.; Kasanov, Jeremy; Knight, Stephen FEBS Letters, Vol. 480, Issue 1 https://doi.org/10.1016/S0014-5793(00)01778-6	journal	August 2000
Identification of biologically active peptides that inhibit binding of human CXCL8 to its receptors from a random phage-epitope library Houimel, M.; Mazzucchelli, L. Journal of Leukocyte Biology, Vol. 85, Issue 4 https://doi.org/10.1189/jlb.0608380	journal	December 2008
Hepatitis C Virus NS5A Inhibits Mixed Lineage Kinase 3 to Block Apoptosis Amako, Yutaka; Igloi, Zsofia; Mankouri, Jamel Journal of Biological Chemistry, Vol. 288, Issue 34 https://doi.org/10.1074/jbc.M113.491985	journal	July 2013
Mixed Lineage Kinase-c-Jun N-Terminal Kinase Axis: A Potential Therapeutic Target in Cancer Rana, A.; Rana, B.; Mishra, R. Genes & Cancer, Vol. 4, Issue 9-10 https://doi.org/10.1177/1947601913485415	journal	April 2013

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