Probing structures of large protein complexes using zero-length cross-linking

Methods - Tập 89 - Trang 99-111 - 2015
Roland F. Rivera-Santiago1,2, Sira Sriswasdi1,3, Sandra L. Harper1, David W. Speicher1,2
1The Center for Systems and Computational Biology and Molecular and Cellular Oncogenesis Program, The Wistar Institute, Philadelphia, PA 19104, United States
2Biochemistry and Molecular Biophysics Graduate Group, University of Pennsylvania, Philadelphia, PA 19104, United States
3Department of Biological Sciences, Graduate School of Sciences, The University of Tokyo, Tokyo 113-0032, Japan

Tài liệu tham khảo

Olson, 2014, Structure

Sriswasdi, 2014, Proc. Natl. Acad. Sci. U.S.A., 111, 1801, 10.1073/pnas.1317620111

Greber, 2014, Nature, 515, 283, 10.1038/nature13895

Lasker, 2012, Proc. Natl. Acad. Sci. U.S.A., 109, 1380, 10.1073/pnas.1120559109

Konijnenberg, 2013, Biochim. Biophys. Acta, 1834, 1239, 10.1016/j.bbapap.2012.11.013

Ruotolo, 2008, Nat. Protoc., 3, 1139, 10.1038/nprot.2008.78

Lanucara, 2014, Nat. Chem., 6, 281, 10.1038/nchem.1889

Wang, 2011, Anal. Chem., 83, 7234, 10.1021/ac200567u

Kiselar, 2010, J. Mass Spectrom., 45, 1373, 10.1002/jms.1808

Maleknia, 2014, Chem. Soc. Rev., 43, 3244, 10.1039/c3cs60432b

Monroe, 2013, Anal. Chem., 85, 6185, 10.1021/ac400107c

Yan, 2014, J. Am. Soc. Mass Spectrom., 25, 2084, 10.1007/s13361-014-0993-x

Vahidi, 2013, Anal. Chem., 85, 8618, 10.1021/ac401148z

Poor, 2014, Proc. Natl. Acad. Sci. U.S.A., 111, E2596, 10.1073/pnas.1408983111

Xu, 2004, Anal. Chem., 76, 1213, 10.1021/ac035422g

Xu, 2003, Anal. Chem., 75, 6995, 10.1021/ac035104h

Xu, 2005, Anal. Chem., 77, 2437, 10.1021/ac0484629

Konermann, 2011, Chem. Soc. Rev., 40, 1224, 10.1039/C0CS00113A

Wales, 2006, Mass Spectrom. Rev., 25, 158, 10.1002/mas.20064

Wei, 2014, Drug Discov. Today, 19, 95, 10.1016/j.drudis.2013.07.019

Wang, 2013, Proc. Natl. Acad. Sci. U.S.A., 110, 20087, 10.1073/pnas.1315029110

Back, 2003, J. Mol. Biol., 331, 303, 10.1016/S0022-2836(03)00721-6

Leitner, 2010, Mol. Cell. Proteomics, 9, 1634, 10.1074/mcp.R000001-MCP201

Paramelle, 2013, J. Proteomics, 13, 438, 10.1002/pmic.201200305

Rappsilber, 2011, J. Struct. Biol., 173, 530, 10.1016/j.jsb.2010.10.014

Sinz, 2006, Mass Spectrom. Rev., 25, 663, 10.1002/mas.20082

Fasold, 1971, Angewandte Chemie, 10, 795, 10.1002/anie.197107951

Chen, 2010, EMBO J., 29, 717, 10.1038/emboj.2009.401

Leitner, 2012, Structure, 20, 814, 10.1016/j.str.2012.03.007

Herzog, 2012, Science, 337, 1348, 10.1126/science.1221483

Walzthoeni, 2013, Curr. Opin. Struct. Biol., 23, 252, 10.1016/j.sbi.2013.02.008

Petrotchenko, 2011, Mol. Cell. Proteomics, 10, 001420

Back, 2001, J. Am. Soc. Mass Spectrom., 12, 222, 10.1016/S1044-0305(00)00212-9

Kao, 2011, Mol. Cell. Proteomics, 10, 002212

Grabarek, 1990, Anal. Biochem., 185, 131, 10.1016/0003-2697(90)90267-D

Staros, 1986, Anal. Biochem., 156, 220, 10.1016/0003-2697(86)90176-4

Zybailov, 2013, J. Proteomics Bioinform., 6, 001

Bruce, 2012, Proteomics, 12, 1565, 10.1002/pmic.201100516

El-Shafey, 2006, Protein Sci., 15, 429, 10.1110/ps.051685706

Back, 2002, Anal. Chem., 74, 4417, 10.1021/ac0257492

Budayeva, 2014, Adv. Exp. Med. Biol., 806, 263, 10.1007/978-3-319-06068-2_11

Merkley, 2013, J. Struct. Funct. Genomics, 14, 77, 10.1007/s10969-013-9160-z

Serpa, 2012, Eur. J. Mass Spectrom., 18, 251, 10.1255/ejms.1178

Hyung, 2012, Proteomics, 12, 1547, 10.1002/pmic.201100520

Stengel, 2012, Mol. Cell. Proteomics, 11, 014027

Pacholarz, 2012, Chem. Soc. Rev., 41, 4335, 10.1039/c2cs35035a

Lepvrier, 2014, Anal. Chem., 86, 10524, 10.1021/ac502561e

Nagao, 2010, Plant Cell Physiol., 51, 718, 10.1093/pcp/pcq042

Bumpus, 2010, J. Inorg. Biochem., 104, 485, 10.1016/j.jinorgbio.2009.12.017

Marekov, 2007, Curr. Protoc. Protein Sci., 19, 16

Schmidt, 2005, Eur. J. Mass Spectrom., 11, 525, 10.1255/ejms.748

Kalkhof, 2005, Anal. Chem., 77, 495, 10.1021/ac0487294

Hojrup, 1990, Ion Formation from Organic Solvents, 61

Young, 2000, Proc. Natl. Acad. Sci. U.S.A., 97, 5802, 10.1073/pnas.090099097

Gao, 2006, J. Biol. Chem., 281, 20404, 10.1074/jbc.M601785200

Liu, 2011, Proc. Natl. Acad. Sci. U.S.A., 108, 18536, 10.1073/pnas.1111597108

Xu, 2009, Proteomics, 9, 1548, 10.1002/pmic.200700322

Haladova, 2012, J. Struct. Biol., 179, 10, 10.1016/j.jsb.2012.04.016

Singh, 2008, Anal. Chem., 80, 8799, 10.1021/ac801646f

Singh, 2013, J. Mol. Biol., 425, 3378, 10.1016/j.jmb.2013.06.026

Eng, 1994, J. Am. Soc. Mass Spectrom., 5, 976, 10.1016/1044-0305(94)80016-2

McIlwain, 2010, J. Proteome Res., 9, 2488, 10.1021/pr901163d

Li, 2008, J. Biol. Chem., 283, 1553, 10.1074/jbc.M706981200

Sali, 1993, J. Mol. Biol., 234, 779, 10.1006/jmbi.1993.1626

Li, 2010, J. Biol. Chem., 285, 29535, 10.1074/jbc.M110.145573

Sriswasdi, 2014, J. Proteome Res., 13, 898, 10.1021/pr400953w

Harper, 2013, Blood, 122, 3045, 10.1182/blood-2013-02-487702

Cox, 2008, Nat. Biotechnol., 26, 1367, 10.1038/nbt.1511

Nahnsen, 2013, Mol. Cell. Proteomics, 12, 549, 10.1074/mcp.R112.025163

Zhu, 2010, J. Biomed. Biotechnol., 2010, 840518

Frank, 2007, J. Proteome Res., 6, 114, 10.1021/pr060271u

Pan, 2010, BMC Bioinformatics, 11, 118, 10.1186/1471-2105-11-118

Perkins, 1999, Electrophoresis, 20, 3551, 10.1002/(SICI)1522-2683(19991201)20:18<3551::AID-ELPS3551>3.0.CO;2-2

Yang, 2012, Nat. Methods, 9, 904, 10.1038/nmeth.2099

Gotze, 2012, J. Am. Soc. Mass Spectrom., 23, 76, 10.1007/s13361-011-0261-2

Park, 2008, J. Proteome Res., 7, 3022, 10.1021/pr800127y

Harper, 2010, J. Biol. Chem., 285, 11003, 10.1074/jbc.M109.083048

Gallagher, 1992, J. Clin. Invest., 89, 892, 10.1172/JCI115669

Glele-Kakai, 1996, Br. J. Haematol., 95, 57, 10.1046/j.1365-2141.1996.d01-1869.x

Manevich, 2005, Free Radic. Biol. Med., 38, 1422, 10.1016/j.freeradbiomed.2005.02.011

Manevich, 2007, J. Lipid Res., 48, 2306, 10.1194/jlr.M700299-JLR200

Choi, 1998, Nat. Struct. Biol., 5, 400, 10.1038/nsb0598-400

Rahaman, 2012, Biochemistry, 51, 5521, 10.1021/bi300380h

Wu, 2009, Biochem. J., 419, 669, 10.1042/BJ20082061

Rivera-Santiago, 2015, Biochem. J.

Baines, 2009, Biochem. Soc. Trans., 37, 796, 10.1042/BST0370796

van den Akker, 2010, Molecules Dis., 45, 1, 10.1016/j.bcmd.2010.02.019

Choi, 2012, Curr. Top. Membr., 70, 77, 10.1016/B978-0-12-394316-3.00003-X

Hirai, 2011, Biochem. Cell Biol., 89, 148, 10.1139/O10-160

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Methods

Tập 89

99-111

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