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Literature DB >> 21770468

Structural mass spectrometry of proteins using hydroxyl radical based protein footprinting.

Abstract

Structural MS is a rapidly growing field with many applications in basic research and pharmaceutical drug development. In this feature article the overall technology is described and several examples of how hydroxyl radical based footprinting MS can be used to map interfaces, evaluate protein structure, and identify ligand dependent conformational changes in proteins are described.

Entities: Chemical Disease Gene Species

Mesh：

Substances：
Proteins
Hydroxyl Radical

Year: 2011 PMID： 21770468 PMCID： PMC3184339 DOI： 10.1021/ac200567u

Source DB: PubMed Journal: Anal Chem ISSN： 0003-2700 Impact factor: 6.986

49 in total

1. Ab initio protein structure prediction of CASP III targets using ROSETTA.

Authors: K T Simons; R Bonneau; I Ruczinski; D Baker
Journal: Proteins Date: 1999

2. Protein structure prediction and structural genomics.

Authors: D Baker; A Sali
Journal: Science Date: 2001-10-05 Impact factor: 47.728

3. VADAR: a web server for quantitative evaluation of protein structure quality.

Authors: Leigh Willard; Anuj Ranjan; Haiyan Zhang; Hassan Monzavi; Robert F Boyko; Brian D Sykes; David S Wishart
Journal: Nucleic Acids Res Date: 2003-07-01 Impact factor: 16.971

4. Open mass spectrometry search algorithm.

Authors: Lewis Y Geer; Sanford P Markey; Jeffrey A Kowalak; Lukas Wagner; Ming Xu; Dawn M Maynard; Xiaoyu Yang; Wenyao Shi; Stephen H Bryant
Journal: J Proteome Res Date: 2004 Sep-Oct Impact factor: 4.466

5. Probabilistic cross-link analysis and experiment planning for high-throughput elucidation of protein structure.

Authors: Xiaoduan Ye; Patrick K O'Neil; Adrienne N Foster; Michal J Gajda; Jan Kosinski; Michal A Kurowski; Janusz M Bujnicki; Alan M Friedman; Chris Bailey-Kellogg
Journal: Protein Sci Date: 2004-12 Impact factor: 6.725

6. Hydroxyl radical "footprinting": high-resolution information about DNA-protein contacts and application to lambda repressor and Cro protein.

Authors: T D Tullius; B A Dombroski
Journal: Proc Natl Acad Sci U S A Date: 1986-08 Impact factor: 11.205

7. "Footprint" titrations yield valid thermodynamic isotherms.

Authors: M Brenowitz; D F Senear; M A Shea; G K Ackers
Journal: Proc Natl Acad Sci U S A Date: 1986-11 Impact factor: 11.205

8. Error-tolerant identification of peptides in sequence databases by peptide sequence tags.

Authors: M Mann; M Wilm
Journal: Anal Chem Date: 1994-12-15 Impact factor: 6.986

9. Structural analysis of a highly glycosylated and unliganded gp120-based antigen using mass spectrometry.

Authors: Liwen Wang; Yali Qin; Serguei Ilchenko; Jen Bohon; Wuxian Shi; Michael W Cho; Keiji Takamoto; Mark R Chance
Journal: Biochemistry Date: 2010-10-26 Impact factor: 3.162

10. Integrated algorithms for high-throughput examination of covalently labeled biomolecules by structural mass spectrometry.

Authors: Parminder Kaur; Janna G Kiselar; Mark R Chance
Journal: Anal Chem Date: 2009-10-01 Impact factor: 6.986

43 in total

1. Validation of membrane protein topology models by oxidative labeling and mass spectrometry.

Authors: Yan Pan; Xiang Ruan; Miguel A Valvano; Lars Konermann
Journal: J Am Soc Mass Spectrom Date: 2012-03-13 Impact factor: 3.109

Review 2. Probing structures of large protein complexes using zero-length cross-linking.

Authors: Roland F Rivera-Santiago; Sira Sriswasdi; Sandra L Harper; David W Speicher
Journal: Methods Date: 2015-05-01 Impact factor: 3.608

3. Fast photochemical oxidation of proteins coupled to multidimensional protein identification technology (MudPIT): expanding footprinting strategies to complex systems.

Authors: Aimee Rinas; Lisa M Jones
Journal: J Am Soc Mass Spectrom Date: 2014-11-20 Impact factor: 3.109

4. Quantitative mapping of protein structure by hydroxyl radical footprinting-mediated structural mass spectrometry: a protection factor analysis.

Authors: Wei Huang; Krishnakumar M Ravikumar; Mark R Chance; Sichun Yang
Journal: Biophys J Date: 2015-01-06 Impact factor: 4.033

Review 5. Fast photochemical oxidation of proteins (FPOP): A powerful mass spectrometry-based structural proteomics tool.

Authors: Danté T Johnson; Luciano H Di Stefano; Lisa M Jones
Journal: J Biol Chem Date: 2019-07-01 Impact factor: 5.157

Review 6. Protein Footprinting Comes of Age: Mass Spectrometry for Biophysical Structure Assessment.

Authors: Liwen Wang; Mark R Chance
Journal: Mol Cell Proteomics Date: 2017-03-08 Impact factor: 5.911

7. Activation of tumor suppressor protein PP2A inhibits KRAS-driven tumor growth.

Authors: Jaya Sangodkar; Abbey Perl; Rita Tohme; Janna Kiselar; David B Kastrinsky; Nilesh Zaware; Sudeh Izadmehr; Sahar Mazhar; Danica D Wiredja; Caitlin M O'Connor; Divya Hoon; Neil S Dhawan; Daniela Schlatzer; Shen Yao; Daniel Leonard; Alain C Borczuk; Giridharan Gokulrangan; Lifu Wang; Elena Svenson; Caroline C Farrington; Eric Yuan; Rita A Avelar; Agnes Stachnik; Blake Smith; Vickram Gidwani; Heather M Giannini; Daniel McQuaid; Kimberly McClinch; Zhizhi Wang; Alice C Levine; Rosalie C Sears; Edward Y Chen; Qiaonan Duan; Manish Datt; Shozeb Haider; Avi Ma'ayan; Analisa DiFeo; Neelesh Sharma; Matthew D Galsky; David L Brautigan; Yiannis A Ioannou; Wenqing Xu; Mark R Chance; Michael Ohlmeyer; Goutham Narla
Journal: J Clin Invest Date: 2017-05-15 Impact factor: 14.808