Post-translational Modifications That Modulate Enzyme Activity, Volume 626 in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Updated chapters include Crosstalk between cellular metabolism and histone acetylation, Isolation of protein complexes and modifications that regulate transcriptional machinery, High-throughput phosphoproteome mapping through multiplexed mass spectrometry, Differentiation of D and L epimerization in proteins, Biochemical analysis of protein arginylation, Site-specific Determination of lysine acetylation stoichiometries on the proteome-scale, Genomic and biochemical analysis of RNA post-transcriptional modifications, Isolation and characterization of glycosylated (neuro)peptides, and more.
1. Cover image - p. iv 2. Title page - p. iv 3. Table of Contents - p. iv 4. Copyright - p. iv 5. Contributors - p. xiii 6. Preface - p. xix 7. Chapter One: Crosstalk between cellular metabolism and histone acetylation - p. xx 8. Chapter Two: Purification and enzymatic assay of class I histone deacetylase enzymes - p. 21 9. Chapter Three: Multiplexed quantitative phosphoproteomics of cell line and tissue samples - p. 40 10. Chapter Four: Differentiation of peptide isomers and epimers by radical-directed dissociation - p. 65 11. Chapter Five: Biochemical analysis of protein arginylation - p. 87 12. Chapter Six: Site-specific determination of lysine acetylation stoichiometries on the proteome-scale - p. 113 13. Chapter Seven: RNA modifications and the link to human disease - p. 132 14. Chapter Eight: Isolation and characterization of glycosylated neuropeptides - p. 146 15. Chapter Nine: Utilizing intein trans-splicing for in vivo generation of site-specifically modified proteins - p. 202 16. Chapter Ten: Systematic and site-specific analysis of N-glycoproteins on the cell surface by integrating bioorthogonal chemistry and MS-based proteomics - p. 222 17. Chapter Eleven: Silencing glycosaminoglycan functions in mouse embryonic stem cells with small molecule antagonists - p. 247 18. Chapter Twelve: Biochemical and structural analysis of N-terminal acetyltransferases - p. 270 19. Chapter Thirteen: Site-specific analysis of the Asp- and Glu-ADP-ribosylated proteome by quantitative mass spectrometry - p. 299 20. Chapter Fourteen: Analysis of the topology of ubiquitin chains - p. 321 21. Chapter Fifteen: Analysis of cardiac troponin proteoforms by top-down mass spectrometry - p. 346 22. Chapter Sixteen: Assays for tyrosine phosphorylation in human cells - p. 374 23. Chapter Seventeen: Metabolomics analysis of lipid metabolizing enzyme activity - p. 406 24. Chapter Eighteen: Simplified high yield TAILS terminomics using a new HPG-ALD 800K-2000 polymer with precipitation - p. 428 25. Chapter Nineteen: Methods for the expression, purification, and crystallization of histone deacetylase 6–inhibitor complexes - p. 446 26. Chapter Twenty: Quantitative analysis of global protein lysine methylation by mass spectrometry - p. 474 27. Chapter Twenty-One: The roles of S-nitrosylation and S-glutathionylation in Alzheimer's disease - p. 498 28. Chapter Twenty-Two: Expression of authentic post-translationally modified proteins in organisms with expanded genetic codes - p. 538 29. Chapter Twenty-Three: Preparation of a new construct of human histone deacetylase 8 for the crystallization of enzyme-inhibitor complexes - p. 559 30. Chapter Twenty-Four: Methods for characterizing protein acetylation during viral infection - p. 585
Post-translational Modifications That Modulate Enzyme Activity, Volume 626 in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Updated chapters include Crosstalk between cellular metabolism and histone acetylation, Isolation of protein complexes and modifications that regulate transcriptional machinery, High-throughput phosphoproteome mapping through multiplexed mass spectrometry, Differentiation of D and L epimerization in proteins, Biochemical analysis of protein arginylation, Site-specific Determination of lysine acetylation stoichiometries on the proteome-scale, Genomic and biochemical analysis of RNA post-transcriptional modifications, Isolation and characterization of glycosylated (neuro)peptides, and more.
1. Cover image - p. iv 2. Title page - p. iv 3. Table of Contents - p. iv 4. Copyright - p. iv 5. Contributors - p. xiii 6. Preface - p. xix 7. Chapter One: Crosstalk between cellular metabolism and histone acetylation - p. xx 8. Chapter Two: Purification and enzymatic assay of class I histone deacetylase enzymes - p. 21 9. Chapter Three: Multiplexed quantitative phosphoproteomics of cell line and tissue samples - p. 40 10. Chapter Four: Differentiation of peptide isomers and epimers by radical-directed dissociation - p. 65 11. Chapter Five: Biochemical analysis of protein arginylation - p. 87 12. Chapter Six: Site-specific determination of lysine acetylation stoichiometries on the proteome-scale - p. 113 13. Chapter Seven: RNA modifications and the link to human disease - p. 132 14. Chapter Eight: Isolation and characterization of glycosylated neuropeptides - p. 146 15. Chapter Nine: Utilizing intein trans-splicing for in vivo generation of site-specifically modified proteins - p. 202 16. Chapter Ten: Systematic and site-specific analysis of N-glycoproteins on the cell surface by integrating bioorthogonal chemistry and MS-based proteomics - p. 222 17. Chapter Eleven: Silencing glycosaminoglycan functions in mouse embryonic stem cells with small molecule antagonists - p. 247 18. Chapter Twelve: Biochemical and structural analysis of N-terminal acetyltransferases - p. 270 19. Chapter Thirteen: Site-specific analysis of the Asp- and Glu-ADP-ribosylated proteome by quantitative mass spectrometry - p. 299 20. Chapter Fourteen: Analysis of the topology of ubiquitin chains - p. 321 21. Chapter Fifteen: Analysis of cardiac troponin proteoforms by top-down mass spectrometry - p. 346 22. Chapter Sixteen: Assays for tyrosine phosphorylation in human cells - p. 374 23. Chapter Seventeen: Metabolomics analysis of lipid metabolizing enzyme activity - p. 406 24. Chapter Eighteen: Simplified high yield TAILS terminomics using a new HPG-ALD 800K-2000 polymer with precipitation - p. 428 25. Chapter Nineteen: Methods for the expression, purification, and crystallization of histone deacetylase 6–inhibitor complexes - p. 446 26. Chapter Twenty: Quantitative analysis of global protein lysine methylation by mass spectrometry - p. 474 27. Chapter Twenty-One: The roles of S-nitrosylation and S-glutathionylation in Alzheimer's disease - p. 498 28. Chapter Twenty-Two: Expression of authentic post-translationally modified proteins in organisms with expanded genetic codes - p. 538 29. Chapter Twenty-Three: Preparation of a new construct of human histone deacetylase 8 for the crystallization of enzyme-inhibitor complexes - p. 559 30. Chapter Twenty-Four: Methods for characterizing protein acetylation during viral infection - p. 585
