| Contributors |
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xi | |
| Preface |
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xv | |
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1 Utility of bacterial peptidoglycan recycling enzymes in the chemoenzymatic synthesis of valuable UDP sugar substrates |
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1 | (26) |
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Catherine Leimkuhler Grimes |
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2 | (4) |
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6 | (16) |
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22 | (1) |
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22 | (1) |
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23 | (4) |
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2 Chemical tools for selective activity profiling of bacterial penicillin-binding proteins |
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27 | (30) |
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28 | (2) |
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2 Activity-based profiling of penicillin-binding proteins |
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30 | (12) |
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3 Gel-based analysis of PBP activity profile |
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42 | (4) |
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4 In vivo imaging of PBP activity |
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46 | (4) |
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5 Additional considerations and controls |
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50 | (1) |
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51 | (1) |
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52 | (1) |
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52 | (5) |
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3 Fluorescent stem peptide mimics: In situ probes for peptidoglycan crosslinking |
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57 | (12) |
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58 | (2) |
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60 | (2) |
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3 Bacterial growth and FSPM labeling |
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62 | (1) |
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4 Quantification of crosslinking by flow cytometry |
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63 | (1) |
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5 Localization of crosslinking by microscopy |
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64 | (1) |
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65 | (1) |
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66 | (3) |
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4 Gram-scale preparation of the antibiotic lead compound salicyl-AMS, a potent inhibitor of bacterial salicylate adenylation enzymes |
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69 | (20) |
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70 | (2) |
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2 Synthesis of salicyl-AMS, sodium salt |
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72 | (4) |
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76 | (7) |
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83 | (1) |
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84 | (1) |
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84 | (1) |
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84 | (5) |
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5 Probe-enabled approaches for function-dependent cell sorting and characterization of microbiome subpopulations |
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89 | (20) |
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90 | (2) |
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2 Probe design for FACS-enabled isolation |
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92 | (4) |
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3 Labeling and selectivity protocols |
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96 | (3) |
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4 Microbiome sample preparation |
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99 | (2) |
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5 Fluorescence-activated cell sorting (FACS) protocols |
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101 | (3) |
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104 | (1) |
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104 | (1) |
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104 | (5) |
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6 Biochemical analysis of NlpC/p60 peptidoglycan hydrolase activity |
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109 | (20) |
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110 | (1) |
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2 Bacterial expression and purification of recombinant NlpC/p60 proteins |
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111 | (5) |
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3 Large scale isolation of peptidoglycan |
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116 | (3) |
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4 Biochemical analysis of NlpC/p60 peptidoglycan hydrolase activity |
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119 | (6) |
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5 Summary and conclusions |
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125 | (1) |
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125 | (1) |
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Conflict of interest statement |
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125 | (1) |
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126 | (3) |
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7 Controlled release of bioactive signaling molecules |
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129 | (10) |
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130 | (1) |
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131 | (6) |
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137 | (1) |
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138 | (1) |
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138 | (1) |
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8 Imaging nascent transcription in wholemount vertebrate embryos to characterize zygotic genome activation |
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139 | (28) |
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140 | (2) |
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142 | (18) |
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160 | (1) |
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161 | (2) |
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163 | (1) |
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163 | (4) |
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9 Engineering reversible cell-cell interactions with chemical biology |
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167 | (24) |
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168 | (1) |
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2 Nongenetic approaches to engineering cell-cell interactions |
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169 | (7) |
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3 Engineering reversible cell-cell interactions with chemically self-assembled nanorings (CSANS) |
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176 | (2) |
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178 | (6) |
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5 Analysis of the cell-cell interactions |
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184 | (3) |
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187 | (1) |
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187 | (1) |
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188 | (3) |
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10 Fast phosphine-activated control of protein function using unnatural lysine analogues |
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191 | (28) |
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192 | (4) |
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196 | (15) |
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3 Controlling protein SUMOylation with phosphine triggers |
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211 | (3) |
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214 | (1) |
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214 | (1) |
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214 | (5) |
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11 Photopharmacological control of lipid function |
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219 | (14) |
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219 | (1) |
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2 General consideration when working with azobenzene-photoswitches |
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220 | (5) |
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3 Photopharmacological assay methods--Exemplified with PhotoSIP |
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225 | (6) |
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231 | (1) |
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231 | (2) |
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12 Expanding the substrate selectivity of SNAP/CLIP-tagging of intracellular targets |
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233 | (26) |
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234 | (2) |
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236 | (1) |
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3 SNAP-tag labeling of an (O6-(5-pyridy I methyl) guanine substrate |
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237 | (7) |
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4 Two-step bioorthogonal labeling |
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244 | (9) |
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253 | (1) |
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254 | (1) |
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254 | (5) |
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13 Light-induced protein proximity by activation of gibberellic acid derivatives in living cells |
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259 | (14) |
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260 | (5) |
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265 | (5) |
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270 | (1) |
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270 | (1) |
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270 | (3) |
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14 Photoactivatable trimethoprim-based probes for spatiotemporal control of biological processes |
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273 | (22) |
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274 | (4) |
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2 Preparation and synthesis |
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278 | (7) |
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285 | (3) |
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288 | (4) |
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292 | (1) |
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6 Summary and Conclusions |
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292 | (1) |
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293 | (1) |
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293 | (2) |
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15 Site-specific antibody fragment conjugates for targeted imaging |
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295 | (26) |
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296 | (3) |
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2 Genetic incorporation of UAA to fab fragments |
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299 | (5) |
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3 Linker compound synthesis |
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304 | (3) |
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4 Site-specific fab conjugation and purification |
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307 | (2) |
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5 In vitro characterization of the fab conjugates |
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309 | (5) |
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6 In vivo imaging using fab conjugates |
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314 | (4) |
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7 Summary and conclusions |
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318 | (3) |
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318 | (1) |
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318 | (3) |
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16 Quantifying protein-protein interactions of the acyl carrier protein with solvatochromic probes |
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321 | |
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322 | (2) |
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2 Preparation of 4-DMN-EcACP |
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324 | (12) |
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3 Protein-protein interaction studies using 4-DMN-EcACP |
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336 | (3) |
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4 Summary and conclusions |
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339 | |
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340 | (1) |
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340 | |
Lisainfo e-raamatute kohta