Protein Engineering Protocols - Mycobacteriology research center

More documents

Recommendations

Info

ContributorsKATJA M. ARNDT • Institut für Biologie III, Universität Freiburg, Freiburg,GermanyJAMIE M. BACHER • The Skaggs Institute for Chemical Biology, The ScrippsResearch Institute, La Jolla, CAPETER L. BERGQUIST • Biotechnology Research Institute, Macquarie University,Sydney, NSW, Australia; Department of Molecular Medicine and Pathology,Auckland University Medical School, Auckland, New ZealandLUKE H. BRADLEY • Department of Chemistry, Princeton University,Princeton, NJFRANÇOIS-XAVIER CAMPBELL-VALOIS • Département de Biochimie, Universitéde Montréal, Montréal, Québec, CanadaMICHEL DENAULT • Department of Quantitative Methods, HEC Montréal,Montréal, Québec, CanadaANDREW D. ELLINGTON • Institute for Cellular and Molecular Biologyand Department of Biochemistry, University of Texas, Austin, TXBIRTE K. FELD • Department of Chemistry and the Institute for Genomicsand Bioinformatics, University of California, Irvine, CAPETER FRIEDHOFF • Institut für Biochemie, Justus-Liebig-Universität,Giessen, GermanySATOSHI FUJITA • Department of Chemistry and Biotechnology, Schoolof Engineering, The University of Tokyo, Hongo, Tokyo, Japan; ResearchInstitute for Cell Engineering, National Institute of Advanced IndustrialScience and Technology (AIST), Tokyo, JapanFARID J. GHADESSY • MRC Laboratory of Molecular Biology, Cambridge,United Kingdom; Department of Oncology, University College MedicalSchool, London, United KingdomMORELAND D. GIBBS • Biotechnology Research Institute, Macquarie University,Sydney, NSW, AustraliaMICHAEL H. HECHT • Department of Chemistry, Princeton University,Princeton, NJJOCHEN HECKY • Institut für Biology III, Universität Freiburg, Freiburg,GermanyPHILIPP HOLLIGER • MRC Laboratory of Molecular Biology, Cambridge,United Kingdomix
x ContributorsMITSUHIKO IKURA • Division of Molecular and Structural Biology, OntarioCancer Institute and Department of Medical Biophysics, Universityof Toronto, Toronto, Ontario, CanadaAKIKO KOIDE • Department of Biochemistry and Molecular Biology,The University of Chicago, Chicago, ILSHOHEI KOIDE • Department of Biochemistry and Molecular Biology,The University of Chicago, Chicago, ILHIDETOSHI KONO • Computational Biology Group, Neutron Science ResearchCenter, Quantum Beam Science Directorate, Japan Atomic EnergyAgency, Kyoto, JapanJODY M. MASON • Institut für Biologie III, Universität Freiburg, Freiburg,GermanySTEPHEN W. MICHNICK • Département de Biochimie, Université de Montréal,Montréal, Québec, CanadaKRISTIAN M. MÜLLER • Institut für Biologie III, Universität Freiburg,Freiburg, GermanyATSUSHI MIYAWAKI • Laboratory for Cell Function and Dynamics, AdvancedTechnology Development Center, Brain Science Institute, RIKEN, WakoCity, Saitama, JapanWATARU NOMURA • Institute for Chemical Research, Kyoto University, Uji,Kyoto, JapanJOELLE N. PELLETIER • Département de Chimie, Université de Montréal,Montréal, Québec, CanadaALFRED PINGOUD • Institut für Biochemie, Justus-Liebig-Universität,Giessen, GermanyJEFFERY G. SAVEN • Makineni Theoretical Laboratories, Departmentof Chemistry, University of Pennsylvania, Philadelphia, PAASAKO SAWANO • Laboratory for Cell Function and Dynamics, AdvancedTechnology Development Center, Brain Science Institute, RIKEN, WakoCity, Saitama, Japan; Brain Science Research Division, Brain Scienceand Life Technology Research Foundation, Itabashi, Tokyo, JapanSACHDEV S. SIDHU • Department of Protein Engineering, Genentech Inc.,South San Francisco, CASABINE C. STEBEL • Institut für Biologie III, Universität Freiburg, Freiburg,GermanyYUKIO SUGIURA • Faculty of Pharmaceutical Sciences, Doshisha Women'sUniversity, Koudo, Kyotanabe, Japan
Page 1 and 2: METHODS IN MOLECULAR BIOLOGY 352Pr
Page 4 and 5: M E T H O D S I N M O L E C U L A R
Page 6 and 7: PrefaceProtein engineering is a fas
Page 8 and 9: ContentsPreface ...................
Page 12: Contributors xiKAZUNARI TAIRA • D
Page 16 and 17: 1Combinatorial Protein Design Strat
Page 18 and 19: Combinatorial Protein Design Strate
Page 36 and 37: 2Global Incorporation of Unnatural
Page 38 and 39: Incorporation of Unnatural Amino Ac
Page 48 and 49: 3Considerations in the Design and O
Page 50 and 51: Design of Coiled Coil Structures 37
Page 60 and 61:
Design of Coiled Coil Structures 47
Page 62 and 63:
Page 64 and 65:
Page 66 and 67:
Page 68 and 69:
Page 70 and 71:
Page 72 and 73:
Page 74 and 75:
Page 76 and 77:
Page 78 and 79:
Page 80 and 81:
Page 82 and 83:
Page 84 and 85:
4Calcium Indicators Based on Calmod
Page 86 and 87:
Protein-Based Ca 2+ Indicators 73Fi
Page 88 and 89:
Protein-Based Ca 2+ Indicators 7512
Page 90 and 91:
Page 92 and 93:
Page 94 and 95:
Protein-Based Ca 2+ Indicators 8145
Page 96 and 97:
5Design and Synthesis of Artificial
Page 98 and 99:
Design of Zinc Finger Proteins 853.
Page 100 and 101:
Page 102 and 103:
Design of Zinc Finger Proteins 89pr
Page 104 and 105:
Design of Zinc Finger Proteins 91Fi
Page 106:
Page 109 and 110:
96 Koide and Koidewhile retaining t
Page 111 and 112:
98 Koide and Koide5. M9-tryptone: M
Page 113 and 114:
100 Koide and Koidetarget-binding s
Page 115 and 116:
102 Koide and Koide4. Discard the s
Page 117 and 118:
104 Koide and Koideup to 1 mM for h
Page 119 and 120:
106 Koide and Koideplate. Incubate
Page 121 and 122:
108 Koide and Koide1. Perform steps
Page 124 and 125:
7Engineering Site-Specific Endonucl
Page 126 and 127:
Engineering Site-Specific Endonucle
Page 128 and 129:
115Fig. 1. Mapping group-specific r
Page 130 and 131:
Page 132 and 133:
Page 134 and 135:
Page 136:
Page 140 and 141:
8Protein Library Design and Screeni
Page 142 and 143:
Protein Library Design and Screenin
Page 144 and 145:
Page 146 and 147:
Page 148 and 149:
135Fig. 2. Excel worksheet describi
Page 150 and 151:
137Fig. 4. Excel worksheet describi
Page 152 and 153:
Page 154 and 155:
Page 156 and 157:
Page 158 and 159:
Page 160 and 161:
Page 162 and 163:
Page 164 and 165:
Page 166 and 167:
Page 168 and 169:
9Protein Design by Binary Patternin
Page 170 and 171:
Protein Design by Binary Patterning
Page 172 and 173:
Page 174 and 175:
Page 176 and 177:
Page 178 and 179:
Page 180 and 181:
10Versatile DNA Fragmentation and D
Page 182 and 183:
NExT DNA Shuffling 169This chapter
Page 184 and 185:
NExT DNA Shuffling 1713. Methods3.1
Page 186 and 187:
NExT DNA Shuffling 17372°C, 4 min.
Page 188 and 189:
NExT DNA Shuffling 175Fig. 2. Varia
Page 190 and 191:
NExT DNA Shuffling 1773.5.1. Direct
Page 192 and 193:
NExT DNA Shuffling 179Fig. 3. Reass
Page 194 and 195:
181
Page 196 and 197:
NExT DNA Shuffling 183likelihood of
Page 198 and 199:
NExT DNA Shuffling 1853.9.2. Calibr
Page 200 and 201:
NExT DNA Shuffling 187staining. Bec
Page 202 and 203:
NExT DNA Shuffling 1894. Zhao, H.,
Page 204 and 205:
11Degenerate Oligonucleotide Gene S
Page 206 and 207:
Degenerate Oligonucleotide Gene Shu
Page 208 and 209:
Page 210 and 211:
Page 212 and 213:
Page 214 and 215:
Page 216 and 217:
Page 218 and 219:
12M13 Bacteriophage Coat Proteins E
Page 220 and 221:
Engineered M13 Bacteriophage Coat P
Page 222 and 223:
Page 224 and 225:
Page 226 and 227:
Page 228 and 229:
Page 230 and 231:
Page 232:
Page 235 and 236:
222 Fujita et al.The methods that h
Page 237 and 238:
224 Fujita et al.3. Streptavidin an
Page 239 and 240:
226 Fujita et al.Fig. 2. (Continued
Page 241 and 242:
228 Fujita et al.Fig. 3. (Continued
Page 243 and 244:
230 Fujita et al.Fig. 3. (A) Schema
Page 245 and 246:
232 Fujita et al.1. Add 2 µg mRNA
Page 247 and 248:
234 Fujita et al.Innovative Bioscie
Page 249 and 250:
236 Fujita et al.30. Kim, Y., Mlsa,
Page 251 and 252:
238 Ghadessy and Holligeraffinity m
Page 253 and 254:
240 Ghadessy and HolligerFig. 1. (A
Page 255 and 256:
242 Ghadessy and HolligerFinally, t
Page 257 and 258:
244 Ghadessy and Holliger2. Prepare
Page 259 and 260:
246 Ghadessy and Holliger2. After 6
Page 261 and 262:
248 Ghadessy and Holliger21. Oberho
Page 263 and 264:
250 Campbell-Valois and Michnickscr
Page 265 and 266:
252 Campbell-Valois and Michnickfol
Page 267 and 268:
254 Campbell-Valois and Michnick7.
Page 269 and 270:
256 Campbell-Valois and MichnickFig
Page 271 and 272:
258 Campbell-Valois and Michnickres
Page 273 and 274:
260Fig. 3. BL21 pREP4 cells were co
Page 275 and 276:
262 Campbell-Valois and MichnickFig
Page 277 and 278:
264 Campbell-Valois and Michnickvar
Page 279 and 280:
Page 281 and 282:
Page 283 and 284:
Page 285 and 286:
Page 287 and 288:
Page 289 and 290:
276 Hecky et al.improved half-life
Page 291 and 292:
278 Hecky et al.Fig. 1. (A) Scheme
Page 293 and 294:
280 Hecky et al.11. Reverse primer
Page 295 and 296:
282 Hecky et al.high variability in
Page 297 and 298:
284 Hecky et al.coding sequence for
Page 299 and 300:
286 Hecky et al.4. Analyze the resu
Page 301 and 302:
Table 1Amino Acid Substitutions Sel
Page 303 and 304:
290 Hecky et al.Fig. 4. Structure o
Page 305 and 306:
292 Hecky et al.Fig. 5. Expression
Page 307 and 308:
294 Hecky et al.Table 2Kinetic Para
Page 309 and 310:
296 Hecky et al.The thermoactivity
Page 311 and 312:
298 Hecky et al.Fig. 8. Unfolding o
Page 313 and 314:
300 Hecky et al.for the first trans
Page 315 and 316:
302 Hecky et al.7. Thompson, M. J.
Page 317 and 318:
304 Hecky et al.40. Wang, X., Minas
Page 319 and 320:
306 IndexCCalcium indicators, see C
Page 321 and 322:
308 Indexchemiocompetent cellprepar
Page 323 and 324:
310 Indexmaterials, 169, 170mutatio
Page 325:
312 IndexTerminal truncation, see a
show all

Protein Engineering Protocols - Mycobacteriology research center

Create successful ePaper yourself

Delete template?

Save as template?