339
Viktor Stein (ed.), Synthetic Protein Switches: Methods and Protocols, Methods in Molecular Biology, vol. 1596,
DOI 10.1007/978-1-4939-6940-1, © Springer Science+Business Media LLC 2017
A
Actuator �� 3, 4, 6, 8–11, 13, 14, 198
Affinity clamp �� 14, 200, 204
Allosteric derepression ��167–176
Allosteric Protein Switches��28–40
Allosteric regulation ��151
Alternative frame folding ��6
Amyloid fibrils��59–66
Ancestral Gene Resurrection (AGR) ��9
Antibody-like scaffolds
fibronectin ��14
Fn3 ��28
Antibody scaffolds
V H �� 150, 155–156, 160
V L �� 150, 155, 156, 160
B
Beta-lactamase ��31
Beta-lactamase inhibitory protein (BLIP) �� 169, 171,
172, 174–176, 180, 182, 185–187, 189–193
Beta-lactamase sensor �� 149, 167, 179
Binding receptors ��4, 6, 9, 14, 198–200
Bioluminescent enzyme assays ��137
Bioluminescent sensors �� 101, 119, 131
Biomarker detection ��149
Biophysics ��4, 6–10, 14, 72, 200
Biosensors
amino acids �� 185, 221
antibodies �� 151, 171, 180
cell surface �� 103, 110–111, 219
cellular �� 219, 221
DNA�� 103, 179–193
drugs �� 101, 181, 220
in vitro �� 110, 179
peptides �� 107, 151
phosphorylation �� 131, 220
protein-protein interactions ��219–236
proteins ��28, 72, 101, 105, 171, 186
C
Cell biology �� 17, 104
Cell-free expression
rabbit reticulocyte lysate �� 311, 313–314
Chemical denaturation curves
in GdnHCl ��33
in urea ��33
Chemical inducers of dimerization
abscisic acid �� 309, 311–313
gibberellic acid �� 309, 311–313
rapamycin �� 309, 311–313
Clampbody ��150–162
Computational modelling ��89–99
D
Design-build-test ��5, 16
Design-build-test and learn ��5
Diagnostic assays ��119
Directed evolution �� 43–54, 245, 322
DNA cloning
in-fusion �� 12, 153, 170
overlap extension �� 95, 156
restriction ligation ��11
TOPO �� 153, 156
USER Enzyme �� 12, 202, 206
DNA mutagenesis
error prone PCR �� 245, 275, 279,
323, 325–329
gap repair �� 280, 281
site-directed ��81, 122, 128, 134, 274
DNA nuclease digest
DNase 1 ��44, 45, 47, 51, 54
S1, 44, 45, 54
DNA recombination
homology-dependent��10, 11
ligation-dependent �� 5, 11–12
modular �� 10, 12, 180
nuclease-dependent ��11
Domain shuffling �� 324–326, 329–333
Dose response curves �� 161, 231, 235
Drug screening �� 119, 169
E
Enzyme substrate channeling ��119
Escherichia coli
DNA cloning ��202
electroporation ��74, 80
protein expression �� 17, 172, 202
Index

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