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1

Ravikumar, Yuvaraj, Saravanan Prabhu Nadarajan, Tae Hyeon Yoo, Chong-soon Lee, and Hyungdon Yun. "Unnatural amino acid mutagenesis-based enzyme engineering." Trends in Biotechnology 33, no. 8 (2015): 462–70. http://dx.doi.org/10.1016/j.tibtech.2015.05.002.

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2

Wang, Feng, Wei Niu, Jiantao Guo, and Peter G. Schultz. "Unnatural Amino Acid Mutagenesis of Fluorescent Proteins." Angewandte Chemie International Edition 51, no. 40 (2012): 10132–35. http://dx.doi.org/10.1002/anie.201204668.

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3

Wang, Feng, Wei Niu, Jiantao Guo, and Peter G. Schultz. "Unnatural Amino Acid Mutagenesis of Fluorescent Proteins." Angewandte Chemie 124, no. 40 (2012): 10279–82. http://dx.doi.org/10.1002/ange.201204668.

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4

Chin, Jason W., and Peter G. Schultz. "In Vivo Photocrosslinking with Unnatural Amino Acid Mutagenesis." ChemBioChem 3, no. 11 (2002): 1135–37. http://dx.doi.org/10.1002/1439-7633(20021104)3:11<1135::aid-cbic1135>3.0.co;2-m.

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5

Wang, Lei, Jianming Xie, Ashok A. Deniz, and Peter G. Schultz. "Unnatural Amino Acid Mutagenesis of Green Fluorescent Protein." Journal of Organic Chemistry 68, no. 1 (2003): 174–76. http://dx.doi.org/10.1021/jo026570u.

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6

Beene, Darren L., Dennis A. Dougherty, and Henry A. Lester. "Unnatural amino acid mutagenesis in mapping ion channel function." Current Opinion in Neurobiology 13, no. 3 (2003): 264–70. http://dx.doi.org/10.1016/s0959-4388(03)00068-0.

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7

Daggett, Kelly A., Mark Layer, and T. Ashton Cropp. "A General Method for Scanning Unnatural Amino Acid Mutagenesis." ACS Chemical Biology 4, no. 2 (2009): 109–13. http://dx.doi.org/10.1021/cb800271f.

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8

Anthony-Cahill, Spencer J., Michael C. Griffith, Christopher J. Noren, Daniel J. Suich, and Peter G. Schultz. "Site-specific mutagenesis with unnatural amino acids." Trends in Biochemical Sciences 14, no. 10 (1989): 400–403. http://dx.doi.org/10.1016/0968-0004(89)90287-9.

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9

Mendel, David, Jonathan A. Ellman, and Peter G. Schultz. "Construction of a light-activated protein by unnatural amino acid mutagenesis." Journal of the American Chemical Society 113, no. 7 (1991): 2758–60. http://dx.doi.org/10.1021/ja00007a063.

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10

Rust, Heather L., Venkataraman Subramanian, Graham M. West, Douglas D. Young, Peter G. Schultz, and Paul R. Thompson. "Using Unnatural Amino Acid Mutagenesis To Probe the Regulation of PRMT1." ACS Chemical Biology 9, no. 3 (2014): 649–55. http://dx.doi.org/10.1021/cb400859z.

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11

Young, Travis S., Insha Ahmad, Jun A. Yin, and Peter G. Schultz. "An Enhanced System for Unnatural Amino Acid Mutagenesis in E. coli." Journal of Molecular Biology 395, no. 2 (2010): 361–74. http://dx.doi.org/10.1016/j.jmb.2009.10.030.

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12

Ye, Shixin, Caroline Köhrer, Thomas Huber, et al. "Site-specific Incorporation of Keto Amino Acids into Functional G Protein-coupled Receptors Using Unnatural Amino Acid Mutagenesis." Journal of Biological Chemistry 283, no. 3 (2007): 1525–33. http://dx.doi.org/10.1074/jbc.m707355200.

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G protein-coupled receptors (GPCRs) are ubiquitous heptahelical transmembrane proteins involved in a wide variety of signaling pathways. The work described here on application of unnatural amino acid mutagenesis to two GPCRs, the chemokine receptor CCR5 (a major co-receptor for the human immunodeficiency virus) and rhodopsin (the visual photoreceptor), adds a new dimension to studies of GPCRs. We incorporated the unnatural amino acids p-acetyl-l-phenylalanine (Acp) and p-benzoyl-l-phenylalanine (Bzp) into CCR5 at high efficiency in mammalian cells to produce functional receptors harboring reac
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13

Chatterjee, A., H. Xiao, M. Bollong, H. W. Ai, and P. G. Schultz. "Efficient viral delivery system for unnatural amino acid mutagenesis in mammalian cells." Proceedings of the National Academy of Sciences 110, no. 29 (2013): 11803–8. http://dx.doi.org/10.1073/pnas.1309584110.

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14

Valiyaveetil, Francis, Alexander Komarov, and Prasanna Devaraneni. "Testing Models for the Slow Inactivated State using Unnatural Amino Acid Mutagenesis." Biophysical Journal 102, no. 3 (2012): 530a. http://dx.doi.org/10.1016/j.bpj.2011.11.2895.

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15

Wang, Yanxin J., D. Miklos Szantai-Kis, and E. James Petersson. "Semi-synthesis of thioamide containing proteins." Organic & Biomolecular Chemistry 13, no. 18 (2015): 5074–81. http://dx.doi.org/10.1039/c5ob00224a.

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To make thioamide protein folding experiments applicable to full-sized proteins, our laboratory has used a combination of native chemical ligation of thiopeptide fragments, unnatural amino acid mutagenesis to install fluorophore partners in expressed protein fragments, and chemoenzymatic protein modification to render these expressed protein ligations traceless.
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16

Baril, Stefanie A., Amber L. Koenig, Mackenzie W. Krone, et al. "Investigation of Trimethyllysine Binding by the HP1 Chromodomain via Unnatural Amino Acid Mutagenesis." Journal of the American Chemical Society 139, no. 48 (2017): 17253–56. http://dx.doi.org/10.1021/jacs.7b09223.

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17

England, Pamela M. "Unnatural Amino Acid Mutagenesis: A Precise Tool for Probing Protein Structure and Function†." Biochemistry 43, no. 37 (2004): 11623–29. http://dx.doi.org/10.1021/bi048862q.

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18

Chatterjee, Abhishek, Han Xiao, Peng-Yu Yang, Gautam Soundararajan, and Peter G. Schultz. "A Tryptophanyl-tRNA Synthetase/tRNA Pair for Unnatural Amino Acid Mutagenesis inE. coli." Angewandte Chemie International Edition 52, no. 19 (2013): 5106–9. http://dx.doi.org/10.1002/anie.201301094.

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19

Chatterjee, Abhishek, Han Xiao, Peng-Yu Yang, Gautam Soundararajan, and Peter G. Schultz. "A Tryptophanyl-tRNA Synthetase/tRNA Pair for Unnatural Amino Acid Mutagenesis inE. coli." Angewandte Chemie 125, no. 19 (2013): 5210–13. http://dx.doi.org/10.1002/ange.201301094.

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20

Poulsen, Mette H., Anahita Poshtiban, Viktoria Klippenstein, Valentina Ghisi, and Andrew J. R. Plested. "Gating modules of the AMPA receptor pore domain revealed by unnatural amino acid mutagenesis." Proceedings of the National Academy of Sciences 116, no. 27 (2019): 13358–67. http://dx.doi.org/10.1073/pnas.1818845116.

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Ionotropic glutamate receptors (iGluRs) are responsible for fast synaptic transmission throughout the vertebrate nervous system. Conformational changes of the transmembrane domain (TMD) underlying ion channel activation and desensitization remain poorly understood. Here, we explored the dynamics of the TMD of α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA)-type iGluRs using genetically encoded unnatural amino acid (UAA) photocross-linkers, p-benzoyl-l-phenylalanine (BzF) and p-azido-l-phenylalanine (AzF). We introduced these UAAs at sites throughout the TMD of the GluA2 receptor an
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21

Chatterjee, Abhishek, Sophie B. Sun, Jennifer L. Furman, Han Xiao, and Peter G. Schultz. "A Versatile Platform for Single- and Multiple-Unnatural Amino Acid Mutagenesis in Escherichia coli." Biochemistry 52, no. 10 (2013): 1828–37. http://dx.doi.org/10.1021/bi4000244.

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22

Baker, Austin S., and Alexander Deiters. "Optical Control of Protein Function through Unnatural Amino Acid Mutagenesis and Other Optogenetic Approaches." ACS Chemical Biology 9, no. 7 (2014): 1398–407. http://dx.doi.org/10.1021/cb500176x.

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23

Kolev, Joshua N., Jacqueline M. Zaengle, Rajesh Ravikumar, and Rudi Fasan. "Enhancing the Efficiency and Regioselectivity of P450 Oxidation Catalysts by Unnatural Amino Acid Mutagenesis." ChemBioChem 15, no. 7 (2014): 1001–10. http://dx.doi.org/10.1002/cbic.201400060.

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24

Taupitz, Kim F., Wolfgang Dörner, and Henning D. Mootz. "Covalent Capturing of Transient SUMO-SIM Interactions Using Unnatural Amino Acid Mutagenesis and Photocrosslinking." Chemistry - A European Journal 23, no. 25 (2017): 5978–82. http://dx.doi.org/10.1002/chem.201605619.

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25

Kimata, Y., H. Shimada, T. Hirose, and Y. Ishimura. "Role of THR-252 in Cytochrome P450CAM: A Study with Unnatural Amino Acid Mutagenesis." Biochemical and Biophysical Research Communications 208, no. 1 (1995): 96–102. http://dx.doi.org/10.1006/bbrc.1995.1310.

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26

Barrett, J. E., C. M. Lucero, and P. G. Schultz. "A Model for Hydride Transfer in Thymidylate Synthase Based on Unnatural Amino Acid Mutagenesis." Journal of the American Chemical Society 121, no. 34 (1999): 7965–66. http://dx.doi.org/10.1021/ja991040+.

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27

Rudack, Till, Christian Teuber, Marvin Scherlo, et al. "The Ras dimer structure." Chemical Science 12, no. 23 (2021): 8178–89. http://dx.doi.org/10.1039/d1sc00957e.

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By combining the incorporation of unnatural amino acids, click chemistry, FRET and EPR distance measurements, protein modeling and biomolecular simulations, we obtained an unambiguous Ras dimer structural model and disrupt the dimer by mutagenesis.
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28

Duffy, Noah H., Henry A. Lester, and Dennis A. Dougherty. "Ondansetron and Granisetron Binding Orientation in the 5-HT3Receptor Determined by Unnatural Amino Acid Mutagenesis." ACS Chemical Biology 7, no. 10 (2012): 1738–45. http://dx.doi.org/10.1021/cb300246j.

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29

Pavic, Karolina, Pablo Rios, Kristina Dzeyk, Christine Koehler, Edward A. Lemke, and Maja Köhn. "Unnatural Amino Acid Mutagenesis Reveals Dimerization As a Negative Regulatory Mechanism of VHR’s Phosphatase Activity." ACS Chemical Biology 9, no. 7 (2014): 1451–59. http://dx.doi.org/10.1021/cb500240n.

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30

Kolev, Joshua N., Jacqueline M. Zaengle, Rajesh Ravikumar, and Rudi Fasan. "Corrigendum: Enhancing the Efficiency and Regioselectivity of P450 Oxidation Catalysts by Unnatural Amino Acid Mutagenesis." ChemBioChem 15, no. 7 (2014): 913. http://dx.doi.org/10.1002/cbic.201400081.

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31

Arnam, Ethan B. Van, Kristina N. McCleary, Fan Liu, et al. "Investigation of Dopamine Receptor Structure and Function by Structure Prediction and Unnatural Amino Acid Mutagenesis." Biophysical Journal 102, no. 3 (2012): 247a. http://dx.doi.org/10.1016/j.bpj.2011.11.1361.

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32

Han, Sang-Woo, Eul-Soo Park, Joo-Young Dong та Jong-Shik Shin. "Active-Site Engineering of ω-Transaminase for Production of Unnatural Amino Acids Carrying a Side Chain Bulkier than an Ethyl Substituent". Applied and Environmental Microbiology 81, № 20 (2015): 6994–7002. http://dx.doi.org/10.1128/aem.01533-15.

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ABSTRACTω-Transaminase (ω-TA) is a promising enzyme for use in the production of unnatural amino acids from keto acids using cheap amino donors such as isopropylamine. The small substrate-binding pocket of most ω-TAs permits entry of substituents no larger than an ethyl group, which presents a significant challenge to the preparation of structurally diverse unnatural amino acids. Here we report on the engineering of an (S)-selective ω-TA fromOchrobactrum anthropi(OATA) to reduce the steric constraint and thereby allow the small pocket to readily accept bulky substituents. On the basis of a doc
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33

Wynn, R., and F. M. Richards. "Unnatural amino acid packing mutants of Escherichia coli thioredoxin produced by combined mutagenesis/chemical modification techniques." Protein Science 2, no. 3 (1993): 395–403. http://dx.doi.org/10.1002/pro.5560020311.

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34

Wright, Tom H., and Benjamin G. Davis. "Post-translational mutagenesis for installation of natural and unnatural amino acid side chains into recombinant proteins." Nature Protocols 12, no. 10 (2017): 2243–50. http://dx.doi.org/10.1038/nprot.2017.087.

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35

Riederer, Erika A., and Francis I. Valiyaveetil. "Investigation of the allosteric coupling mechanism in a glutamate transporter homolog via unnatural amino acid mutagenesis." Proceedings of the National Academy of Sciences 116, no. 32 (2019): 15939–46. http://dx.doi.org/10.1073/pnas.1907852116.

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Glutamate transporters harness the ionic gradients across cell membranes for the concentrative uptake of glutamate. The sodium-coupled Asp symporter, GltPh is an archaeal homolog of glutamate transporters and has been extensively used to understand the transport mechanism. A critical aspect of the transport cycle in GltPh is the coupled binding of sodium and aspartate. Previous studies have suggested a major role for hairpin-2 (HP2), which functions as the extracellular gate for the aspartate binding site, in the coupled binding of sodium and aspartate to GltPh. In this study, we develop a flu
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36

Koh, John T., Virginia W. Cornish, and Peter G. Schultz. "An Experimental Approach to Evaluating the Role of Backbone Interactions in Proteins Using Unnatural Amino Acid Mutagenesis†." Biochemistry 36, no. 38 (1997): 11314–22. http://dx.doi.org/10.1021/bi9707685.

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37

Naganathan, Saranga, Shixin Ye, Terence Duarte, Thomas Huber, Pallavi Sachdev, and Thomas P. Sakmar. "A Novel Method to Probe Membrane Protein Topology Using Unnatural Amino Acid Mutagenesis and Antibody Epitope Tagging." Biophysical Journal 98, no. 3 (2010): 419a. http://dx.doi.org/10.1016/j.bpj.2009.12.2263.

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38

Bentin, Thomas, Ramin Hamzavi, Johan Salomonsson, Hervé Roy, Michael Ibba, and Peter E. Nielsen. "Photoreactive Bicyclic Amino Acids as Substrates for MutantEscherichia coliPhenylalanyl-tRNA Synthetases." Journal of Biological Chemistry 279, no. 19 (2004): 19839–45. http://dx.doi.org/10.1074/jbc.m401278200.

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Unnatural amino acids carrying reactive groups that can be selectively activated under non-invasive biologically benign conditions are of interest in protein engineering as biological tools for the analysis of protein-protein and protein-nucleic acids interactions. The double ring system phenylalanine analogues benzofuranylalanine and benzotriazolylalanine were synthesized, and their photolability was tested by UV irradiation at 254, 320, and 365 nm. Although both showed photo reactivity, benzofuranylalanine appeared as the most promising compound because this amino acid was activated by UVA (
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39

Kraut, Daniel A., Michael J. Churchill, Phillip E. Dawson, and Daniel Herschlag. "Evaluating the Potential for Halogen Bonding in the Oxyanion Hole of Ketosteroid Isomerase Using Unnatural Amino Acid Mutagenesis." ACS Chemical Biology 4, no. 4 (2009): 269–73. http://dx.doi.org/10.1021/cb900016q.

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40

Chatterjee, A., H. Xiao, and P. G. Schultz. "Evolution of multiple, mutually orthogonal prolyl-tRNA synthetase/tRNA pairs for unnatural amino acid mutagenesis in Escherichia coli." Proceedings of the National Academy of Sciences 109, no. 37 (2012): 14841–46. http://dx.doi.org/10.1073/pnas.1212454109.

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41

McMenimen, Kathryn A., E. James Petersson, Henry A. Lester, and Dennis A. Dougherty. "Probing the Mg2+ Blockade Site of an N-Methyl-d-aspartate (NMDA) Receptor with Unnatural Amino Acid Mutagenesis." ACS Chemical Biology 1, no. 4 (2006): 227–34. http://dx.doi.org/10.1021/cb6000944.

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42

Beene, D. L. "Tyrosine Residues That Control Binding and Gating in the 5-Hydroxytryptamine3 Receptor Revealed by Unnatural Amino Acid Mutagenesis." Journal of Neuroscience 24, no. 41 (2004): 9097–104. http://dx.doi.org/10.1523/jneurosci.2429-04.2004.

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43

Santoro, S. W. "An archaebacteria-derived glutamyl-tRNA synthetase and tRNA pair for unnatural amino acid mutagenesis of proteins in Escherichia coli." Nucleic Acids Research 31, no. 23 (2003): 6700–6709. http://dx.doi.org/10.1093/nar/gkg903.

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44

Ye, Shixin, Thomas Huber, and Thomas P. Sakmar. "Unnatural Amino Acid Mutagenesis For Site-specific Incorporation Of Keto And Azido Functionalities Into Functional G Protein-coupled Receptors." Biophysical Journal 96, no. 3 (2009): 632a. http://dx.doi.org/10.1016/j.bpj.2008.12.3343.

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45

Padgett, C. L., A. P. Hanek, H. A. Lester, D. A. Dougherty, and S. C. R. Lummis. "Unnatural Amino Acid Mutagenesis of the GABAA Receptor Binding Site Residues Reveals a Novel Cation- Interaction between GABA and 2Tyr97." Journal of Neuroscience 27, no. 4 (2007): 886–92. http://dx.doi.org/10.1523/jneurosci.4791-06.2007.

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46

Zheng, Yunan, Tommy L. Lewis, Peter Igo, Franck Polleux, and Abhishek Chatterjee. "Virus-Enabled Optimization and Delivery of the Genetic Machinery for Efficient Unnatural Amino Acid Mutagenesis in Mammalian Cells and Tissues." ACS Synthetic Biology 6, no. 1 (2016): 13–18. http://dx.doi.org/10.1021/acssynbio.6b00092.

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47

Wissner, Rebecca F., Solongo Batjargal, Colin M. Fadzen, and E. James Petersson. "Labeling Proteins with Fluorophore/Thioamide Förster Resonant Energy Transfer Pairs by Combining Unnatural Amino Acid Mutagenesis and Native Chemical Ligation." Journal of the American Chemical Society 135, no. 17 (2013): 6529–40. http://dx.doi.org/10.1021/ja4005943.

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48

Thorson, Jon S., Injae Shin, Eli Chapman, Gun Stenberg, Bengt Mannervik, and Peter G. Schultz. "Analysis of the Role of the Active Site Tyrosine in Human Glutathione Transferase A1-1 by Unnatural Amino Acid Mutagenesis." Journal of the American Chemical Society 120, no. 2 (1998): 451–52. http://dx.doi.org/10.1021/ja9731682.

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49

Cieplak, Andrzej Stanisław, and Nur Başak Sürmeli. "Single-Site Mutation and Secondary Structure Stability: An Isodesmic Reaction Approach. The Case of Unnatural Amino Acid Mutagenesis Ala→Lac." Journal of Organic Chemistry 69, no. 10 (2004): 3250–61. http://dx.doi.org/10.1021/jo0358372.

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50

Pless, Stephan A., Michael Yau, Jason D. Galpin, Christopher A. Ahern, and Harley T. Kurata. "Unnatural Amino Acid Mutagenesis Reveals the Critical Role of Hydrogen Bonding for Binding of Retigabine in the Pore of KCNQ Channels." Biophysical Journal 106, no. 2 (2014): 143a. http://dx.doi.org/10.1016/j.bpj.2013.11.828.

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