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Publications

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Konca, Y. U.; Kirshenbaum, K.; Zuckermann, R. N. (2014) Nanometer-scale siRNA carriers incorporating peptidomimetic oligomers: Physical characterization and biological activity. Int. J. Nanomedicine. In press.

Levine, P. M.; Craven, T. W.; Bonneau, R.; Kirshenbaum, K. (2014) Semisynthesis of Peptoid–Protein Hybrids by Chemical Ligation at Serine. Org. Lett. 16: 512–515.

Drew, K.; Renfrew, P. D.; Craven, T. W.; Butterfoss, G. L.; Chou, F.; Lyskov, S.; Bullock, B. N.; Watkins, A.; Labonte, J. W.; Pacella, M.; Kilambi, K. P.; Leaver-Fay, A.; Kuhlman, B.; Gray, J. J.; Bradley, P.; Kirshenbaum, K.; Arora, P.S.; Das, R.; Bonneau R. (2013) Adding diverse noncanonical backbones to rosetta: enabling peptidomimetic design. PloS One. e67051.

Levine, P. M.; Craven, T. W.; Bonneau, R.; Kirshenbaum, K. (2013) Chemoselective Fragment Condensation Between Peptide and Peptidomimetic Oligomers. Org. Biomol. Chem. 11: 4142-4146. PDF DOI:10.1039/C3OB40606G

Huang, M. L.; Benson, M. A.; Shin, S. Y.; Torres, V. J.; Kirshenbaum, K. (2013) Amphiphilic Cyclic Peptoids That Exhibit Antimicrobial Activity by Disrupting Staphylococcus aureus Membranes. EurJOC. In Press. PDF DOI:10.1002/ejoc.201300077

Vollrath, S. B. L.; Hu, C.; Brase, S.; Kirshenbaum, K. (2013) Peptoid Nanotubes: An Oligomer Macrocycle that Reversibly Sequesters Water Via Single-Crystal-to-Single-Crystal Transformations. Chem. Commun. 49: 2317-2319. HTML/PDF DOI: 10.1039/C3CC37163H

Levine, P. M.; Carberry, T.; Holub, J. M.; Kirshenbaum, K. (2013) Crafting Precise Multivalent Architectures. Med. Chem. Commun. 4: 493-509. HTML/PDF DOI: 10.1039/C2MD20338C

Huang, M.; Ehre, D.; Jiang, Q.; Hu, C.; Kirshenbaum, K.; Ward. M. (2012) Biomimetic Peptoid Oligomers as Dual-Action Antifreeze Agents. PNAS 109, 49: 19922-19927. HTML/PDF

Hom, N.; Mehta, K.; Chou, T.; Foraker, A.; Brodsky, F.; Kirshenbaum, K.; Montclare, J. (2012) Anisotropic Nanocrystal Arrays Organized on Protein Lattices Formed by Recombinant Clathrin Fragments. J. Mater. Chem. 22: 23335-23339. HTML/PDF DOI: 10.1039/C2JM35019J

Butterfoss, G. L.; Yoo, B.; Jaworski, J. N.; Chorny, I.; Dill, K. A.; Zuckermann, R.; Bonneau, R.; Kirshenbaum, K.; Voelz, V. A. (2012) De novo Structure Prediction and Experimental Characterization of Folded Peptoid Oligomers. Proc. Natl. Acad. Sci. USA. 109(36): 14320-14325. HTML/PDF

Levine, P. M.; Lee, E.; Greenfield, A.; Bonneau, R.; Logan, S. K.; Garabedian, M. J.; Kirshenbaum, K. (2012) Androgen Receptor Antagonism by Divalent Ethisterone Conjugates in Castrate-Resistant Prostate Cancer Cells. ACS Chem. Biol. 7: 1693-1701. HTML/PDF

Vollrath, S. B. L.; Brase, S.; Kirshenbaum, K. (2012) Twice Tied Tight: Enforcing Conformational Order in Bicyclic Peptoid Oligomers. Chemical Science 3: 2726-2731. HTML/PDF

Levine, P. M.; Imberg. K; Garabedian, M. J.; Kirshenbaum, K. (2012) Multivalent Peptidomimetic Conjugates: A Versatile Platform For Modulating Androgen Receptor Activity.  J. Am. Chem. Soc. 134: 6912-6915. HTML/PDF

Paul, B.; Butterfoss, G. L.; Boswell, M. G.; Huang, M. L.; Bonneau, R.; Wolf, C.; Kirshenbaum, K. (2012) N-Naphthyl Peptoid Foldamers Exhibiting Atropisomerism. Org Lett 14: 926-929. HTML/PDF

Huang, M. L.; Shin, S. B. Y.; Benson, M. A.; Torres, V. J.; Kirshenbaum, K. (2012) A Comparison of Linear and Cyclic Peptoid Oligomers as Potent Antimicrobial Agents. ChemMedChem 7: 114-122. HTML/PDF

Jordan, P. A.; Paul, B.; Butterfoss, G. L.; Renfrew, P. D.; Bonneau, R.; Kirshenbaum, K. (2011) Oligo(N-alkoxy glycines): Trans Substantiating Peptoid Conformations. Biopolymers (Pept. Sci.) 96: 617-626. HTML/PDF

Paul, B.; Butterfoss, G. L.; Boswell, M. G.; Renfrew, P. D.; Yeung, F. G.; Shah, N. H.; Wolf, C.; Bonneau, R.; Kirshenbaum, K. (2011) Peptoid Atropisomers. J. Am. Chem. Soc. 133: 10910-10919. HTML/ PDF

Pohl, N. L. B.; Kirshenbaum, K.; Yoo, B.; Schulz, N.; Zea, C. J.; Streff, J. M.; Schwarz, K. L. (2011) Student-Driven Design of Peptide Mimetics: Microwave-Assisted Synthesis of Peptoid Oligomers. J. Chem. Ed. 88: 999-1001. HTML/ PDF

Holub, J. M.; Garabedian, M. J.; Kirshenbaum, K. (2011) Modulation of Human Estrogen Receptor α Activity by Multivalent Estradiol-Peptidomimetic Conjugates. Mol. BioSyst. 7: 337-345. link

Yoo, B.; Shin, S. B. Y.; Huang, M. L.; Kirshenbaum, K. (2010) Peptoid Macrocycles: Making the Rounds with Peptidomimetic Oligomers. Chem. Eur. J. 16: 5528-5537. HTML/ PDF

Holub, J. M.; Kirshenbaum, K. (2010) Tricks with Clicks: Modification of Peptidomimetic Oligomers via Copper-catalyzed Azide-alkyne [3+2] Cycloaddition. Chem. Soc. Rev. 39: 1325-1337. HTML/ PDF

Utku, Y.; Rohatgi, A.; Yoo, B.; Zuckermann, R.; Pohl, N.; Kirshenbaum, K. (2010) Rapid Multistep Synthesis of a Bioactive Peptidomimetic Oliogomer for the Undergraduate Lab. J. Chem. Ed. 87: 637-639. HTML/ PDF

Butterfoss, G. L.; Renfrew, P. D.; Kuhlman, B.; Kirshenbaum, K.; Bonneau, R. (2009) A Preliminary Survey of the Peptoid Folding Landscape. J. Am. Chem. Soc. 131: 16798- 16807. HTML/ PDF

Maayan, G. Ward, M.; Kirshenbaum, K. (2009) Folded Biomimetic Oligomers for Enantioselective Catalysis. Proc. Natl. Acad. Sci. USA 106: 13679-13684. PDF

Jagasia, R.; Holub, J. M.; Bollinger, M.; Kirshenbaum, K.; Finn, M.G. (2009) Peptide Cyclization and Cyclodimerization by CuI-Mediated Azide-Alkyne Cycloaddition. J. Org. Chem. 74: 2964-2974. HTML/ PDF

Maayan, G.; Ward, M.; Kirshenbaum, K. (2009) Metallopeptoids. Chem. Commun. 56-58. HTML / PDF

Yoo, B.; Kirshenbaum, K. (2008). Peptoid Architectures: Elaboration, Actuation, and Application. Curr. Opin. Chem. Biol. 12: 714-721. HTML / PDF

Shah, N. H.; Butterfoss, G. L.; Nguyen, K.; Yoo, B.; Bonneau, R.; Rabenstein, D. L.; Kirshenbaum, K. (2008). Oligo(N-aryl glycines): A New Twist on Structured Peptoids. J. Am. Chem. Soc. 130: 166222-16632. HTML / PDF

Shah, N.H.; Kirshenbaum, K. (2008). Direct Generation of Polymer Films on Copper Surfaces Through Azide-Alkyne Cycloaddition Reactions Between Peptidomimetic Oligomers. Macromol. Rapid Commun. 29: 1134-1139. HTML / PDF

Shah, N.H.; Kirshenbaum, K. (2008). Photoresponsive Peptoid Oligomers Bearing Azobenzene Side Chains. Org. Biomol. Chem. 6: 2516-2521. HTML / PDF

Maayan, G.; Yoo, B.; Kirshenbaum, K. (2008). Heterocyclic Amines for the Construction of Peptoid Oligomers Bearing Multi-Dentate Ligands. Tet. Lett. 49: 335-338. HTML / PDF

Shin, S.-B.Y.; Kirshenbaum, K. (2007). Conformational Rearrangements by Water-Soluble Peptoid Foldamers. Org. Lett. 9: 5003-5006. HTML / PDF

Holub, J. M., Garabedian, M.J., Kirshenbaum, K. (2007). Peptoids on Steroids: Precise Multivalent Estradiol-Peptidomimetic Conjugates Generated via Azide-Alkyne [3+2] Cycloaddition Reactions. QSAR & Comb. Sci. 26: 1175-1180. PDF

Holub, J.M., Jang, H., Kirshenbaum, K. (2007). Fit To Be Tied: Conformation-Directed Macrocyclization of Peptoid Foldamers. Org. Lett. 9: 3275-3278. HTML / PDF

Shin, S.-B.Y., Yoo, B., Todaro, L., Kirshenbaum, K. (2007). Cyclic Peptoids. J. Am. Chem. Soc. 129: 3218-3225. HTML / PDF

Fafarman, A.T., Borbat, P.P., Freed, J.H., Kirshenbaum, K. (2007). Characterizing the structure and dynamics of folded oligomers: Pulsed ESR studies of peptoid helices. Chem. Commun. 2: 377-379. HTML / PDF

Utku, Y., Dehan, E., Ouerfelli, O., Piano, F., Zuckermann, R.N., Pagano, M., Kirshenbaum, K. (2006). A peptidomimetic siRNA transfection reagent for highly effective gene silencing. Mol. BioSystems. 2: 312-317. HTML / PDF

Spencer, T., Yoo, B., Kirshenbaum, K. (2006). Purification and modification of fullerene C60 in the undergraduate laboratory. J. Chem. Ed. 83: 1218-1220. PDF

Anderson, E.A., Isaacman, S., Peabody, D.S., Wang, E.Y., Canary, J.W., Kirshenbaum, K. (2006). Viral nanoparticles donning a paramagnetic coat: conjugation of MRI contrast agents to the MS2 capsid. NanoLetters. 6: 1160-1164. HTML / PDF

Holub, J.M., Jang, H., Kirshenbaum, K. (2006). Clickity-click: Highly functionalized peptoid oligomers generated by sequential conjugation reactions on solid-phase support. Org. Biomol. Chem. 4: 1497-1502. HTML / PDF

Huang, K., Wu, C.W., Sanborn, T.J., Patch, J.A., Kirshenbaum, K., Zuckermann, R.N., Barron, A.E., Radhakrishnan, I. (2006). A threaded loop conformation adopted by a family of peptoid nonamers. J. Am. Chem. Soc. 128: 1733-1738. HTML / PDF

Yoo, B., Kirshenbaum, K. (2005). Protease-mediated ligation of abiotic oligomers. J. Am. Chem. Soc. 127: 17132-17133. HTML / PDF

Jang, H.J., Fafarman, A., Holub, J.M., Kirshenbaum, K. (2005). Click to fit: Versatile polyvalent display on a peptidomimetic scaffold. Org. Let. 7: 1951-1954. HTML / PDF

Book Chapters

Johnson, A. ; Kirshenbaum, K.; McBride, A. E. "Designing a Sustainable and Stretchable 'Fox Testicle' Ice Cream", invited chapter in The Kitchen as Laboratory; Vega, C.; Ubbink, J; van der Linden, E.; Columbia University Press, New York, 2012.

Patch, J.A., Kirshenbaum, K., Seurynck, S.L., Zuckermann, R.N., Barron, A.E. ôVersatile Oligo(N-substituted) Glycines: The Many Roles of Peptoids in Drug Discoveryö, invited chapter in Pseudo-peptides in Drug Development; Nielsen, P.E., Ed.; Wiley-VCH, Weinheim, Germany, 2004.

News and Views

Carrico, I. S.; Kirshenbaum, K. (2009) Nanoparticles: Designer Labels for Virus Coats. (News and Views) Nature Nanotech. 4:14-15. HTML/ PDF

Kirshenbaum, K. and Arora, P. S. (2008) Cross-dressing Proteins by Olefin Metathesis. (News and Views) Nat. Chem. Biol. 4:527-528. HTML/ PDF

Arora, P.S., Kirshenbaum, K. (2004). Nano-tailoring: Stitching alterations on viral coats. Chem. Biol. 11: 418-420. HTML / PDF

Publications Prior to NYU

Wu, C.W., Kirshenbaum, K., Sanborn, T.J., Patch, J.A., Huang, K., Dill, K.A., Zuckermann, R.N., Barron, A.E. (2003). Structural and spectroscopic studies of peptoid oligomers with a-chiral aliphatic side chains. J. Am. Chem. Soc. 125: 13525-13530. HTML / PDF

Kwon, I., Kirshenbaum, K., Tirrell, D.A. (2003). Breaking the degeneracy of the genetic code. J. Am. Chem. Soc. 125: 7512-7513. HTML / PDF

Kirshenbaum, K., Carrico, I.S., Tirrell, D.A. (2002). Biosynthesis of proteins incorporating a versatile set of phenylalanine analogs. ChemBioChem 3: 235-237. HTML / PDF

Kirshenbaum, K., Zuckermann, R.N., Dill, K.A. (1999). Designing polymers that mimic biomolecules. Curr. Opin. Struc. Biol. 9: 530-535. PDF

Kirshenbaum, K., Young, M., Highsmith, S. (1999). Predicting allosteric switches in myosins. Protein Sci. 8: 1806-1815. PDF

Young, M., Kirshenbaum, K., Dill, K.A., Highsmith, S. (1999). Predicting conformational switches in proteins. Protein Sci. 8: 1752-1764. PDF

Armand, P., Kirshenbaum, K., Goldsmith, R.A., Farr-Jones, S., Barron, A.E., Truong, K.T.V., Dill, K.A., Mierke, D.F., Cohen, F.E., Zuckermann, R.N., Bradley, E.K.. (1998). NMR determination of the major solution conformation of a peptoid pentamer with chiral side chains. Proc. Natl. Acad. Sci. USA 95: 4309-4314. HTML / PDF

Kirshenbaum, K., Barron, A.E., Goldsmith, R.A., Armand, P., Bradley, E.K., Truong, K.T.V., Dill, K.A., Cohen, F.E., Zuckermann, R.N. (1998). Sequence-specific polypeptoids: A diverse family of heteropolymers with stable secondary structure. Proc. Natl. Acad. Sci. USA 95: 4303-4308. HTML / PDF

Armand, P., Kirshenbaum, K., Falicov, A., Dunbrack, R.L., Dill, K.A., Zuckermann, R.N., Cohen, F.E. (1997). Chiral N-substituted glycines can form stable helical conformations. Folding & Design 2: 369-375. HTML / PDF

Kirshenbaum, K., Daggett, V. (1995). Sequence effects on conformational properties of the Amyloid b(1-28) Peptide: Testing a proposed mechanism for the aÓb transition. Biochemistry 34: 7640-7647. PDF

Kirshenbaum, K., Daggett, V. (1995). pH-Dependent conformations of the amyloid b(1-28) peptide fragment explored using molecular dynamics. Biochemistry 34: 7629-7639. PDF

Kirshenbaum, K., Papp, S., Highsmith, S. (1993). Cross-linking myosin subfragment 1 Cys-697 and Cys-707 modifies ATP and actin binding site interactions. Biophys. J. 65: 1121-1129. HTML (Abstract Only)