* indicates joint first authorship
(56) Firnberg, E. and M. Ostermeier. (2013) "The genetic code constrains yet facilitates Darwinian evolution." Nucleic Acids Res. (accepted)
(55) Choi, J. H., A. San, and M. Ostermeier. (2013) "Non-allosteric enzyme switches possess larger effector-induced changes in thermodynamic stability than their non-switch analogs." Protein Sci., 22, 475-485. [PubMed]
(54) Kanwar, M., R. C. Wright, A. Date, J. Tullman, and M. Ostermeier. (2013) "Protein switch engineering by domain insertion." Methods Enzymol., 523, 369-388. [PubMed]
(53) Firnberg, E. and M. Ostermeier. (2012) "PFunkel: efficient, expansive, user-defined mutagenesis." PLoS One 7(12): e52031. [PubMed] [PDF] [CCM oligo design MATLAB script]
(52) Chaikind, B., K. P. Kilambi, J. J. Gray, and M. Ostermeier. (2012) "Targeted DNA methylation using an artificially bisected M.HhaI fused to zinc fingers." PLoS One 7(9): e44852. [PubMed] [PDF]
(51) Ke, W., A. H. Laurent, M. D. Armstrong, Y. Chen, W. E. Smith, J. Liang, C. M. Wright, M. Ostermeier, and F. van den Akker. (2012) "Structure of an engineered β-lactamase maltose binding protein fusion protein: insights into heterotropic allosteric regulation" PLoS One, 7(6): e39168. [PubMed] [PDF]
(50) Guntas, G., M. Kanwar, and M. Ostermeier. (2012) "Circular permutation in the Ω-loop of TEM1 β-lactamase results in improved activity and altered substrate specificity." PLoS One 7(4): e35998. [PubMed] [PDF]
(49) Cheung*, L. S.-L., M. Kanwar*, M. Ostermeier, and K. Konstantopoulos. (2012) "A hot-spot motif characterizes the interface between a designed ankyrin-repeat protein and its target ligand." Biophys. J. 102, 407-416. [PubMed] [PDF]
(48) Heins*, R. A., J. H. Choi*, T. Sohka, and M. Ostermeier. (2011) "In vitro recombination of non-homologous genes can result in gene fusions that confer a switching phenotype to cells." PLoS One 6(11): e27302. [PubMed] [PDF]
(47) Wright, C. M., R. C. Wright, J. R. Eshleman, and M. Ostermeier. (2011) "A protein therapeutic modality founded on molecular regulation." Proc. Nat. Acad. Sci. USA 108, 16206-16211. [PubMed] [PDF]
(46) Zayats, M., M. Kanwar, M. Ostermeier, and P. C. Searson. (2011) "Molecular Imprinting of maltose binding protein: tuning protein recognition at the molecular level." Macromolecules 44, 3966-3972. [PDF]
(45) Tullman, J., G. Guntas, M. Dumont, and M. Ostermeier. (2011) "Protein switches identified from diverse insertion libraries created using S1 nuclease digestion of supercoiled-form plasmid DNA." Biotechnol. Bioeng. 108, 2535-2543. [PubMed] [PDF]
(44) Zayats, M., M. Kanwar, M. Ostermeier, and P. C. Searson. (2011) "Surface-tethered protein switches." Chem. Commun. 47, 3398-3400. [PubMed] [PDF]
(43) Hida, K., S. Y. Won, G. Di Pasquale, J. Hanes, J. A. Chiorini, and M. Ostermeier. (2010) "Sites in the AAV5 capsid tolerant to deletions and tandem duplications." Arch. Biochem. Biophys. 496, 1-8. [PubMed] [PDF]
(42) Meister, G. E., S. Chandrasegaran, and M. Ostermeier. (2010) "Heterodimeric DNA methyltransferases as a platform for creating designer zinc finger methyltransferases for targeted DNA methylation in cells." Nucleic Acids Res. 38, 1749-1759. [PubMed] [PDF]
(41) Wright, C. M., A. Majumdar, J. R. Tolman, and M. Ostermeier. (2010) "NMR characterization of an engineered domain fusion between maltose binding protein and TEM1 β-lactamase provides insight into its structure and allosteric mechanism." Proteins 78, 1423-1430. [PubMed] [PDF]
(40) Sohka, T., R. A. Heins, and M. Ostermeier. (2009) "Morphogen-defined patterning of Escherichia coli enabled by an externally tunable band-pass filter." J. Biol. Eng. 3, 10. [PubMed] [PDF]
(39) Kim, C., B. Pierre, M. Ostermeier, L. L. Looger, and J. R. Kim. (2009) "Enzyme stabilization by domain insertion into a thermophilic protein." Protein Eng. Des. Sel. 22, 615-623. [PubMed] [PDF]
(38) Ostermeier, M. (2009) "Designing switchable enzymes." Curr. Opin. Struct. Biol. 19, 442-448. [PubMed] [PDF]
(37) Sohka*, T., R. A. Heins*, R. M. Phelan, J. M. Greisler, C. A. Townsend and M. Ostermeier. (2009) "An externally-tunable bacterial band-pass filter." Proc. Nat. Acad. Sci. USA 106, 10135-10140. [PubMed] [PDF]
(36) Phelan, R. M., M. Ostermeier, and C. A. Townsend. (2009) "Design and synthesis of a β-lactamase activated 5-fluorouracil prodrug." Bioorg. Med. Chem. Let. 19, 1261-1263. [PubMed] [PDF]
(35) Meister, G. E., M. Kanwar, M. Ostermeier. (2009) "Circular permutation of proteins." In: S. Lutz and U. Bornscheuer (eds) Protein Engineering Handbook, Wiley.
(34) Meister, G. E., S. Chandrasegaran, and M. Ostermeier. (2008) "An engineered split M.HhaI-zinc finger fusion lacks the intended methyltransferase specificity." Biochem. Biophys. Res. Commun. 377, 226-230. [PubMed] [PDF]
(33) Berrondo, M., M. Ostermeier and J. J. Gray. (2008) "Structure prediction of domain insertion proteins from structures of the individual domains." Structure 16, 513-527. [PubMed] [PDF]
(32) Hida, K., J. Hanes, M. Ostermeier. (2007) "Directed evolution for drug and nucleic acid delivery" Adv. Drug Deliv. Rev. 59, 1562-1578. [PubMed] [PDF]
(31) Wright, C. M., R. A. Heins and M. Ostermeier. (2007) "As easy as flipping a switch?" Curr. Opin. Chem. Biol. 11, 342-346. [PubMed] [PDF]
(30) Liang, J., J. R. Kim, J. T. Boock, T. J. Mansell and M. Ostermeier. (2007) "Ligand binding and allostery can emerge simultaneously." Protein Sci. 16, 929-937. [PubMed] [PDF] [Faculty of 1000]
(29) Ostermeier, M. (2007) "Beyond cataloging the Library of Babel" Chem. Biol. 14, 237-238. [PubMed] [PDF]
(28) Durai*, S., A. D. Bosley*, A. B. Abulencia, S. Chandrasegaran and M. Ostermeier. (2006) "A bacterial one-hybrid selection system for interrogating zinc finger-DNA interactions." Combinatorial Chemistry and High Throughput Screening 9, 301-311. [PubMed] [PDF]
(27) Kim, J. R. and M. Ostermeier. (2006) "Modulation of effector affinity by hinge region mutations also modulates switching activity in an engineered allosteric TEM1 β-lactamase." Arch. Biochem. Biophys. 446, 44-51. [PubMed] [PDF]
(26) Paschon, D., Z. S. Patel and M. Ostermeier. (2005) "Enhanced catalytic efficiency of aminoglycoside phosphotransferase (3')-IIa achieved through protein fragmentation and reassembly." J. Mol. Biol. 353, 26-37. [PubMed] [PDF]
(25) Ostermeier, M. (2005) "Engineering allosteric protein switches by domain insertion." Protein Eng. Des. Sel. 18, 359-364. [PubMed] [PDF] [Faculty of 1000]
(24) Guntas, G., T. J. Mansell, J. R. Kim, and M. Ostermeier. (2005) "Directed evolution of protein switches and their application to the creation of ligand-binding proteins." Proc. Nat. Acad. Sci. USA 102, 11224-11229. [PubMed] [PDF] [Faculty of 1000]
(23) Choe, W., S. Chandrasegaran and M. Ostermeier. (2005) "Protein fragment complementation in M.HhaI DNA methyltransferase." Biochem. Biophys. Res. Commun. 334, 1233-1240. [PubMed] [PDF]
(22) Bosley, A. D. and M. Ostermeier. (2005) "Mathematical expressions useful in the construction, description and evaluation of protein libraries." Biomol. Eng. 22, 57-61. [PubMed] [PDF]
(21) Guntas, G., S. F. Mitchell and M. Ostermeier. (2004) "A molecular switch created by in vitro recombination of non-homologous genes." Chem. Biol. 11, 1483-1487. [PubMed] [PDF] [Faculty of 1000] Featured in a commentary in Chem. Biol. 11, 1475-1476, (2004) [commentary]
(20) Paschon, D.E. and M. Ostermeier. (2004) "Construction of protein fragment complementation libraries using incremental truncation." Methods Enzymol. 388, 103-116. [PubMed] [PDF]
(19) Guntas, G. and M. Ostermeier. (2004) "Creation of an allosteric enzyme by domain insertion." J. Mol. Biol. 336, 263-273. [PubMed] [PDF]
(18) Ostermeier, M. (2003) "Synthetic gene libraries: in search of the optimal diversity." Trends Biotechnol. 21, 244-247. [PubMed] [PDF]
(17) Ostermeier, M. (2003) "Theoretical distribution of truncation lengths in incremental truncation libraries." Biotechnol. Bioeng. 82, 564-577. [PubMed] [PDF]
(16) Ostermeier, M. and S. Lutz (2003) "The creation of ITCHY hybrid protein libraries." Methods Mol. Biol. 231, 129-142. [PubMed] [PDF]
(15) Lutz, S. and M. Ostermeier (2003) "Preparation of SCRATCHY hybrid protein libraries: size- and in-frame selection of nucleic acid sequences." Methods Mol. Biol. 231, 143-152. [PubMed] [PDF]
Other papers by Marc Ostermeier
(14) Ostermeier, M., S. Lutz and S. J. Benkovic. (2002) "Generation of protein fragment libraries by incremental truncation." In: Golemis, E.A. (ed) Protein-Protein Interactions: A Molecular Cloning Manual, Cold Spring Harbor Laboratory Press (Cold Spring Harbor, NY).
(13) Lutz, S., M. Ostermeier, G. L. Moore, C. D. Maranas, and S. J. Benkovic. (2001) "Creating multiple-crossover DNA libraries independent of sequence identity." Proc. Nat. Acad. Sci. USA 98, 11248-11253. [PubMed] [PDF]
(12) Lutz, S., M. Ostermeier, and S. J. Benkovic (2001) "Rapid generation of incremental truncation libraries for protein engineering using alpha-phosphothioate nucleotides." Nucleic Acids Res. 29, e16. [PubMed] [PDF]
(11) Ostermeier, M. and S. J. Benkovic. (2001) "Construction of hybrid gene libraries involving the circular permutation of DNA." Biotechnology Letters 23, 303-310. [PDF]
(10) Ostermeier, M. and S. J. Benkovic. (2000) "Evolution of protein function by domain swapping" Advances in Protein Chemistry 55, 29-77. [PubMed] [PDF]
(9) Ostermeier, M. and S. J. Benkovic. (2000) "A two-phagemid system for the creation of non-phage displayed antibody libraries approaching one trillion members." J. Immunol. Methods 237, 175-186. [PubMed] [PDF]
(8) Ostermeier, M., J. H. Shim, and S. J. Benkovic. (1999) "A combinatorial approach to hybrid enzymes independent of DNA homology." Nature Biotechnol. 17, 1205-1209. [PubMed] [PDF]
(7) Ostermeier, M., A. E. Nixon, and S. J. Benkovic. (1999) "Incremental truncation as a strategy in the engineering of novel catalysts." Bioorg. Med. Chem. 7, 2139-2144. [PubMed] [PDF]
(6) Ostermeier, M. and S. J. Benkovic. (1999) "Finding Cinderella's slipper - proteins that fit." Nature Biotechnol. 17, 639-640. [PubMed] [PDF]
(5) Ostermeier, M., A. E. Nixon, J. H. Shim, and S. J. Benkovic. (1999) "Combinatorial protein engineering by incremental truncation." Proc. Nat. Acad. Sci. USA 96, 3562-3567. [PubMed] [PDF]
(4) Nixon, A. E., M. Ostermeier, and S. J. Benkovic. (1998) "Hybrid enzymes: manipulating enzyme design." Trends Biotechnol. 16, 258-264. [PubMed] [PDF]
(3) Ostermeier, M., K. De Sutter, and G. Georgiou. (1996) "Eukaryotic protein disulfide isomerase complements Escherichia coli dsbA mutants and increases the yield of a heterologously secreted protein with disulfide bonds." J. Biol. Chem. 271, 10616-10622. [PubMed] [PDF]
(2) Georgiou, G., P. Valax, M. Ostermeier, M., and P. M. Horowitz (1994) "Folding and aggregation of TEM β-lactamase: analogies with the formation of inclusion bodies in Escherichia coli." Prot. Sci. 3, 1953-1960. [PubMed] [PDF]
(1) Ostermeier, M. and G. Georgiou. (1994) "The folding of bovine pancreatic trypsin inhibitor in the Escherichia coli periplasm." J. Biol. Chem. 269, 21072-21077. [PubMed] [PDF]