Research Output

2018

The Need for Manuscripts to Include Database Identifiers for Proteins

Gerlt, J. A., Jul 24 2018, In : Biochemistry. 57, 29, p. 4239-4240 2 p.

Research output: Contribution to journalEditorial

The SERM/SERD bazedoxifene disrupts ESR1 helix 12 to overcome acquired hormone resistance in breast cancer cells

Fanning, S. W., Jeselsohn, R., Dharmarajan, V., Mayne, C. G., Karimi, M., Buchwalter, G., Houtman, R., Toy, W., Fowler, C. E., Han, R., Lainé, M., Carlson, K. E., Martin, T. A., Nowak, J., Nwachukwu, J. C., Hosfield, D. J., Chandarlapaty, S., Tajkhorshid, E., Nettles, K. W., Griffin, P. R. & 4 others, Shen, Y., Katzenellenbogen, J. A., Brown, M. & Greene, G. L., Nov 1 2018, In : eLife. 7, e37161.

Research output: Contribution to journalArticle

Towards the generalized iterative synthesis of small molecules

Lehmann, J. W., Blair, D. J. & Burke, M. D., Jan 1 2018, In : Nature Reviews Chemistry. 2, 2, 0115.

Research output: Contribution to journalReview article

Type 2 NADH dehydrogenase is the only point of entry for electrons into the Streptococcus agalactiae respiratory chain and is a potential drug target

Lencina, A. M., Franza, T., Sullivan, M. J., Ulett, G. C., Ipe, D. S., Gaudu, P., Gennis, R. B. & Schurig-Briccio, L. A., Jul 1 2018, In : mBio. 9, 4, e01034-18.

Research output: Contribution to journalArticle

Open Access

Unpaired Electron Spin Density Distribution across Reduced [2Fe-2S] Cluster Ligands by 13Cβ-Cysteine Labeling

Taguchi, A. T., Miyajima-Nakano, Y., Fukazawa, R., Lin, M. T., Baldansuren, A., Gennis, R. B., Hasegawa, K., Kumasaka, T., Dikanov, S. & Iwasaki, T., Jan 16 2018, In : Inorganic Chemistry. 57, 2, p. 741-746 6 p.

Research output: Contribution to journalArticle

X-ray transparent microfluidic platforms for membrane protein crystallization with microseeds

Schieferstein, J. M., Pawate, A. S., Varel, M. J., Guha, S., Astrauskaite, I., Gennis, R. B. & Kenis, P. J. A., Mar 21 2018, In : Lab on a chip. 18, 6, p. 944-954 11 p.

Research output: Contribution to journalArticle

‘Democratized’ genomic enzymology web tools for functional assignment

Zallot, R., Oberg, N. O. & Gerlt, J. A., Dec 2018, In : Current Opinion in Chemical Biology. 47, p. 77-85 9 p.

Research output: Contribution to journalReview article

2017

A bioreducible N-oxide-based probe for photoacoustic imaging of hypoxia

Knox, H. J., Hedhli, J., Kim, T. W., Khalili, K., Dobrucki, L. W. & Chan, J., Dec 1 2017, In : Nature communications. 8, 1, 1794.

Research output: Contribution to journalArticle

Activation and Desensitization Mechanism of AMPA Receptor-TARP Complex by Cryo-EM

Chen, S., Zhao, Y., Wang, Y., Shekhar, M., Tajkhorshid, E. & Gouaux, E., Sep 7 2017, In : Cell. 170, 6, p. 1234-1246.e14

Research output: Contribution to journalArticle

Alteration of blood clotting and lung damage by protamine are avoided using the heparin and polyphosphate inhibitor UHRA

Kalathottukaren, M. T., Abraham, L., Kapopara, P. R., Lai, B. F. L., Shenoi, R. A., Rosell, F. I., Conway, E. M., Pryzdial, E. L. G., Morrissey, J. H., Haynes, C. A. & Kizhakkedathu, J. N., Mar 9 2017, In : Blood. 129, 10, p. 1368-1379 12 p.

Research output: Contribution to journalArticle

Alzheimer’s toxic amyloid beta oligomers: Unwelcome visitors to the Na/K ATPase alpha3 docking station

di Chiara, T., DiNunno, N., Clark, J., Bu, R. L., Cline, E. N., Rollins, M. G., Gong, Y., Brody, D. L., Sligar, S. G., Velasco, P. T., Viola, K. L. & Klein, W. L., Mar 2017, In : Yale Journal of Biology and Medicine. 90, 1, p. 45-61 17 p.

Research output: Contribution to journalArticle

A membrane-embedded pathway delivers general anesthetics to two interacting binding sites in the Gloeobacter violaceus ion channel

Arcario, M. J., Mayne, C. G. & Tajkhorshid, E., Jun 9 2017, In : Journal of Biological Chemistry. 292, 23, p. 9480-9492 13 p.

Research output: Contribution to journalArticle

A Novel IMP1 Inhibitor, BTYNB, Targets c-Myc and Inhibits Melanoma and Ovarian Cancer Cell Proliferation

Mahapatra, L., Andruska, N., Mao, C., Le, J. & Shapiro, D. J., Oct 2017, In : Translational Oncology. 10, 5, p. 818-827 10 p.

Research output: Contribution to journalArticle

Anti-inflammatory ω-3 endocannabinoid epoxides

McDougle, D. R., Watson, J. E., Abdeen, A. A., Adili, R., Caputo, M. P., Krapf, J. E., Johnson, R. W., Kilian, K. A., Holinstat, M. & Das, A., Jul 25 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 30, p. E6034-E6043

Research output: Contribution to journalArticle

Applications of Optobiology in Intact Cells and Multicellular Organisms

Khamo, J. S., Krishnamurthy, V. V., Sharum, S. R., Mondal, P. & Zhang, K., Oct 13 2017, In : Journal of Molecular Biology. 429, 20, p. 2999-3017 19 p.

Research output: Contribution to journalReview article

Arachidonic Acid Metabolism by Human Cardiovascular CYP2J2 Is Modulated by Doxorubicin

Arnold, W. R., Baylon, J. L., Tajkhorshid, E. & Das, A., Dec 26 2017, In : Biochemistry. 56, 51, p. 6700-6712 13 p.

Research output: Contribution to journalArticle

Brd4 modulates the innate immune response through Mnk2-eIF4E pathway-dependent translational control of IκBα

Bao, Y., Wu, X., Chen, J., Hu, X., Zeng, F., Cheng, J., Jin, H., Lin, X. & Chen, L. F., May 16 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 20, p. E3993-E4001

Research output: Contribution to journalArticle

Bright Dyes Bring Biology into Focus

Yadav, A. K. & Chan, J., Sep 27 2017, In : ACS Central Science. 3, 9, p. 920-921 2 p.

Research output: Contribution to journalShort survey

Bromodomain and extraterminal proteins - A novel class of therapeutic targets in epigenetics

Chen, J. J., Zhao, X. L., Wang, Z. & Chen, L. F., Jan 1 2017, In : Yaoxue Xuebao. 52, 8, p. 1209-1215 7 p.

Research output: Contribution to journalReview article

Chapter 7: Computational Characterization of Molecular Mechanisms of Membrane Transporter Function

Trebesch, N., Vermaas, J. V. & Tajkhorshid, E., Jan 1 2017, Computational Biophysics of Membrane Proteins. Hirst, J. & Domene, C. (eds.). 10 ed. Royal Society of Chemistry, p. 197-236 40 p. (RSC Theoretical and Computational Chemistry Series; vol. 2017-January, no. 10).

Research output: Chapter in Book/Report/Conference proceedingChapter

Characterization of the macrocyclase involved in the biosynthesis of RiPP cyclic peptides in plants

Chekan, J. R., Estrada, P., Covello, P. S. & Nair, S. K., Jun 20 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 25, p. 6551-6556 6 p.

Research output: Contribution to journalArticle

Characterization of Two Late-Stage Enzymes Involved in Fosfomycin Biosynthesis in Pseudomonads

Olivares, P., Ulrich, E. C., Chekan, J. R., Van Der Donk, W. A. & Nair, S. K., Feb 17 2017, In : ACS chemical biology. 12, 2, p. 456-463 8 p.

Research output: Contribution to journalArticle

Chasing the open-state structure of pentameric ligand-gated ion channels

Gonzalez-Gutierrez, G., Wang, Y., Cymes, G. D., Tajkhorshid, E. & Grosman, C., Dec 1 2017, In : Journal of General Physiology. 149, 12, p. 1119-1138 20 p.

Research output: Contribution to journalArticle

Chimeric Leader Peptides for the Generation of Non-Natural Hybrid RiPP Products

Burkhart, B. J., Kakkar, N., Hudson, G. A., Van Der Donk, W. A. & Mitchell, D. A., Jun 28 2017, In : ACS Central Science. 3, 6, p. 629-638 10 p.

Research output: Contribution to journalArticle

Comparative proteomic investigation of metastatic and non-metastatic osteosarcoma cells of human and canine origin

Roy, J., Wycislo, K. L., Pondenis, H., Fan, T. M. & Das, A., Sep 2017, In : PloS one. 12, 9, e0183930.

Research output: Contribution to journalArticle

Conformational equilibria of light-activated rhodopsin in nanodiscs

Van Eps, N., Caro, L. N., Morizumi, T., Kusnetzow, A. K., Szczepek, M., Hofmann, K. P., Bayburt, T. H., Sligar, S. G., Ernst, O. P. & Hubbell, W. L., Apr 18 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 16, p. E3268-E3275

Research output: Contribution to journalArticle

Control of leucine-dependent mTORC1 pathway through chemical intervention of leucyl-tRNA synthetase and RagD interaction

Kim, J. H., Lee, C., Lee, M., Wang, H., Kim, K., Park, S. J., Yoon, I., Jang, J., Zhao, H., Kim, H. K., Kwon, N. H., Jeong, S. J., Yoo, H. C., Kim, J. H., Yang, J. S., Lee, M. Y., Lee, C. W., Yun, J., Oh, S. J., Kang, J. S. & 6 others, Martinis, S. A., Hwang, K. Y., Guo, M., Han, G., Han, J. M. & Kim, S., Dec 1 2017, In : Nature communications. 8, 1, 732.

Research output: Contribution to journalArticle

Coupling X-Ray Reflectivity and in Silico Binding to Yield Dynamics of Membrane Recognition by Tim1

Tietjen, G. T., Baylon, J. L., Kerr, D., Gong, Z., Henderson, J. M., Heffern, C. T. R., Meron, M., Lin, B., Schlossman, M. L., Adams, E. J., Tajkhorshid, E. & Lee, K. Y. C., Oct 3 2017, In : Biophysical journal. 113, 7, p. 1505-1519 15 p.

Research output: Contribution to journalArticle

Critical Role of Water Molecules in Proton Translocation by the Membrane-Bound Transhydrogenase

Padayatti, P. S., Leung, J. H., Mahinthichaichan, P., Tajkhorshid, E., Ishchenko, A., Cherezov, V., Soltis, S. M., Jackson, J. B., Stout, C. D., Gennis, R. B. & Zhang, Q., Jul 5 2017, In : Structure. 25, 7, p. 1111-1119.e3

Research output: Contribution to journalArticle

Cytochrome P450 diversification and hostplant utilization patterns in specialist and generalist moths: Birth, death and adaptation

Calla, B., Noble, K., Johnson, R. M., Walden, K. K. O., Schuler, M. A., Robertson, H. M. & Berenbaum, M. R., Nov 2017, In : Molecular ecology. 26, 21, p. 6021-6035 15 p.

Research output: Contribution to journalArticle

Deleting the DAG kinase Dgk1 augments yeast vacuole fusion through increased Ypt7 activity and altered membrane fluidity

Miner, G. E., Starr, M. L., Hurst, L. R. & Fratti, R. A., May 1 2017, In : Traffic. 18, 5, p. 315-329 15 p.

Research output: Contribution to journalArticle

Differential membrane binding mechanics of synaptotagmin isoforms observed in atomic detail

Vermaas, J. V. & Tajkhorshid, E., Jan 1 2017, In : Biochemistry. 56, 1, p. 281-293 13 p.

Research output: Contribution to journalArticle

Differential Roles for the Coagulation Factors XI and XII in Regulating the Physical Biology of Fibrin

Sylman, J. L., Daalkhaijav, U., Zhang, Y., Gray, E. M., Farhang, P. A., Chu, T. T., Zilberman-Rudenko, J., Puy, C., Tucker, E. I., Smith, S. A., Morrissey, J. H., Walker, T. W., Nan, X. L., Gruber, A. & McCarty, O. J. T., May 1 2017, In : Annals of Biomedical Engineering. 45, 5, p. 1328-1340 13 p.

Research output: Contribution to journalArticle

Dimeric structure of the uracil:proton symporter UraA provides mechanistic insights into the SLC4/23/26 transporters

Yu, X., Yang, G., Yan, C., Baylon, J. L., Jiang, J., Fan, H., Lu, G., Hasegawa, K., Okumura, H., Wang, T., Tajkhorshid, E., Li, S. & Yan, N., Aug 1 2017, In : Cell Research. 27, 8, p. 1020-1033 14 p.

Research output: Contribution to journalArticle

Disproportionate impact of named reactions on chemical biology

Bearrood, T. E. & Chan, J., Jan 1 2017, In : Aldrichimica Acta. 50, 2, p. 31-41 11 p.

Research output: Contribution to journalReview article

DNA Aptamer-Based Activatable Probes for Photoacoustic Imaging in Living Mice

Zhang, J., Smaga, L. P., Satyavolu, N. S. R., Chan, J. & Lu, Y., Dec 6 2017, In : Journal of the American Chemical Society. 139, 48, p. 17225-17228 4 p.

Research output: Contribution to journalArticle

Drive the car(go)s—new modalities to control cargo trafficking in live cells

Mondal, P., Khamo, J. S., Krishnamurthy, V. V., Cai, Q. & Zhang, K., Jan 20 2017, In : Frontiers in Molecular Neuroscience. 10, 4.

Research output: Contribution to journalReview article

Dynamics of the KB Proton Pathway in Cytochrome ba3 from Thermus thermophilus

von Ballmoos, C., Smirnova, I., Poiana, F., Gonska, N., Chang, H. Y., Gennis, R. B., Brzezinski, P. & Ädelroth, P., May 1 2017, In : Israel Journal of Chemistry. 57, 5, p. 424-436 13 p.

Research output: Contribution to journalArticle

Energy transduction and alternating access of the mammalian ABC transporter P-glycoprotein

Verhalen, B., Dastvan, R., Thangapandian, S., Peskova, Y., Koteiche, H. A., Nakamoto, R. K., Tajkhorshid, E. & McHaourab, H. S., Mar 30 2017, In : Nature. 543, 7647, p. 738-741 4 p.

Research output: Contribution to journalArticle

Enzymatic N- and C-Protection in Cyanobactin RiPP Natural Products

Sardar, D., Hao, Y., Lin, Z., Morita, M., Nair, S. K. & Schmidt, E. W., Mar 1 2017, In : Journal of the American Chemical Society. 139, 8, p. 2884-2887 4 p.

Research output: Contribution to journalArticle

Evolutionary radiation of lanthipeptides in marine cyanobacteria

Cubillos-Ruiz, A., Berta-Thompson, J. W., Becker, J. W., Van Der Donk, W. A. & Chisholm, S. W., Jul 3 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 27, p. E5424-E5433

Research output: Contribution to journalArticle

Expression and activity of the BioH esterase of biotin synthesis is independent of genome context

Cao, X., Zhu, L., Hu, Z. & Cronan, J. E., Dec 1 2017, In : Scientific reports. 7, 1, 2141.

Research output: Contribution to journalArticle

Extension of the Highly Mobile Membrane Mimetic to Transmembrane Systems through Customized in Silico Solvents

Vermaas, J. V., Pogorelov, T. V. & Tajkhorshid, E., Apr 20 2017, In : Journal of Physical Chemistry B. 121, 15, p. 3764-3776 13 p.

Research output: Contribution to journalArticle

Generation of higher affinity T cell receptors by antigen-driven differentiation of progenitor t cells in vitro

Schmitt, T. M., Aggen, D. H., Ishida-Tsubota, K., Ochsenreither, S., Kranz, D. M. & Greenberg, P. D., Jan 1 2017, In : Nature Biotechnology. 35, 12, p. 1188-1195 8 p.

Research output: Contribution to journalArticle

Go it alone: four-electron oxidations by mononuclear non-heme iron enzymes

Peck, S. C. & van der Donk, W. A., Apr 1 2017, In : Journal of Biological Inorganic Chemistry. 22, 2-3, p. 381-394 14 p.

Research output: Contribution to journalReview article

Heme Binding Biguanides Target Cytochrome P450-Dependent Cancer Cell Mitochondria

Guo, Z., Sevrioukova, I. F., Denisov, I. G., Zhang, X., Chiu, T. L., Thomas, D. G., Hanse, E. A., Cuellar, R. A. D., Grinkova, Y. V., Langenfeld, V. W., Swedien, D. S., Stamschror, J. D., Alvarez, J., Luna, F., Galván, A., Bae, Y. K., Wulfkuhle, J. D., Gallagher, R. I., Petricoin, E. F., Norris, B. & 17 others, Flory, C. M., Schumacher, R. J., O'Sullivan, M. G., Cao, Q., Chu, H., Lipscomb, J. D., Atkins, W. M., Gupta, K., Kelekar, A., Blair, I. A., Capdevila, J. H., Falck, J. R., Sligar, S. G., Poulos, T. L., Georg, G. I., Ambrose, E. & Potter, D. A., Oct 19 2017, In : Cell chemical biology. 24, 10, p. 1259-1275.e6

Research output: Contribution to journalArticle