Research Output 1967 2020

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2017

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

Diacylglycerol Kinase
Membrane Fluidity
Fluidity
Diglycerides
Vacuoles

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

Synaptotagmins
Mechanics
Synaptotagmin I
Protein Isoforms
Membranes

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

Coagulation
Chemical activation
Ellagic acid
Gelation
Tissue

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

Symporters
Uracil
Protons
Micelles
Detergents
Honey
Bees
Quercetin
Triazoles
Phytochemicals

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

Nucleotide Aptamers
Photoacoustic effect
Thrombin
DNA
probe

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

Protons
Oxidoreductases
Proton transfer
Pumps
Proton Pumps

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

ATP-Binding Cassette Transporters
P-Glycoprotein
Adenosine Triphosphate
Hydrolysis
Nucleotides

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

Biological Products
peptide
Peptides
Biosynthesis
Enzymes

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

Cyanobacteria
Ligases
Radiation
Cyclic Peptides
Peptides

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

Esterases
Operon
Biotin
Genome
Hydrolases

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

Computer Simulation
membranes
proteins
Proteins
Membranes

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

T-cells
Antigens
T-Cell Antigen Receptor
Stem Cells
Autoantigens
Genes
Genome
Biological Products
Enzymes
Metabolic Networks and Pathways

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

Biguanides
Cytochrome P-450 CYP3A
Mitochondria
Heme
Cytochrome P-450 Enzyme System

Heterologous expression and characterization of plant Taxadiene-5α-Hydroxylase (CYP725A4) in Escherichia coli

Rouck, J. E., Biggs, B. W., Kambalyal, A., Arnold, W. R., De Mey, M., Ajikumar, P. K. & Das, A., Apr 1 2017, In : Protein Expression and Purification. 132, p. 60-67 8 p.

Research output: Contribution to journalArticle

Mixed Function Oxygenases
Escherichia coli
NADPH-Ferrihemoprotein Reductase
Membranes
Lipid Bilayers

Host and pathogen copper-transporting P-type ATPases function antagonistically during Salmonella infection

Ladomersky, E., Khan, A., Shanbhag, V., Cavet, J. S., Chan, J., Weisman, G. A. & Petris, M. J., Sep 1 2017, In : Infection and immunity. 85, 9, e00351-17.

Research output: Contribution to journalArticle

Salmonella Infections
Copper
Macrophages
Infection
copper-transporting ATPases

Insights into the biosynthesis of duramycin

Huo, L., Ökesli, A., Zhao, M. & van der Donk, W. A., Jan 1 2017, In : Applied and environmental microbiology. 83, 3, e02698-16.

Research output: Contribution to journalArticle

phosphatidylethanolamines
peptide
biosynthesis
aspartic acid
Streptomyces cinnamoneus

Interaction of KRas4b with anionic membranes: A special role for PIP2

Gregory, M. C., McLean, M. A. & Sligar, S. G., May 27 2017, In : Biochemical and Biophysical Research Communications. 487, 2, p. 351-355 5 p.

Research output: Contribution to journalArticle

Unithiol
Membranes
Lipids
Fluorescence Polarization
Monomeric GTP-Binding Proteins

Isolation of bacterial compartments to track movement of protein synthesis factors

Zhao, H. & Martinis, S. A., Jan 15 2017, In : Methods. 113, p. 120-126 7 p.

Research output: Contribution to journalArticle

Amino Acyl-tRNA Synthetases
Transfer RNA
Fractionation
Proteins
Membranes

Light-Mediated reversible modulation of the Mitogen-Activated protein Kinase pathway during cell differentiation and xenopus embryonic development

Krishnamurthy, V. V., Turgeon, A. J., Khamo, J. S., Mondal, P., Sharum, S. R., Mei, W., Yang, J. & Zhang, K., Jun 15 2017, In : Journal of Visualized Experiments. 2017, 124, e55823.

Research output: Contribution to journalArticle

Xenopus
Mitogen-Activated Protein Kinases
Embryonic Development
Cell Differentiation
Phosphotransferases

Lipids and ions traverse the membrane by the same physical pathway in the nhTMEM16 scramblase

Jiang, T., Yu, K., Hartzell, H. C. & Tajkhorshid, E., Sep 16 2017, In : eLife. 6, e28671.

Research output: Contribution to journalArticle

Phospholipids
Ions
Membranes
Lipids
Adenosine Triphosphate

Lipid specificity of the membrane binding domain of coagulation factor X

Muller, M. P., Wang, Y., Morrissey, J. H. & Tajkhorshid, E., Oct 2017, In : Journal of Thrombosis and Haemostasis. 15, 10, p. 2005-2016 12 p.

Research output: Contribution to journalArticle

Factor X
Membrane Lipids
Phosphatidylserines
Membranes
Lipids

Localization of Short-Chain Polyphosphate Enhances its Ability to Clot Flowing Blood Plasma

Yeon, J. H., Mazinani, N., Schlappi, T. S., Chan, K. Y. T., Baylis, J. R., Smith, S. A., Donovan, A. J., Kudela, D., Stucky, G. D., Liu, Y., Morrissey, J. H. & Kastrup, C. J., Feb 10 2017, In : Scientific reports. 7, 42119.

Research output: Contribution to journalArticle

blood
plasma
polyp
polymer
fold

Location of the Substrate Binding Site of the Cytochrome bo3 Ubiquinol Oxidase from Escherichia coli

Choi, S. K., Schurig-Briccio, L., Ding, Z., Hong, S., Sun, C. & Gennis, R. B., Jun 21 2017, In : Journal of the American Chemical Society. 139, 24, p. 8346-8354 9 p.

Research output: Contribution to journalArticle

Binding sites
Cytochromes
Escherichia coli
cytochrome
coenzyme Q10

Mass spectrometry-based cross-linking study shows that the Psb28 protein binds to cytochrome b559 in Photosystem II

Weisz, D. A., Liu, H., Zhang, H., Thangapandian, S., Tajkhorshid, E., Gross, M. L. & Pakrasi, H. B., Feb 28 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 9, p. 2224-2229 6 p.

Research output: Contribution to journalArticle

Photosystem II Protein Complex
Mass Spectrometry
Proteins
cytochrome b559
Isotopes

Maternal dead-end 1 promotes translation of nanos1 by binding the eiF3 complex

Aguero, T., Jin, Z., Chorghade, S., Kalsotra, A., King, M. L. & Yang, J., Oct 15 2017, In : Development (Cambridge). 144, 20, p. 3755-3765 11 p.

Research output: Contribution to journalArticle

germ cell
embryo
Germ Cells
Mothers
Fertilization

Mdm2 mediates FMRP- and Gp1 mGluR-dependent protein translation and neural network activity

Liu, D. C., Seimetz, J., Lee, K. Y., Kalsotra, A., Chung, H. J., Lu, H. & Tsai, N-P., Oct 15 2017, In : Human molecular genetics. 26, 20, p. 3895-3908 14 p.

Research output: Contribution to journalArticle

Fragile X Mental Retardation Protein
Protein Biosynthesis
Fragile X Syndrome
Neuronal Plasticity
Animal Behavior

Mechanism of a Class C Radical S-Adenosyl- l -methionine Thiazole Methyl Transferase

Zhang, Z., Mahanta, N., Hudson, G. A., Mitchell, D. A. & Van Der Donk, W. A., Dec 27 2017, In : Journal of the American Chemical Society. 139, 51, p. 18623-18631 9 p.

Research output: Contribution to journalArticle

Thiazoles
Methyltransferases
Transferases
Methionine
Hydrogen

Mechanistic Understanding of Lanthipeptide Biosynthetic Enzymes

Repka, L. M., Chekan, J. R., Nair, S. K. & Van Der Donk, W. A., Apr 26 2017, In : Chemical reviews. 117, 8, p. 5457-5520 64 p.

Research output: Contribution to journalArticle

Sulfides
Bioactivity
Bacteriocins
Peptides
Cyclization

Microfluidic platform for efficient Nanodisc assembly, membrane protein incorporation, and purification

Wade, J. H., Jones, J. D., Lenov, I. L., Riordan, C. M., Sligar, S. G. & Bailey, R. C., Jan 1 2017, In : Lab on a chip. 17, 17, p. 2951-2959 9 p.

Research output: Contribution to journalArticle

Microfluidics
Purification
Membrane Proteins
Proteins
Membranes

Molecular basis for the substrate specificity of quorum signal synthases

Dong, S. H., Frane, N. D., Christensen, Q. H., Greenberg, E. P., Nagarajan, R. & Nair, S. K., Aug 22 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 34, p. 9092-9097 6 p.

Research output: Contribution to journalArticle

Substrate Specificity
Methionine
Acyl Carrier Protein
Proteobacteria
Lactones

Mov10 suppresses retroelements and regulates neuronal development and function in the developing brain

Skariah, G., Seimetz, J., Norsworthy, M., Lannom, M. C., Kenny, P. J., Elrakhawy, M., Forsthoefel, C., Drnevich, J., Kalsotra, A. & Ceman, S., Jun 29 2017, In : BMC biology. 15, 1, 54.

Research output: Contribution to journalArticle

Moloney murine leukemia virus
Retroelements
retrotransposons
leukemia
Viruses

Myeloid STAT3 promotes lung tumorigenesis by transforming tumor immunosurveillance into tumor-promoting inflammation

Zhou, J., Qu, Z., Sun, F., Han, L., Li, L., Yan, S., Stabile, L. P., Chen, L. F., Siegfried, J. M. & Xiao, G., Mar 2017, In : Cancer Immunology Research. 5, 3, p. 257-268 12 p.

Research output: Contribution to journalArticle

Immunologic Monitoring
Carcinogenesis
Inflammation
Lung
Neoplasms

NitroxylFluor: A Thiol-Based Fluorescent Probe for Live-Cell Imaging of Nitroxyl

Pino, N. W., Davis, J., Yu, Z. & Chan, J. K. F., Dec 27 2017, In : Journal of the American Chemical Society. 139, 51, p. 18476-18479 4 p.

Research output: Contribution to journalArticle

thiol
Fluorescent Dyes
Sulfhydryl Compounds
probe
Imaging techniques

O-H activation by an unexpected ferryl intermediate during catalysis by 2-hydroxyethylphosphonate dioxygenase

Peck, S. C., Wang, C., Dassama, L. M. K., Zhang, B., Guo, Y., Rajakovich, L. J., Martin Bollinger, J., Krebs, C. & Van Der Donk, W. A., Feb 8 2017, In : Journal of the American Chemical Society. 139, 5, p. 2045-2052 8 p.

Research output: Contribution to journalArticle

Dioxygenases
catalysis
Catalysis
glufosinate
Chemical activation
Pimelic Acids
Biotin
Bacillus subtilis
Fatty Acids
Acids

Poly(A) tail length regulates PABPC1 expression to tune translation in the heart

Chorghade, S., Seimetz, J., Emmons, R., Yang, J., Bresson, S. M., de Lisio, M., Parise, G., Conrad, N. K. & Kalsotra, A., Jun 27 2017, In : eLife. 6, e24139.

Research output: Contribution to journalArticle

Poly(A)-Binding Protein I
Messenger RNA
Poly(A)-Binding Proteins
Cardiomegaly
Protein Biosynthesis

Polyphosphate and RNA differentially modulate the contact pathway of blood clotting

Gajsiewicz, J. M., Smith, S. A. & Morrissey, J. H., Feb 3 2017, In : Journal of Biological Chemistry. 292, 5, p. 1808-1814 7 p.

Research output: Contribution to journalArticle

Polyphosphates
Blood Coagulation
Blood
RNA
Chemical activation

Preoperative Metabolic Syndrome Is Predictive of Significant Gastric Cancer Mortality after Gastrectomy: The Fujian Prospective Investigation of Cancer (FIESTA) Study

Hu, D., Peng, F., Lin, X., Chen, G., Zhang, H., Liang, B., Ji, K., Lin, J., Chen, L. F., Zheng, X. & Niu, W., Feb 1 2017, In : EBioMedicine. 15, p. 73-80 8 p.

Research output: Contribution to journalArticle

Gastrectomy
Stomach Neoplasms
Hazards
Mortality
Neoplasms
Azurin
Electron transitions
Amides
Peptides
Electronic structure

Prolyl isomerase PIN1 regulates the stability, transcriptional activity and oncogenic potential of BRD4

Hu, X., Dong, S. H., Chen, J., Zhou, X. Z., Chen, R., Nair, S., Lu, K. P. & Chen, L. F., Sep 7 2017, In : Oncogene. 36, 36, p. 5177-5188 12 p.

Research output: Contribution to journalArticle

Peptidylprolyl Isomerase
Stomach Neoplasms
Neoplasms
Ubiquitination
Threonine

Reconstitution and Substrate Specificity of the Radical S-Adenosyl-methionine Thiazole C-Methyltransferase in Thiomuracin Biosynthesis

Mahanta, N., Zhang, Z., Hudson, G. A., Van Der Donk, W. A. & Mitchell, D. A., Mar 29 2017, In : Journal of the American Chemical Society. 139, 12, p. 4310-4313 4 p.

Research output: Contribution to journalArticle

Thiazoles
methionine S-methyltransferase
Biosynthesis
Methyltransferases
Substrate Specificity

Restored iron transport by a small molecule promotes absorption and hemoglobinization in animals

Grillo, A. S., SantaMaria, A. M., Kafina, M. D., Cioffi, A. G., Huston, N. C., Han, M., Seo, Y. A., Yien, Y. Y., Nardone, C., Menon, A. V., Fan, J., Svoboda, D. C., Anderson, J. B., Hong, J. D., Nicolau, B. G., Subedi, K., Gewirth, A. A., Wessling-Resnick, M., Kim, J., Paw, B. H. & 1 others, Burke, M., May 12 2017, In : Science. 356, 6338, p. 608-616 9 p.

Research output: Contribution to journalArticle

Iron
Zebrafish
Biological Products
Carrier Proteins
Membrane Proteins

Ribosomal Natural Products, Tailored to Fit

Funk, M. A. & Van Der Donk, W. A., Jul 18 2017, In : Accounts of chemical research. 50, 7, p. 1577-1586 10 p.

Research output: Contribution to journalArticle

Biological Products
Bioactivity
Amino Acids
Peptides
Enzymes

Searching for the low affinity ubiquinone binding site in cytochrome bo 3 from Escherichia coli

Choi, S. K., Lin, M. T., Ouyang, H. & Gennis, R. B., May 1 2017, In : Biochimica et Biophysica Acta - Bioenergetics. 1858, 5, p. 366-370 5 p.

Research output: Contribution to journalArticle

Ubiquinone
Cytochromes
Escherichia coli
Binding Sites
Heme

Selective killing of Helicobacter pylori with pH-responsive helix–coil conformation transitionable antimicrobial polypeptides

Xiong, M., Bao, Y., Xu, X., Wang, H., Han, Z., Wang, Z., Liu, Y., Huang, S., Song, Z., Chen, J., Peek, R. M., Yin, L., Chen, L. F. & Cheng, J., Nov 28 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 48, p. 12675-12680 6 p.

Research output: Contribution to journalArticle

Helicobacter pylori
Bacteria
Stomach
Peptides
Glutamic Acid
Neurons
Actins
Depolymerization
Nerve Growth Factor
Microfluidics

Small molecule T63 suppresses osteoporosis by modulating osteoblast differentiation via BMP and WNT signaling pathways

Zhao, X. L., Chen, J. J., Zhang, G. N., Wang, Y. C., Si, S. Y., Chen, L-F. & Wang, Z., Dec 1 2017, In : Scientific Reports. 7, 1, 10397.

Research output: Contribution to journalArticle

Osteoblasts
Osteoporosis
Osteogenesis
Bone and Bones
Catenins

Structural basis for methylphosphonate biosynthesis

Born, D. A., Ulrich, E. C., Ju, K. S., Peck, S. C., Van Der Donk, W. A. & Drennan, C. L., Dec 8 2017, In : Science. 358, 6368, p. 1336-1339 4 p.

Research output: Contribution to journalArticle

Methane
Glutamine
Oceans and Seas
Phosphorus
methylphosphonic acid