Member Publications

Jump to specific year:

81 Member Publications for March 2014

Gel filtration chromatography (size exclusion chromatography) of proteins.
1. Methods Enzymol - published March 29, 2014
2. Duong-Ly KC, Gabelli SB
Coimmunoprecipitation of proteins from yeast.
1. Methods Enzymol - published March 29, 2014
2. Gerace E, Moazed D
Salting out of proteins using ammonium sulfate precipitation.
1. Methods Enzymol - published March 29, 2014
2. Duong-Ly KC, Gabelli SB
Using ion exchange chromatography to purify a recombinantly expressed protein.
1. Methods Enzymol - published March 29, 2014
2. Duong-Ly KC, Gabelli SB
Explanatory chapter: troubleshooting recombinant protein expression: general.
1. Methods Enzymol - published March 29, 2014
2. Duong-Ly KC, Gabelli SB
Explanatory chapter: troubleshooting protein expression: what to do when the protein is not soluble.
1. Methods Enzymol - published March 29, 2014
2. Duong-Ly KC, Gabelli SB
Death by a thousand cuts: the challenges and diverse landscape of lignocellulosic hydrolysate inhibitors.
1. Front Microbiol - published March 28, 2014
2. Piotrowski JS, Zhang Y, Bates DM, Keating DH, Sato TK, Ong IM, Landick R
Expression, purification, and crystallization of HSV-1 glycoproteins for structure determination.
1. Methods Mol Biol - published March 28, 2014
2. Stampfer SD, Heldwein EE
Uric acid induces oxidative stress via an activation of the renin-angiotensin system in 3T3-L1 adipocytes.
1. Endocrine - published March 28, 2014
2. Zhang JX., Zhang YP., Wu QN., Chen B.
Improved targeting of JAK2 leads to increased therapeutic efficacy in myeloproliferative neoplasms.
1. Blood - published March 27, 2014
2. Bhagwat N., Koppikar P., Keller M., Marubayashi S., Shank K., Rampal R., Qi J., Kleppe M., Patel HJ., Shah SK., Taldone T., Bradner JE., Chiosis G., Levine RL.
Size-Focusing Synthesis of Gold Nanoclusters with p-Mercaptobenzoic Acid.
1. J Phys Chem A - published March 27, 2014
2. Tvedte LM, Ackerson CJ
The Marburg virus VP24 protein interacts with Keap1 to activate the cytoprotective antioxidant response pathway.
1. Cell Rep - published March 27, 2014
2. Edwards MR., Johnson B., Mire CE., Xu W., Shabman RS., Speller LN., Leung DW., Geisbert TW., Amarasinghe GK., Basler CF.
The Influence of Declining Air Lead Levels on Blood Lead-Air Lead Slope Factors in Children.
1. Environ Health Perspect - published March 25, 2014
2. Richmond-Bryant J., Meng Q., Davis A., Cohen J., Lu SE., Svendsgaard D., Brown JS., Tuttle L., Hubbard H., Rice J., Kirrane E., Vinikoor-Imler LC., Kotchmar D., Hines EP., Ross M.
Distinct BimBH3 (BimSAHB) Stapled Peptides for Structural and Cellular Studies.
1. ACS Chem Biol - published March 21, 2014
2. GH Bird, E Gavathiotis, JL Labelle, SG Katz, LD Walensky
Protein superglue that holds VWF together.
1. Blood - published March 20, 2014
2. Z Jia
Understanding Molecular Recognition of Promiscuity of Thermophilic Methionine Adenosyltransferase, sMAT from Sulfolobus solfataricus.
1. FEBS J - published March 20, 2014
2. F Wang, S Singh, J Zhang, TD Huber, KE Helmich, M Sunkara, KA Hurley, RD Goff, CA Bingman, AJ Morris, JS Thorson, Jr Phillips GN
Chiral phase transfer and enantioenrichment of thiolate-protected Au₁₀₂ clusters.
1. J Am Chem Soc - published March 19, 2014
2. Knoppe S., Wong OA., Malola S., Häkkinen H., Bürgi T., Verbiest T., Ackerson CJ.
The timing of pre-mRNA splicing visualized in real-time.
1. Nucleus - published March 19, 2014
2. Carmo-Fonseca M, Kirchhausen T
Jaagsiekte sheep retrovirus detected in human lung cancer tissue arrays.
1. BMC Res Notes - published March 19, 2014
2. NM Linnerth-Petrik, SR Walsh, PN Bogner, C Morrison, SK Wootton
Selective inhibition of BET bromodomain epigenetic signalling interferes with the bone-associated tumour vicious cycle.
1. Nat Commun - published March 19, 2014
2. Lamoureux F., Baud'huin M., Rodriguez Calleja L., Jacques C., Berreur M., Rédini F., Lecanda F., Bradner JE., Heymann D., Ory B.
Biochemical reconstitution of the WAVE regulatory complex.
1. Methods Enzymol - published March 18, 2014
2. Chen B, Padrick SB, Henry L, Rosen MK
Generation of differentially modified microtubules using in vitro enzymatic approaches.
1. Methods Enzymol - published March 18, 2014
2. Vemu A, Garnham CP, Lee DY, Roll-Mecak A
Microarray Discovery of New OGT Substrates: The Medulloblastoma Oncogene OTX2 Is O-GlcNAcylated.
1. J Am Chem Soc - published March 17, 2014
2. RF Ortiz-Meoz, Y Merbl, MW Kirschner, S Walker
Decoupling catalytic activity from biological function of the ATPase that powers lipopolysaccharide transport.
1. Proc Natl Acad Sci U S A - published March 17, 2014
2. DJ Sherman, MB Lazarus, L Murphy, C Liu, S Walker, N Ruiz, D Kahne
Discovery of dual ZAP70 and Syk kinases inhibitors by docking into a rare C-helix-out conformation of Syk.
1. Bioorg Med Chem Lett - published March 15, 2014
2. H Zhao, A Caflisch
Assignments of RNase A by ADAPT-NMR and enhancer.
1. Biomol NMR Assign - published March 12, 2014
2. M Tonelli, CH Eller, KK Singarapu, W Lee, A Bahrami, WM Westler, RT Raines, JL Markley
2'-OMe-phosphorodithioate-modified siRNAs show increased loading into the RISC complex and enhanced anti-tumour activity.
1. Nat Commun - published March 12, 2014
2. SY Wu, X Yang, KM Gharpure, H Hatakeyama, M Egli, MH McGuire, AS Nagaraja, TM Miyake, R Rupaimoole, CV Pecot, M Taylor, S Pradeep, M Sierant, C Rodriguez-Aguayo, HJ Choi, RA Previs, GN Armaiz-Pena, L Huang, C Martinez, T Hassell, C Ivan, V Sehgal, R Singhania, HD Han, C Su, JH Kim, HJ Dalton, C Kovvali, K Keyomarsi, NA McMillan, WW Overwijk, J Liu, JS Lee, KA Baggerly, G Lopez-Berestein, PT Ram, B Nawrot, AK Sood
Scm3 deposits a (Cse4-H4)2 tetramer onto DNA through a Cse4-H4 dimer intermediate.
1. Nucleic Acids Res - published March 12, 2014
2. ML Dechassa, K Wyns, K Luger
Utility of DNA Barcoding in Distinguishing Species of the Family Taeniidae.
1. J Parasitol - published March 10, 2014
2. Zhang G., Chen J., Yang Y., Liu N., Jiang W., Wang X., Yang G., Wang Z.
Conformational heterogeneity in antibody-protein antigen recognition: implications for high affinity protein complex formation.
1. J Biol Chem - published March 7, 2014
2. Addis PW, Hall CJ, Bruton S, Veverka V, Wilkinson IC, Muskett FW, Renshaw PS, Prosser CE, Carrington B, Lawson ADG, Griffin R, Taylor RJ, Waters LC, Henry AJ, Carr MD
Ferromagnetic nanoparticles with peroxidase-like activity enhance the cleavage of biological macromolecules for biofilm elimination.
1. Nanoscale - published March 7, 2014
2. L Gao, KM Giglio, JL Nelson, H Sondermann, AJ Travis
Structural basis for heavy metal detoxification by an Atm1-type ABC exporter.
1. Science - published March 7, 2014
2. Lee JY, Yang JG, Zhitnitsky D, Lewinson O, Rees DC
Common genetic variants modulate pathogen-sensing responses in human dendritic cells.
1. Science - published March 7, 2014
2. Lee MN, Ye C, Villani AC, Raj T, Li W, Eisenhaure TM, Imboywa SH, Chipendo PI, Ran FA, Slowikowski K, Ward LD, Raddassi K, McCabe C, Lee MH, Frohlich IY, Hafler DA, Kellis M, Raychaudhuri S, Zhang F, Stranger BE, Benoist CO, De Jager PL, Regev A, Hacohen N
Disruption of Helix-Capping Residues 671 and 674 Reveals a Role in HIV-1 Entry for a Specialized Hinge Segment of the Membrane Proximal External Region of gp41.
1. J Mol Biol - published March 6, 2014
2. ZY Sun, Y Cheng, M Kim, L Song, J Choi, UJ Kudahl, V Brusic, B Chowdhury, L Yu, MS Seaman, G Bellot, WM Shih, G Wagner, EL Reinherz
DksA guards elongating RNA polymerase against ribosome-stalling-induced arrest.
1. Mol Cell - published March 6, 2014
2. Zhang Y, Mooney RA, Grass JA, Sivaramakrishnan P, Herman C, Landick R, Wang JD
A half-zippered SNARE complex represents a functional intermediate in membrane fusion.
1. J Am Chem Soc - published March 5, 2014
2. Li F, Kümmel D, Coleman J, Reinisch KM, Rothman JE, Pincet F
Analysis of Protein Interactions with Picomolar Binding Affinity by Fluorescence-Detected Sedimentation Velocity.
1. Anal Chem - published March 5, 2014
2. H Zhao, ML Mayer, P Schuck
Antibody engineering and therapeutics, The Annual Meeting of the Antibody Society: December 8-12, 2013, Huntington Beach, CA.
1. MAbs - published March 5, 2014
2. Almagro JC, Gilliland GL, Breden F, Scott JK, Sok D, Pauthner M, Reichert JM, Helguera G, Andrabi R, Mabry R, Bléry M, Voss JE, Laurén J, Abuqayyas L, Barghorn S, Ben-Jacob E, Crowe JE Jr, Huston JS, Johnston SA, Krauland E, Lund-Johansen F, Marasco WA, Parren PW, Xu KY
Automated cell-free protein production methods for structural studies.
1. Methods Mol Biol - published March 5, 2014
2. Beebe ET, Makino S, Markley JL, Fox BG
A close look at a ketosynthase from a trans-acyltransferase modular polyketide synthase.
1. Structure - published March 4, 2014
2. Gay DC, Gay G, Axelrod AJ, Jenner M, Kohlhaas C, Kampa A, Oldham NJ, Piel J, Keatinge-Clay AT
Bacterial tubulin TubZ-Bt transitions between a two-stranded intermediate and a four-stranded filament upon GTP hydrolysis.
1. Proc Natl Acad Sci U S A - published March 4, 2014
2. Montabana EA, Agard DA
Approach for targeting Ras with small molecules that activate SOS-mediated nucleotide exchange.
1. Proc Natl Acad Sci U S A - published March 4, 2014
2. Burns MC, Sun Q, Daniels RN, Camper D, Kennedy JP, Phan J, Olejniczak ET, Lee T, Waterson AG, Rossanese OW, Fesik SW
Dynamic look at DNA unwinding by a replicative helicase.
1. Proc Natl Acad Sci U S A - published March 4, 2014
2. Lee SJ, Syed S, Enemark EJ, Schuck S, Stenlund A, Ha T, Joshua-Tor L
Integrative Computational Modelling of Protein Interactions.
1. FEBS J - published March 4, 2014
2. JP Rodrigues, AM Bonvin
Crystal structure of vaccinia virus mRNA capping enzyme provides insights into the mechanism and evolution of the capping apparatus.
1. Structure - published March 4, 2014
2. Kyrieleis OJ, Chang J, de la Peña M, Shuman S, Cusack S
Nitric oxide (NO) releasing poly ADP-ribose polymerase 1 (PARP-1) inhibitors targeted to glutathione S-transferase P1-overexpressing cancer cells.
1. J Med Chem - published March 2, 2014
2. Maciag AE, Holland RJ, Kim Y, Kumari V, Luthers CE, Sehareen WS, Biswas D, Morris NL, Ji X, Anderson LM, Saavedra JE, Keefer LK
An epigenetic mechanism of resistance to targeted therapy in T cell acute lymphoblastic leukemia.
1. Nat Genet - published March 2, 2014
2. B Knoechel, JE Roderick, KE Williamson, J Zhu, JG Lohr, MJ Cotton, SM Gillespie, D Fernandez, M Ku, H Wang, F Piccioni, SJ Silver, M Jain, D Pearson, MJ Kluk, CJ Ott, LD Shultz, MA Brehm, DL Greiner, A Gutierrez, K Stegmaier, AL Kung, DE Root, JE Bradner, JC Aster, MA Kelliher, BE Bernstein
Modulation of the Hsp90 chaperone cycle by a stringent client protein.
1. Mol Cell - published March 2, 2014
2. Lorenz OR, Freiburger L, Rutz DA, Krause M, Zierer BK, Alvira S, Cuéllar J, Valpuesta JM, Madl T, Sattler M, Buchner J
Structural insights into the assembly of a monomeric class V myosin.
1. Proc Natl Acad Sci U S A - published March 2, 2014
2. Rayment I
Largen: a molecular regulator of mammalian cell size control.
1. Mol Cell - published March 2, 2014
2. Yamamoto K, Gandin V, Sasaki M, McCracken S, Li W, Silvester JL, Elia AJ, Wang F, Wakutani Y, Alexandrova R, Oo YD, Mullen PJ, Inoue S, Itsumi M, Lapin V, Haight J, Wakeham A, Shahinian A, Ikura M, Topisirovic I, Sonenberg N, Mak TW
Analysis of growth factor signaling in genetically diverse breast cancer lines.
1. BMC Biol - published March 2, 2014
2. Niepel M, Hafner M, Pace EA, Chung M, Chai DH, Zhou L, Muhlich JL, Schoeberl B, Sorger PK
Structure of bacterial cytoplasmic chemoreceptor arrays and implications for chemotactic signaling.
1. Elife - published March 2, 2014
2. Briegel A, Ladinsky MS, Oikonomou C, Jones CW, Harris MJ, Fowler DJ, Chang YW, Thompson LK, Armitage JP, Jensen GJ
The noncoding RNA revolution-trashing old rules to forge new ones.
1. Cell - published March 2, 2014
2. Cech TR, Steitz JA
Amorphous no more: subdiffraction view of the pericentriolar material architecture.
1. Trends Cell Biol - published March 1, 2014
2. Mennella V, Agard DA, Huang B, Pelletier L
Nickel binding properties of Helicobacter pylori UreF, an accessory protein in the nickel-based activation of urease.
1. J Biol Inorg Chem - published March 1, 2014
2. Zambelli B, Berardi A, Martin-Diaconescu V, Mazzei L, Musiani F, Maroney MJ, Ciurli S
Human immunodeficiency virus type 1 Vpr polymorphisms associated with progressor and nonprogressor individuals alter Vpr-associated functions.
1. J Gen Virol - published March 1, 2014
2. Hadi K, Walker LA, Guha D, Murali R, Watkins SC, Tarwater P, Srinivasan A, Ayyavoo V
Regulation of β2-adrenergic receptor function by conformationally selective single-domain intrabodies.
1. Mol Pharmacol - published March 1, 2014
2. Staus DP, Wingler LM, Strachan RT, Rasmussen SG, Pardon E, Ahn S, Steyaert J, Kobilka BK, Lefkowitz RJ
FeON-FeOFF: the Helicobacter pylori Fur regulator commutates iron-responsive transcription by discriminative readout of opposed DNA grooves.
1. Nucleic Acids Res - published March 1, 2014
2. Agriesti F, Roncarati D, Musiani F, Del Campo C, Iurlaro M, Sparla F, Ciurli S, Danielli A, Scarlato V
Structure of the mammalian ribosomal pre-termination complex associated with eRF1.eRF3.GDPNP.
1. Nucleic Acids Res - published March 1, 2014
2. des Georges A, Hashem Y, Unbehaun A, Grassucci RA, Taylor D, Hellen CU, Pestova TV, Frank J
Enhancing the peroxidase activity of cytochrome c by mutation of residue 41: implications for the peroxidase mechanism and cytochrome c release.
1. Biochem J - published March 1, 2014
2. Josephs TM, Morison IM, Day CL, Wilbanks SM, Ledgerwood EC
Three-dimensional structure of a sugar N-formyltransferase from Francisella tularensis.
1. Protein Sci - published March 1, 2014
2. Zimmer AL, Thoden JB, Holden HM
Recruitment of PI4KIIIβ to coxsackievirus B3 replication organelles is independent of ACBD3, GBF1, and Arf1.
1. J Virol - published March 1, 2014
2. Dorobantu CM, van der Schaar HM, Ford LA, Strating JR, Ulferts R, Fang Y, Belov G, van Kuppeveld FJ
Fitness and virulence of a coxsackievirus mutant that can circumnavigate the need for phosphatidylinositol 4-kinase class III beta.
1. J Virol - published March 1, 2014
2. Thibaut HJ, van der Schaar HM, Lanke KH, Verbeken E, Andrews M, Leyssen P, Neyts J, van Kuppeveld FJ
Enterovirus 2Apro targets MDA5 and MAVS in infected cells.
1. J Virol - published March 1, 2014
2. Feng Q, Langereis MA, Lork M, Nguyen M, Hato SV, Lanke K, Emdad L, Bhoopathi P, Fisher PB, Lloyd RE, van Kuppeveld FJ
Application of a cell-based protease assay for testing inhibitors of picornavirus 3C proteases.
1. Antiviral Res - published March 1, 2014
2. van der Linden L, Ulferts R, Nabuurs SB, Kusov Y, Liu H, George S, Lacroix C, Goris N, Lefebvre D, Lanke KH, De Clercq K, Hilgenfeld R, Neyts J, van Kuppeveld FJ
The role of HTS in drug discovery at the University of Michigan.
1. Comb Chem High Throughput Screen - published March 1, 2014
2. Larsen MJ, Larsen SD, Fribley A, Grembecka J, Homan K, Mapp A, Haak A, Nikolovska-Coleska Z, Stuckey JA, Sun D, Sherman DH
Automatic cryo-EM particle selection for membrane proteins in spherical liposomes.
1. J Struct Biol - published March 1, 2014
2. Liu Y, Sigworth FJ
Crystal structure of mouse mu-crystallin complexed with NADPH and the T3 thyroid hormone.
1. FEBS J - published March 1, 2014
2. Borel F, Hachi I, Palencia A, Gaillard MC, Ferrer JL
Biochemical and structural analysis of the hyperpolarization-activated K(+) channel MVP.
1. Biochemistry - published March 1, 2014
2. Randich AM, Cuello LG, Wanderling SS, Perozo E
Proof of principle for epitope-focused vaccine design.
1. Nature - published March 1, 2014
2. Correia BE, Bates JT, Loomis RJ, Baneyx G, Carrico C, Jardine JG, Rupert P, Correnti C, Kalyuzhniy O, Vittal V, Connell MJ, Stevens E, Schroeter A, Chen M, Macpherson S, Serra AM, Adachi Y, Holmes MA, Li Y, Klevit RE, Graham BS, Wyatt RT, Baker D, Strong RK, Crowe JE Jr, Johnson PR, Schief WR
Structural basis for -10 promoter element melting by environmentally induced sigma factors.
1. Nat Struct Mol Biol - published March 1, 2014
2. Campagne S, Marsh ME, Capitani G, Vorholt JA, Allain FH
Impact of bilayer lipid composition on the structure and topology of the transmembrane amyloid precursor C99 protein.
1. J Am Chem Soc - published March 1, 2014
2. Song Y, Mittendorf KF, Lu Z, Sanders CR
Translocation domain mutations affecting cellular toxicity identify the Clostridium difficile toxin B pore.
1. Proc Natl Acad Sci U S A - published March 1, 2014
2. Zhang Z, Park M, Tam J, Auger A, Beilhartz GL, Lacy DB, Melnyk RA
New insights into bacterial chemoreceptor array structure and assembly from electron cryotomography.
1. Biochemistry - published March 1, 2014
2. Briegel A, Wong ML, Hodges HL, Oikonomou CM, Piasta KN, Harris MJ, Fowler DJ, Thompson LK, Falke JJ, Kiessling LL, Jensen GJ
Receptor tyrosine kinases: legacy of the first two decades.
1. Cold Spring Harb Perspect Biol - published March 1, 2014
2. Schlessinger J
Structural basis of Flavivirus NS1 assembly and antibody recognition.
1. Proc Natl Acad Sci U S A - published March 1, 2014
2. Edeling MA, Diamond MS, Fremont DH
Structural and thermodynamic basis of the inhibition of Leishmania major farnesyl diphosphate synthase by nitrogen-containing bisphosphonates.
1. Acta Crystallogr D Biol Crystallogr - published March 1, 2014
2. Aripirala S, Gonzalez-Pacanowska D, Oldfield E, Kaiser M, Amzel LM, Gabelli SB
Circulating human rotavirus specific CD4 T cells identified with a class II tetramer express the intestinal homing receptors α4β7 and CCR9.
1. Virology - published March 1, 2014
2. Parra M, Herrera D, Calvo-Calle JM, Stern LJ, Parra-López CA, Butcher E, Franco M, Angel J
Regulation of vesicle trafficking: GTPases and friends.
1. Mol Biol Cell - published March 1, 2014
2. Fromme JC, Segev N
Activation of PI3Kα by physiological effectors and by oncogenic mutations: structural and dynamic effects.
1. Biophys Rev - published March 1, 2014
2. Gabelli SB, Echeverria I, Alexander M, Duong-Ly KC, Chaves-Moreira D, Brower ET, Vogelstein B, Amzel LM
Convective Replica-Exchange in Ergodic Regimes.
1. J Chem Theory Comput - published March 1, 2014
2. Signorini GF, Giovannelli E, Spill YG, Nilges M, Chelli R