Member Publications

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89 Member Publications for September 2013

Design or screening of drugs for the treatment of Chagas disease: what shows the most promise?
1. Expert Opin Drug Discov - published September 30, 2013
2. GI Lepesheva
Global substrate profiling of proteases in human neutrophil extracellular traps reveals consensus motif predominantly contributed by elastase.
1. PLoS One - published September 28, 2013
2. O'Donoghue AJ, Jin Y, Knudsen GM, Perera NC, Jenne DE, Murphy JE, Craik CS, Hermiston TW
Architecture of an RNA Polymerase II Transcription Pre-Initiation Complex.
1. Science - published September 26, 2013
2. Y Levi-Kalisman, D Elmlund, M Azubel, CM Adams, DA Bushnell, N Kalisman, H Elmlund, K Murakami, RD Kornberg, M Levitt, X Liu, RD Kornberg, M Levitt, BJ Gibbons
Allosteric coupling between the intracellular coupling helix 4 and regulatory sites of the first nucleotide-binding domain of CFTR.
1. PLoS One - published September 24, 2013
2. Dawson JE, Farber PJ, Forman-Kay JD
CryoEM and Molecular Dynamics of the Circadian KaiB-KaiC Complex Indicates That KaiB Monomers Interact with KaiC and Block ATP Binding Clefts.
1. J Mol Biol - published September 23, 2013
2. PL Stewart, M Egli, CH Johnson, X Qin, T Mori, DR Williams, R Pattanayek, SA Villarreal
Adrenaline-activated structure of β₂-adrenoceptor stabilized by an engineered nanobody.
1. Nature - published September 22, 2013
2. BK Kobilka, KC Garcia, WI Weis, MD Enos, AC Kruse, A Manglik, AM Ring
Human LilrB2 is a β-amyloid receptor and its murine homolog PirB regulates synaptic plasticity in an Alzheimer's model.
1. Science - published September 20, 2013
2. CJ Shatz, BT Hyman, KC Garcia, ME Birnbaum, CM William, M Djurisic, GS Vidal, T Kim
Surface Reengineering of RPA70N Enables Cocrystallization with an Inhibitor of the Replication Protein A Interaction Motif of ATR Interacting Protein.
1. Biochemistry - published September 17, 2013
2. WJ Chazin, SW Fesik, AG Waterson, B Vangamudi, JD Patrone, JP Kennedy, AO Frank, MD Feldkamp
The ZIP5 ectodomain co-localizes with PrP and may acquire a PrP-like fold that assembles into a dimer.
1. PLoS One - published September 17, 2013
2. Pocanschi CL, Ehsani S, Mehrabian M, Wille H, Reginold W, Trimble WS, Wang H, Yee A, Arrowsmith CH, Bozóky Z, Kay LE, Forman-Kay JD, Rini JM, Schmitt-Ulms G
RosettaEPR: rotamer library for spin label structure and dynamics.
1. PLoS One - published September 17, 2013
2. Alexander NS, Stein RA, Koteiche HA, Kaufmann KW, McHaourab HS, Meiler J
Ring-Opening of the γ-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
1. Chem Res Toxicol - published September 16, 2013
2. MP Stone, M Egli, RS Lloyd, CJ Rizzo, ID Kozekov, PP Christov, S Banerjee, IG Minko, G Shanmugam
Tuning voltage-gated channel activity and cellular excitability with a sphingomyelinase.
1. J Gen Physiol - published September 16, 2013
2. Z Lu, Y Ramu, Y Xu, HG Shin, DJ Combs
HIV-1 suppression and durable control by combining single broadly neutralizing antibodies and antiretroviral drugs in humanized mice.
1. Proc Natl Acad Sci U S A - published September 16, 2013
2. MC Nussenzweig, F Klein, PJ Bjorkman, A Ploss, CM Rice, JM Wilson, MS Seaman, R Kaiser, E Knops, O Schwartz, H Büning, M Dorner, E Billerbeck, S Gravemann, M Malbec, TR Eisenreich, A Tretiakova, AD Gitlin, H Mouquet, A Halper-Stromberg, JA Horwitz
Discovery and SAR of a novel series of GIRK1/2 and GIRK1/4 activators.
1. Bioorg Med Chem Lett - published September 15, 2013
2. GA Sulikowski, CD Weaver, CW Lindsley, Y Du, K Kaufmann, DW Engers, SJ Ramos-Hunter
Octahydropyrrolo[3,4-c]pyrrole negative allosteric modulators of mGlu1.
1. Bioorg Med Chem Lett - published September 15, 2013
2. KA Emmitte, CW Lindsley, PJ Conn, CM Niswender, JS Daniels, AL Blobaum, HP Cho, DF Venable, RD Morrison, AL Rodriguez, JT Manka
Wall teichoic acids of gram-positive bacteria.
1. Annu Rev Microbiol - published September 13, 2013
2. Brown S, Santa Maria JP Jr, Walker S
Blue Light-Induced Dimerization of a Bacterial LOV-HTH DNA-Binding Protein.
1. Biochemistry - published September 12, 2013
2. KH Gardner, LB Motta-Mena, BD Zoltowski
Nitric oxide-releasing prodrug triggers cancer cell death through deregulation of cellular redox balance.
1. Redox Biol - published September 12, 2013
2. Maciag AE, Holland RJ, Robert Cheng YS, Rodriguez LG, Saavedra JE, Anderson LM, Keefer LK
Multiple amino acid sequence alignment nitrogenase component 1: insights into phylogenetics and structure-function relationships.
1. PLoS One - published September 11, 2013
2. Howard JB, Kechris KJ, Rees DC, Glazer AN
Role of Ca²⁺ in folding the tandem β-sandwich extender domains of a bacterial ice-binding adhesin.
1. FEBS J - published September 11, 2013
2. S Guo, PL Davies, JS Allingham, RL Campbell, SP Karunan, CP Garnham, S Karunan Partha
Detecting sirtuin-catalyzed deacylation reactions using ³²P-labeled NAD and thin-layer chromatography.
1. Methods Mol Biol - published September 10, 2013
2. Zhu A, Su X, Lin H
Insights into Notch3 Activation and Inhibition Mediated by Antibodies Directed against Its Negative Regulatory Region.
1. J Mol Biol - published September 9, 2013
2. SC Blacklow, JR Engen, CW Siebel, TE Wales, K Tiyanont
Apo states of calmodulin and CaBP1 control CaV1 voltage-gated calcium channel function through direct competition for the IQ domain.
1. J Mol Biol - published September 9, 2013
2. Findeisen F, Rumpf CH, Minor DL Jr
Mechanism for activation of mutated epidermal growth factor receptors in lung cancer.
1. Proc Natl Acad Sci U S A - published September 9, 2013
2. W Pao, MJ Eck, MA Lemmon, D Lai, CH Yun, M Red Brewer
Variable Expression of GLIPR1 Correlates with Invasive Potential in Melanoma Cells.
1. Front Oncol - published September 7, 2013
2. Awasthi A, Woolley AG, Lecomte FJ, Hung N, Baguley BC, Wilbanks SM, Jeffs AR, Tyndall JD
In vitro veritas: 90 years of biochemistry at Saint Louis University.
1. Mo Med - published September 6, 2013
2. Eissenberg JC, Di Cera E
Glial scaffold required for cerebellar granule cell migration is dependent on dystroglycan function as a receptor for basement membrane proteins.
1. Acta Neuropathol Commun - published September 6, 2013
2. Nguyen H, Ostendorf AP, Satz JS, Westra S, Ross-Barta SE, Campbell KP, Moore SA
Adsorption geometry determination of single molecules by atomic force microscopy.
1. Phys Rev Lett - published September 6, 2013
2. Schuler B, Liu W, Tkatchenko A, Moll N, Meyer G, Mistry A, Fox D, Gross L
Recovery from slow inactivation in K+ channels is controlled by water molecules.
1. Nature - published September 5, 2013
2. Ostmeyer J, Chakrapani S, Pan AC, Perozo E, Roux B
Generalized bacterial genome editing using mobile group II introns and Cre-lox.
1. Mol Syst Biol - published September 5, 2013
2. Enyeart PJ, Chirieleison SM, Dao MN, Perutka J, Quandt EM, Yao J, Whitt JT, Keatinge-Clay AT, Lambowitz AM, Ellington AD
Structure of a sugar N-formyltransferase from Campylobacter jejuni.
1. Biochemistry - published September 3, 2013
2. Thoden JB, Goneau MF, Gilbert M, Holden HM
Spectroscopic and computational characterization of the NO adduct of substrate-bound Fe(II) cysteine dioxygenase: insights into the mechanism of O2 activation.
1. Biochemistry - published September 3, 2013
2. Blaesi EJ, Gardner JD, Fox BG, Brunold TC
Active site conformational dynamics are coupled to catalysis in the mRNA decapping enzyme Dcp2.
1. Structure - published September 3, 2013
2. Aglietti RA, Floor SN, McClendon CL, Jacobson MP, Gross JD
bam Lipoproteins Assemble BamA in vitro.
1. Biochemistry - published September 3, 2013
2. Hagan CL, Westwood DB, Kahne D
Heterotropic Activation of the Midazolam Hydroxylase Activity of CYP3A by a Positive Allosteric Modulator of mGlu5: In Vitro to In Vivo Translation and Potential Impact on Clinically Relevant Drug-Drug Interactions.
1. Drug Metab Dispos - published September 3, 2013
2. JS Daniels, SR Stauffer, CW Lindsley, PJ Conn, CM Niswender, CK Jones, T Steckler, GJ Macdonald, JM Bartolomé, H Lavreysen, C Mackie, RD Morrison, M Mattmann, M Turlington, FW Byers, TM Bridges, AL Blobaum, ME Mattmann, ML Turlington
Structural analysis of supramolecular assemblies by cryo-electron tomography.
1. Structure - published September 3, 2013
2. Harapin J, Eibauer M, Medalia O
A new RING tossed into an old HAT.
1. Structure - published September 3, 2013
2. Ringel AE, Wolberger C
From sequence and forces to structure, function, and evolution of intrinsically disordered proteins.
1. Structure - published September 3, 2013
2. Forman-Kay JD, Mittag T
Structural studies of an A2-type modular polyketide synthase ketoreductase reveal features controlling α-substituent stereochemistry.
1. ACS Chem Biol - published September 2, 2013
2. Zheng J, Piasecki SK, Keatinge-Clay AT
Flipping the sidedness of disulfide bond formation.
1. J Mol Biol - published September 2, 2013
2. Slotboom DJ
pH-rate profiles support a general base mechanism for galactokinase (Lactococcus lactis).
1. FEBS Lett - published September 2, 2013
2. WW Cleland, HM Holden, GS Peters, JB Thoden, LA Reinhardt
Positively selected FimH residues enhance virulence during urinary tract infection by altering FimH conformation.
1. Proc Natl Acad Sci U S A - published September 2, 2013
2. Schwartz DJ, Kalas V, Pinkner JS, Chen SL, Spaulding CN, Dodson KW, Hultgren SJ
Single-molecule spectroscopy of cold denaturation and the temperature-induced collapse of unfolded proteins.
1. J Am Chem Soc - published September 2, 2013
2. Aznauryan M, Nettels D, Holla A, Hofmann H, Schuler B
3' terminal diversity of MRP RNA and other human noncoding RNAs revealed by deep sequencing.
1. BMC Mol Biol - published September 2, 2013
2. Goldfarb KC, Cech TR
Profiles of Basal and stimulated receptor signaling networks predict drug response in breast cancer lines.
1. Sci Signal - published September 2, 2013
2. Niepel M, Hafner M, Pace EA, Chung M, Chai DH, Zhou L, Schoeberl B, Sorger PK
Single-molecule spectroscopy of the unexpected collapse of an unfolded protein at low pH.
1. J Chem Phys - published September 2, 2013
2. Hofmann H, Nettels D, Schuler B
Flooding enzymes: quantifying the contributions of interstitial water and cavity shape to ligand binding using extended linear response free energy calculations.
1. J Chem Inf Model - published September 2, 2013
2. Whalen KL, Spies MA
Diverse antigen presentation by the Group 1 CD1 molecule, CD1c.
1. Mol Immunol - published September 1, 2013
2. Adams EJ
Cowpox virus employs a two-pronged strategy to outflank MHCI antigen presentation.
1. Mol Immunol - published September 1, 2013
2. McCoy WH 4th, Wang X, Yokoyama WM, Hansen TH, Fremont DH
SHP family protein tyrosine phosphatases adopt canonical active-site conformations in the apo and phosphate-bound states.
1. Protein Pept Lett - published September 1, 2013
2. Alicea-Velazquez NL, Boggon TJ
Structural characterizations of the chloroplast translocon protein Tic110.
1. Plant J - published September 1, 2013
2. Tsai JY, Chu CC, Yeh YH, Chen LJ, Li HM, Hsiao CD
Barley stripe mosaic virus: Structure and relationship to the tobamoviruses.
1. Virology - published September 1, 2013
2. G Stubbs, PL Stewart, W Bian, D Williams, A Kendall
Prototypical Recombinant Multi-Protease-Inhibitor-Resistant Infectious Molecular Clones of Human Immunodeficiency Virus Type 1.
1. Antimicrob Agents Chemother - published September 1, 2013
2. Varghese V, Mitsuya Y, Fessel WJ, Liu TF, Melikian GL, Katzenstein DA, Schiffer CA, Holmes SP, Shafer RW
The mobility of two kinase domains in the Escherichia coli chemoreceptor array varies with signalling state.
1. Mol Microbiol - published September 1, 2013
2. Briegel A, Ames P, Gumbart JC, Oikonomou CM, Parkinson JS, Jensen GJ
Polyphosphate storage during sporulation in the gram-negative bacterium Acetonema longum.
1. J Bacteriol - published September 1, 2013
2. Tocheva EI, Dekas AE, McGlynn SE, Morris D, Orphan VJ, Jensen GJ
Selective peptide inhibitors of bifunctional thymidylate synthase-dihydrofolate reductase from Toxoplasma gondii provide insights into domain-domain communication and allosteric regulation.
1. Protein Sci - published September 1, 2013
2. Landau MJ, Sharma H, Anderson KS
MntABC and MntH contribute to systemic Staphylococcus aureus infection by competing with calprotectin for nutrient manganese.
1. Infect Immun - published September 1, 2013
2. Kehl-Fie TE, Zhang Y, Moore JL, Farrand AJ, Hood MI, Rathi S, Chazin WJ, Caprioli RM, Skaar EP
Structural changes of CFTR R region upon phosphorylation: a plastic platform for intramolecular and intermolecular interactions.
1. FEBS J - published September 1, 2013
2. Bozoky Z, Krzeminski M, Chong PA, Forman-Kay JD
Oxysterol binding to the extracellular domain of Smoothened in Hedgehog signaling.
1. Nat Chem Biol - published September 1, 2013
2. Nedelcu D, Liu J, Xu Y, Jao C, Salic A
Mutations in the cytoplasmic tail of herpes simplex virus 1 gH reduce the fusogenicity of gB in transfected cells.
1. J Virol - published September 1, 2013
2. Silverman JL, Heldwein EE
Characterization of PA-N terminal domain of Influenza A polymerase reveals sequence specific RNA cleavage.
1. Nucleic Acids Res - published September 1, 2013
2. Datta K, Wolkerstorfer A, Szolar OH, Cusack S, Klumpp K
Design, construction, and characterization of a second-generation DARP in library with reduced hydrophobicity.
1. Protein Sci - published September 1, 2013
2. Seeger MA, Zbinden R, Flütsch A, Gutte PG, Engeler S, Roschitzki-Voser H, Grütter MG
DNA targeting specificity of RNA-guided Cas9 nucleases.
1. Nat Biotechnol - published September 1, 2013
2. Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine EJ, Wu X, Shalem O, Cradick TJ, Marraffini LA, Bao G, Zhang F
Likelihood-based classification of cryo-EM images using FREALIGN.
1. J Struct Biol - published September 1, 2013
2. Lyumkis D, Brilot AF, Theobald DL, Grigorieff N
Predicted group II intron lineages E and F comprise catalytically active ribozymes.
1. RNA - published September 1, 2013
2. Nagy V, Pirakitikulr N, Zhou KI, Chillón I, Luo J, Pyle AM
Allosteric mechanism of water-channel gating by Ca2+-calmodulin.
1. Nat Struct Mol Biol - published September 1, 2013
2. Reichow SL, Clemens DM, Freites JA, Németh-Cahalan KL, Heyden M, Tobias DJ, Hall JE, Gonen T
Extension into the entrance channel of HIV-1 reverse transcriptase--crystallography and enhanced solubility.
1. Bioorg Med Chem Lett - published September 1, 2013
2. Bollini M, Frey KM, Cisneros JA, Spasov KA, Das K, Bauman JD, Arnold E, Anderson KS, Jorgensen WL
Mutations in the gene encoding PDGF-B cause brain calcifications in humans and mice.
1. Nat Genet - published September 1, 2013
2. Keller A, Westenberger A, Sobrido MJ, García-Murias M, Domingo A, Sears RL, Lemos RR, Ordoñez-Ugalde A, Nicolas G, da Cunha JE, Rushing EJ, Hugelshofer M, Wurnig MC, Kaech A, Reimann R, Lohmann K, Dobričić V, Carracedo A, Petrović I, Miyasaki JM, Abakumova I, Mäe MA, Raschperger E, Zatz M, Zschiedrich K, Klepper J, Spiteri E, Prieto JM, Navas I, Preuss M, Dering C, Janković M, Paucar M, Svenningsson P, Saliminejad K, Khorshid HR, Novaković I, Aguzzi A, Boss A, Le Ber I, Defer G, Hannequin D, Kostić VS, Campion D, Geschwind DH, Coppola G, Betsholtz C, Klein C, Oliveira JR
Improving 3D structure prediction from chemical shift data.
1. J Biomol NMR - published September 1, 2013
2. van der Schot G, Zhang Z, Vernon R, Shen Y, Vranken WF, Baker D, Bonvin AM, Lange OF
Automated identification of functional dynamic contact networks from X-ray crystallography.
1. Nat Methods - published September 1, 2013
2. van den Bedem H, Bhabha G, Yang K, Wright PE, Fraser JS
Particle quality assessment and sorting for automatic and semiautomatic particle-picking techniques.
1. J Struct Biol - published September 1, 2013
2. Vargas J, Abrishami V, Marabini R, de la Rosa-Trevín JM, Zaldivar A, Carazo JM, Sorzano COS
Optimization of diarylazines as anti-HIV agents with dramatically enhanced solubility.
1. Bioorg Med Chem Lett - published September 1, 2013
2. Bollini M, Cisneros JA, Spasov KA, Anderson KS, Jorgensen WL
E2 ubiquitin-conjugating enzymes regulate the deubiquitinating activity of OTUB1.
1. Nat Struct Mol Biol - published September 1, 2013
2. Wiener R, DiBello AT, Lombardi PM, Guzzo CM, Zhang X, Matunis MJ, Wolberger C
Chaperone Nap1 shields histone surfaces used in a nucleosome and can put H2A-H2B in an unconventional tetrameric form.
1. Mol Cell - published September 1, 2013
2. D'Arcy S, Martin KW, Panchenko T, Chen X, Bergeron S, Stargell LA, Black BE, Luger K
Dematin, a human erythrocyte cytoskeletal protein, is a substrate for a recombinant FIKK kinase from Plasmodium falciparum.
1. Mol Biochem Parasitol - published September 1, 2013
2. Brandt GS, Bailey S
Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity.
1. Cell - published September 1, 2013
2. Ran FA, Hsu PD, Lin CY, Gootenberg JS, Konermann S, Trevino AE, Scott DA, Inoue A, Matoba S, Zhang Y, Zhang F
RIG-I forms signaling-competent filaments in an ATP-dependent, ubiquitin-independent manner.
1. Mol Cell - published September 1, 2013
2. Peisley A, Wu B, Yao H, Walz T, Hur S
Active-site models for complexes of quinolinate synthase with substrates and intermediates.
1. Acta Crystallogr D Biol Crystallogr - published September 1, 2013
2. Soriano EV, Zhang Y, Colabroy KL, Sanders JM, Settembre EC, Dorrestein PC, Begley TP, Ealick SE
Substrate envelope-designed potent HIV-1 protease inhibitors to avoid drug resistance.
1. Chem Biol - published September 1, 2013
2. Nalam MN, Ali A, Reddy GS, Cao H, Anjum SG, Altman MD, Yilmaz NK, Tidor B, Rana TM, Schiffer CA
EGFR lung cancer mutants get specialized.
1. Proc Natl Acad Sci U S A - published September 1, 2013
2. Littlefield P, Jura N
Escherichia coli biofilms have an organized and complex extracellular matrix structure.
1. mBio - published September 1, 2013
2. Hung C, Zhou Y, Pinkner JS, Dodson KW, Crowley JR, Heuser J, Chapman MR, Hadjifrangiskou M, Henderson JP, Hultgren SJ
Collaboration gets the most out of software.
1. Elife - published September 1, 2013
2. Morin A, Eisenbraun B, Key J, Sanschagrin PC, Timony MA, Ottaviano M, Sliz P
Therapeutic strategies impacting cancer cell glutamine metabolism.
1. Future Med Chem - published September 1, 2013
2. Lukey MJ, Wilson KF, Cerione RA
Assembly of nucleosomal arrays from recombinant core histones and nucleosome positioning DNA.
1. J Vis Exp - published September 1, 2013
2. Rogge RA, Kalashnikova AA, Muthurajan UM, Porter-Goff ME, Luger K, Hansen JC
Integrated conformational and lipid-sensing regulation of endosomal ArfGEF BRAG2.
1. PLoS Biol - published September 1, 2013
2. Aizel K, Biou V, Navaza J, Duarte LV, Campanacci V, Cherfils J, Zeghouf M
The crystal structure and RNA-binding of an orthomyxovirus nucleoprotein.
1. PLoS Pathog - published September 1, 2013
2. Zheng W, Olson J, Vakharia V, Tao YJ
Improving macrophage responses to therapeutic antibodies by molecular engineering of SIRPα variants.
1. Oncoimmunology - published September 1, 2013
2. Weiskopf K, Ring AM, Schnorr PJ, Volkmer JP, Volkmer AK, Weissman IL, Garcia KC
Exploring novel strategies for AIDS protozoal pathogens: α-helix mimetics targeting a key allosteric protein-protein interaction in C. hominis TS-DHFR.
1. Medchemcomm - published September 1, 2013
2. Martucci WE, Rodriguez JM, Vargo MA, Marr M, Hamilton AD, Anderson KS
Mechanism and Kinetics of Acetyl-Lysine Binding to Bromodomains.
1. J Chem Theory Comput - published September 1, 2013
2. Magno A, Steiner S, Caflisch A