Member Publications

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85 Member Publications for November 2013

Signaling pathways and the cerebral cavernous malformations proteins: lessons from structural biology.
1. Cell Mol Life Sci - published November 29, 2013
2. TJ Boggon, OS Fisher
Human α1β3γ2L Gamma-Aminobutyric Acid Type A Receptors: High-Level Production and Purification in a Functional State.
1. Protein Sci - published November 29, 2013
2. KW Miller, SA Forman, R Desai, Y Zhang, X Zhang, A Liu, X Zhou, Z Dostalova
Discovery of a potent inhibitor of replication protein a protein-protein interactions using a fragment-linking approach.
1. J Med Chem - published November 27, 2013
2. SW Fesik, WJ Chazin, OW Rossanese, DV Camper, B Vangamudi, JD Patrone, NF Pelz, AG Waterson, JP Kennedy, MD Feldkamp, AO Frank
Identification of PLX4032-Resistance Mechanisms and Implications for Novel RAF Inhibitors.
1. Pigment Cell Melanoma Res - published November 27, 2013
2. T Xu, R Halaban, M Krauthammer, TJ Boggon, O Acevedo, S Gathiaka, AL Stiegler, E Cheng, R Bjornson, A Bacchiocchi, P Evans, T Wang, S Landrette, J Choi
The EM structure of the TRAPPIII complex leads to the identification of a requirement for COPII vesicles on the macroautophagy pathway.
1. Proc Natl Acad Sci U S A - published November 26, 2013
2. T Walz, KM Reinisch, S Ferro-Novick, HT Chou, S Menon, J Zhang, J Wang, Y Cai, D Tan
Structural basis for Ca²⁺ selectivity of a voltage-gated calcium channel.
1. Nature - published November 24, 2013
2. WA Catterall, N Zheng, T Scheuer, TM Heard, GQ Martinez, J Payandeh, TM Gamal El-Din, L Tang
Phospholipase D2 mediates survival signaling through direct regulation of Akt in glioblastoma cells.
1. J Biol Chem - published November 20, 2013
2. HA Brown, CW Lindsley, HE Taylor, RC Bruntz
Activation and allosteric modulation of a muscarinic acetylcholine receptor.
1. Nature - published November 20, 2013
2. WI Weis, J Steyaert, P Gmeiner, CC Felder, A Christopoulos, PM Sexton, C Valant, E Pardon, H Hübner, K Eitel, K Hu, J Hu, A Manglik, AM Ring, AC Kruse, BK Kobilka, J Wess, KC Garcia
Exocyclic Control of Turn Induction in Macrocyclic Peptide Scaffolds.
1. Chemistry - published November 20, 2013
2. AK Yudin, AJ Lough, CC Scully, S Zaretsky
Moenomycin Resistance Mutations in Staphylococcus aureus Reduce Peptidoglycan Chain Length and Cause Aberrant Cell Division.
1. ACS Chem Biol - published November 20, 2013
2. S Walker, D Kahne, D Hooper, R Villet, K Schirner, Y Qiao, T Lupoli, Y Rebets
Cryo-electron microscopy reconstruction shows poliovirus 135S particles poised for membrane interaction and RNA release.
1. J Virol - published November 20, 2013
2. JM Hogle, DJ Filman, C Butan
A novel membrane sensor controls the localization and ArfGEF activity of bacterial RalF.
1. PLoS Pathog - published November 19, 2013
2. Folly-Klan M, Alix E, Stalder D, Ray P, Duarte LV, Delprato A, Zeghouf M, Antonny B, Campanacci V, Roy CR, Cherfils J
Molecular structure of the Brucella abortus metalloprotein RicA, a Rab2-binding virulence effector.
1. Biochemistry - published November 19, 2013
2. S Crosson, J Herrou
Substrate Specificity and Oligomerization of Human GMP Synthetase.
1. J Mol Biol - published November 15, 2013
2. P Nordlund, S Gräslund, M Hammarström, L Trésaugues, T Nyman, S Flodin, A Johansson, L Lehtiö, M Welin
Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: Identification of ML300 and noncovalent nanomolar inhibitors with an induced-fit binding.
1. Bioorg Med Chem Lett - published November 15, 2013
2. SR Stauffer, AD Mesecar, P Hodder, CW Lindsley, YM Baez-Santos, P Chase, A Saldanha, E Dawson, JS Daniels, J Jacobs, V Grum-Tokars, A Eggler, S Tomar, A Chun, M Turlington
Discovery of the First M₅-Selective and CNS Penetrant Negative Allosteric Modulator (NAM) of a Muscarinic Acetylcholine Receptor: (S)-9b-(4-Chlorophenyl)-1-(3,4-difluorobenzoyl)-2,3-dihydro-1H-imidazo[2,1-a]isoindol-5(9bH)-one (ML375).
1. J Med Chem - published November 13, 2013
2. CW Lindsley, MR Wood, PJ Conn, JS Daniels, CM Niswender, PS Hodder, P Chase, E Smith, HP Cho, JM Harp, NR Kett, TM Bridges, M Kokubo, PR Gentry
Sodium and potassium competition in potassium-selective and non-selective channels.
1. Nat Commun - published November 13, 2013
2. Sauer DB, Zeng W, Canty J, Lam Y, Jiang Y
The evolutionary origin of epithelial cell-cell adhesion mechanisms.
1. Curr Top Membr - published November 12, 2013
2. Miller PW, Clarke DN, Weis WI, Lowe CJ, Nelson WJ
Structural aspects of calcium-release activated calcium channel function.
1. Channels (Austin) - published November 12, 2013
2. Stathopulos PB, Ikura M
Substrate and inhibitor specificity of the type II p21-activated kinase, PAK6.
1. PLoS One - published November 9, 2013
2. Gao J, Ha BH, Lou HJ, Morse EM, Zhang R, Calderwood DA, Turk BE, Boggon TJ
Architectural organization of the metabolic regulatory enzyme ghrelin O-acyltransferase.
1. J Biol Chem - published November 8, 2013
2. Taylor MS, Ruch TR, Hsiao PY, Hwang Y, Zhang P, Dai L, Huang CRL, Berndsen CE, Kim MS, Pandey A, Wolberger C, Marmorstein R, Machamer C, Boeke JD, Cole PA
How natalizumab binds and antagonizes α4 integrins.
1. J Biol Chem - published November 8, 2013
2. Yu Y, Schürpf T, Springer TA
Structure-activity relationships for biodistribution, pharmacokinetics, and excretion of atomically precise nanoclusters in a murine model.
1. Nanoscale - published November 7, 2013
2. CL Heinecke, TW Ni, RJ Hansen, OA Wong, CJ Ackerson, DL Gustafson, WS Compel
Structural basis of mRNA recognition and cleavage by toxin MazF and its regulation by antitoxin MazE in Bacillus subtilis.
1. Mol Cell - published November 7, 2013
2. Simanshu DK, Yamaguchi Y, Park JH, Inouye M, Patel DJ
LARGE glycans on dystroglycan function as a tunable matrix scaffold to prevent dystrophy.
1. Nature - published November 7, 2013
2. Goddeeris MM, Wu B, Venzke D, Yoshida-Moriguchi T, Saito F, Matsumura K, Moore SA, Campbell KP
Structural biology of the Bcl-2 family and its mimicry by viral proteins.
1. Cell Death Dis - published November 7, 2013
2. Kvansakul M, Hinds MG
Acetylation of RNA polymerase II regulates growth-factor-induced gene transcription in mammalian cells.
1. Mol Cell - published November 7, 2013
2. Schröder S, Herker E, Itzen F, He D, Thomas S, Gilchrist DA, Kaehlcke K, Cho S, Pollard KS, Capra JA, Schnölzer M, Cole PA, Geyer M, Bruneau BG, Adelman K, Ott M
Picomolar inhibitors of HIV reverse transcriptase featuring bicyclic replacement of a cyanovinylphenyl group.
1. J Am Chem Soc - published November 6, 2013
2. Lee WG, Gallardo-Macias R, Frey KM, Spasov KA, Bollini M, Anderson KS, Jorgensen WL
A proposed mechanism for IS607-family serine transposases.
1. Mob DNA - published November 6, 2013
2. Boocock MR, Rice PA
Structure of a Clostridium botulinum C143S Thiaminase I/Thiamin Complex Reveals Active Site Architecture .
1. Biochemistry - published November 5, 2013
2. SE Ealick, TP Begley, Y Zhang, B Shome, MD Sikowitz
Structural basis for eliciting a cytotoxic effect in HER2-overexpressing cancer cells via binding to the extracellular domain of HER2.
1. Structure - published November 5, 2013
2. Jost C, Schilling J, Tamaskovic R, Schwill M, Honegger A, Plückthun A
Intrinsic disorder within an AKAP-protein kinase A complex guides local substrate phosphorylation.
1. Elife - published November 5, 2013
2. T Gonen, JD Scott, LK Langeberg, D Shi, JL Esseltine, SL Reichow, FD Smith
Recruitment of TLR adapter TRIF to TLR4 signaling complex is mediated by the second helical region of TRIF TIR domain.
1. Proc Natl Acad Sci U S A - published November 5, 2013
2. VY Toshchakov, SN Vogel, EJ Sundberg, KH Piepenbrink, LW Ru, W Piao
Mineralocorticoid receptor phosphorylation regulates ligand binding and renal response to volume depletion and hyperkalemia.
1. Cell Metab - published November 5, 2013
2. Shibata S, Rinehart J, Zhang J, Moeckel G, Castañeda-Bueno M, Stiegler AL, Boggon TJ, Gamba G, Lifton RP
Structure and function of an RNA-reading thermostable DNA polymerase.
1. Angew Chem Int Ed Engl - published November 4, 2013
2. Blatter N, Bergen K, Nolte O, Welte W, Diederichs K, Mayer J, Wieland M, Marx A
Targeting PARP-1 allosteric regulation offers therapeutic potential against cancer.
1. Cancer Res - published November 4, 2013
2. JM Pascal, JR Brody, KE Knudsen, CJ Yeo, NA Bildzukewicz, S Lal, MJ Schiewer, JL Planck, MF Langelier, RM Tholey, JD Steffen
Dysregulation of synaptogenesis genes antecedes motor neuron pathology in spinal muscular atrophy.
1. Proc Natl Acad Sci U S A - published November 4, 2013
2. G Dreyfuss, Z Wei, C Dengler, LN Singh, I Oliva, MG Berg, W Wang, L Wan, AM Pinto, Z Zhang
Hepatitis-C-virus-like internal ribosome entry sites displace eIF3 to gain access to the 40S subunit.
1. Nature - published November 3, 2013
2. J Frank, CU Hellen, TV Pestova, RA Grassucci, HY Liao, R Langlois, V Dhote, A des Georges, Y Hashem
Development of RNA aptamers targeting Ebola virus VP35.
1. Biochemistry - published November 2, 2013
2. Binning JM, Wang T, Luthra P, Shabman RS, Borek DM, Liu G, Xu W, Leung DW, Basler CF, Amarasinghe GK
A substrate access tunnel in the cytosolic domain is not an essential feature of the solute carrier 4 (SLC4) family of bicarbonate transporters.
1. J Biol Chem - published November 2, 2013
2. Shnitsar V, Li J, Li X, Calmettes C, Basu A, Casey JR, Moraes TF, Reithmeier RAF
Mutations in the polybasic juxtamembrane sequence of both plasma membrane- and endoplasmic reticulum-localized epidermal growth factor receptors confer ligand-independent cell transformation.
1. J Biol Chem - published November 2, 2013
2. Bryant KL, Antonyak MA, Cerione RA, Baird B, Holowka D
Orthogonal assembly of a designed ankyrin repeat protein-cytotoxin conjugate with a clickable serum albumin module for half-life extension.
1. Bioconjug Chem - published November 2, 2013
2. Simon M, Frey R, Zangemeister-Wittke U, Plückthun A
Cyanobacterial polyketide synthase docking domains: a tool for engineering natural product biosynthesis.
1. Chem Biol - published November 2, 2013
2. Whicher JR, Smaga SS, Hansen DA, Brown WC, Gerwick WH, Sherman DH, Smith JL
Self-assembly of VPS41 promotes sorting required for biogenesis of the regulated secretory pathway.
1. Dev Cell - published November 2, 2013
2. Asensio CS, Sirkis DW, Maas JW Jr, Egami K, To TL, Brodsky FM, Shu X, Cheng Y, Edwards RH
RNA seeds higher-order assembly of FUS protein.
1. Cell Rep - published November 2, 2013
2. Schwartz JC, Wang X, Podell ER, Cech TR
Coordinating the party: assembly factors and ribogenesis.
1. Mol Cell - published November 2, 2013
2. Pyle AM
An internal ligand-bound, metastable state of a leukocyte integrin, αXβ2.
1. J Cell Biol - published November 2, 2013
2. Sen M, Yuki K, Springer TA
Native cysteine residues are dispensable for the structure and function of all five yeast mitotic septins.
1. Proteins - published November 1, 2013
2. de Val N, McMurray MA, Lam LH, Hsiung CC, Bertin A, Nogales E, Thorner J
Mannan binding lectin-associated serine protease 1 is induced by hepatitis C virus infection and activates human hepatic stellate cells.
1. Clin Exp Immunol - published November 1, 2013
2. Saeed A, Baloch K, Brown RJ, Wallis R, Chen L, Dexter L, McClure CP, Shakesheff K, Thomson BJ
Congenital disorder of glycosylation due to DPM1 mutations presenting with dystroglycanopathy-type congenital muscular dystrophy.
1. Mol Genet Metab - published November 1, 2013
2. Yang AC, Ng BG, Moore SA, Rush J, Waechter CJ, Raymond KM, Willer T, Campbell KP, Freeze HH, Mehta L
The microtubule binding properties of CENP-E's C-terminus and CENP-F.
1. J Mol Biol - published November 1, 2013
2. Musinipally V, Howes S, Alushin GM, Nogales E
Plasmodium falciparum merozoite surface antigen, PfRH5, elicits detectable levels of invasion-inhibiting antibodies in humans.
1. J Infect Dis - published November 1, 2013
2. Patel SD, Ahouidi AD, Bei AK, Dieye TN, Mboup S, Harrison SC, Duraisingh MT
Genome-wide single-cell-level screen for protein abundance and localization changes in response to DNA damage in S. cerevisiae.
1. Nucleic Acids Res - published November 1, 2013
2. Mazumder A, Pesudo LQ, McRee S, Bathe M, Samson LD
Testing the substrate-envelope hypothesis with designed pairs of compounds.
1. ACS Chem Biol - published November 1, 2013
2. Shen Y, Altman MD, Ali A, Nalam MN, Cao H, Rana TM, Schiffer CA, Tidor B
Influence of electron dose rate on electron counting images recorded with the K2 camera.
1. J Struct Biol - published November 1, 2013
2. Li X, Zheng SQ, Egami K, Agard DA, Cheng Y
Type 2 Ryanodine Receptor Domain A Contains a Unique and Dynamic α-Helix That Transitions to a β-Strand in a Mutant Linked with a Heritable Cardiomyopathy.
1. J Mol Biol - published November 1, 2013
2. M Ikura, F Van Petegem, DH Maclennan, GM Gasmi-Seabrook, PB Stathopulos, L Kimlicka, FJ Amador
Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE).
1. Bioinformatics - published November 1, 2013
2. Paull EO, Carlin DE, Niepel M, Sorger PK, Haussler D, Stuart JM
Metrics other than potency reveal systematic variation in responses to cancer drugs.
1. Nat Chem Biol - published November 1, 2013
2. Fallahi-Sichani M, Honarnejad S, Heiser LM, Gray JW, Sorger PK
Complexes of Trypanosoma cruzi sterol 14α-demethylase (CYP51) with two pyridine-based drug candidates for Chagas disease: structural basis for pathogen selectivity.
1. J Biol Chem - published November 1, 2013
2. Hargrove TY, Wawrzak Z, Alexander PW, Chaplin JH, Keenan M, Charman SA, Perez CJ, Waterman MR, Chatelain E, Lepesheva GI
Xeroderma pigmentosum complementation group C protein (XPC) serves as a general sensor of damaged DNA.
1. DNA Repair (Amst) - published November 1, 2013
2. Shell SM, Hawkins EK, Tsai MS, Hlaing AS, Rizzo CJ, Chazin WJ
Exploring the molecular determinants of substrate-selective inhibition of cyclooxygenase-2 by lumiracoxib.
1. Bioorg Med Chem Lett - published November 1, 2013
2. LJ Marnett, S Banerjee, S Xu, PL Valk, MA Windsor
Cetuximab response of lung cancer-derived EGF receptor mutants is associated with asymmetric dimerization.
1. Cancer Res - published November 1, 2013
2. Cho J, Chen L, Sangji N, Okabe T, Yonesaka K, Francis JM, Flavin RJ, Johnson W, Kwon J, Yu S, Greulich H, Johnson BE, Eck MJ, Jänne PA, Wong KK, Meyerson M
Promiscuous RNA binding by Polycomb repressive complex 2.
1. Nat Struct Mol Biol - published November 1, 2013
2. Davidovich C, Zheng L, Goodrich KJ, Cech TR
Discovery of VU0409106: A negative allosteric modulator of mGlu5 with activity in a mouse model of anxiety.
1. Bioorg Med Chem Lett - published November 1, 2013
2. KA Emmitte, CW Lindsley, PJ Conn, CK Jones, CM Niswender, JS Daniels, FW Byers, AL Blobaum, BS Bates, JT Manka, DF Venable, RD Morrison, AL Rodriguez, AS Felts
Strategic addition of an N-linked glycan to a monoclonal antibody improves its HIV-1-neutralizing activity.
1. Nat Biotechnol - published November 1, 2013
2. Song R, Oren DA, Franco D, Seaman MS, Ho DD
Cholesterol: fa(s)t-food for enterovirus genome replication.
1. Trends Microbiol - published November 1, 2013
2. Strating JR, van der Schaar HM, van Kuppeveld FJ
Amplitudes and time scales of picosecond-to-microsecond motion in proteins studied by solid-state NMR: a critical evaluation of experimental approaches and application to crystalline ubiquitin.
1. J Biomol NMR - published November 1, 2013
2. Haller JD, Schanda P
MAIT recognition of a stimulatory bacterial antigen bound to MR1.
1. J Immunol - published November 1, 2013
2. López-Sagaseta J, Dulberger CL, McFedries A, Cushman M, Saghatelian A, Adams EJ
Structural and biochemical characterization of a bifunctional ketoisomerase/N-acetyltransferase from Shewanella denitrificans.
1. Biochemistry - published November 1, 2013
2. Chantigian DP, Thoden JB, Holden HM
Inhibitory signalling to the Arp2/3 complex steers cell migration.
1. Nature - published November 1, 2013
2. Dang I, Gorelik R, Sousa-Blin C, Derivery E, Guérin C, Linkner J, Nemethova M, Dumortier JG, Giger FA, Chipysheva TA, Ermilova VD, Vacher S, Campanacci V, Herrada I, Planson AG, Fetics S, Henriot V, David V, Oguievetskaia K, Lakisic G, Pierre F, Steffen A, Boyreau A, Peyriéras N, Rottner K, Zinn-Justin S, Cherfils J, Bièche I, Alexandrova AY, David NB, Small JV, Faix J, Blanchoin L, Gautreau A
New 7-methylguanine derivatives targeting the influenza polymerase PB2 cap-binding domain.
1. J Med Chem - published November 1, 2013
2. Pautus S, Sehr P, Lewis J, Fortuné A, Wolkerstorfer A, Szolar O, Guilligay D, Lunardi T, Décout JL, Cusack S
Genome engineering using the CRISPR-Cas9 system.
1. Nat Protoc - published November 1, 2013
2. Ran FA, Hsu PD, Wright J, Agarwala V, Scott DA, Zhang F
Structures of intermediate transport states of ZneA, a Zn(II)/proton antiporter.
1. Proc Natl Acad Sci U S A - published November 1, 2013
2. Pak JE, Ekendé EN, Kifle EG, O'Connell JD 3rd, De Angelis F, Tessema MB, Derfoufi KM, Robles-Colmenares Y, Robbins RA, Goormaghtigh E, Vandenbussche G, Stroud RM
Creating opportunities for science PhDs to pursue careers in high school education.
1. Mol Biol Cell - published November 1, 2013
2. Doyle KM, Vale RD
Structure-based design of a fusion glycoprotein vaccine for respiratory syncytial virus.
1. Science - published November 1, 2013
2. PD Kwong, BS Graham, S Rao, JP Todd, SY Ko, N Xia, Z Zheng, T Beaumont, H Spits, AQ Bakker, U Baxa, C Soto, GY Chuang, JC Boyington, S Moin, A Kumar, KW Graepel, T Zhou, A Zheng, S Srivatsan, L Chen, B Zhang, Y Yang, GB Stewart-Jones, M Sastry, MG Joyce, M Chen, JS McLellan
Applications of molecular replacement to G protein-coupled receptors.
1. Acta Crystallogr D Biol Crystallogr - published November 1, 2013
2. Kruse AC, Manglik A, Kobilka BK, Weis WI
Solving nucleic acid structures by molecular replacement: examples from group II intron studies.
1. Acta Crystallogr D Biol Crystallogr - published November 1, 2013
2. Marcia M, Humphris-Narayanan E, Keating KS, Somarowthu S, Rajashankar K, Pyle AM
Purification, crystallization and preliminary crystallographic analysis of the globular domain of the human type V myosin Myo5a.
1. Acta Crystallogr Sect F Struct Biol Cryst Commun - published November 1, 2013
2. Velvarska H, Niessing D
RNA catalyses nuclear pre-mRNA splicing.
1. Nature - published November 1, 2013
2. Fica SM, Tuttle N, Novak T, Li NS, Lu J, Koodathingal P, Dai Q, Staley JP, Piccirilli JA
Modeling virus- and antibody-specific factors to predict human immunodeficiency virus neutralization efficiency.
1. Cell Host Microbe - published November 1, 2013
2. Haim H, Salas I, McGee K, Eichelberger N, Winter E, Pacheco B, Sodroski J
Efficient Computation of Small-Molecule Configurational Binding Entropy and Free Energy Changes by Ensemble Enumeration.
1. J Chem Theory Comput - published November 1, 2013
2. Silver NW, King BM, Nalam MN, Cao H, Ali A, Kiran Kumar Reddy GS, Rana TM, Schiffer CA, Tidor B
Protein interaction network of the mammalian Hippo pathway reveals mechanisms of kinase-phosphatase interactions.
1. Sci Signal - published November 1, 2013
2. Couzens AL, Knight JD, Kean MJ, Teo G, Weiss A, Dunham WH, Lin ZY, Bagshaw RD, Sicheri F, Pawson T, Wrana JL, Choi H, Gingras AC
Three-dimensional electron crystallography of protein microcrystals.
1. Elife - published November 1, 2013
2. Shi D, Nannenga BL, Iadanza MG, Gonen T
Gently does it for submicron crystals.
1. Elife - published November 1, 2013
2. Zeldin OB, Brunger AT
The potent and broadly neutralizing human dengue virus-specific monoclonal antibody 1C19 reveals a unique cross-reactive epitope on the bc loop of domain II of the envelope protein.
1. mBio - published November 1, 2013
2. Smith SA, de Alwis AR, Kose N, Harris E, Ibarra KD, Kahle KM, Pfaff JM, Xiang X, Doranz BJ, de Silva AM, Austin SK, Sukupolvi-Petty S, Diamond MS, Crowe JE Jr