Member Publications

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72 Member Publications for July 2013

Structure and function of endoplasmic reticulum STIM calcium sensors.
1. Curr Top Membr - published July 30, 2013
2. Stathopulos PB, Ikura M
STIM-ORAI interactions that control the CRAC channel.
1. Curr Top Membr - published July 30, 2013
2. Gudlur A, Zhou Y, Hogan PG
Inhibition of histone deacetylase 3 causes replication stress in cutaneous T cell lymphoma.
1. PLoS One - published July 30, 2013
2. Wells CE, Bhaskara S, Stengel KR, Zhao Y, Sirbu B, Chagot B, Cortez D, Khabele D, Chazin WJ, Cooper A, Jacques V, Rusche J, Eischen CM, McGirt LY, Hiebert SW
Mcm10 self-association is mediated by an N-terminal coiled-coil domain.
1. PLoS One - published July 30, 2013
2. Du W, Josephrajan A, Adhikary S, Bowles T, Bielinsky AK, Eichman BF
Molecular architecture of the uncleaved HIV-1 envelope glycoprotein trimer.
1. Proc Natl Acad Sci U S A - published July 23, 2013
2. JG Sodroski, SH Xiang, A Finzi, A Désormeaux, A Herschhorn, C Gu, L Wang, Y Mao
Purification of Arp2/3 complex from Saccharomyces cerevisiae.
1. Methods Mol Biol - published July 23, 2013
2. Doolittle LK, Rosen MK, Padrick SB
Measurement and analysis of in vitro actin polymerization.
1. Methods Mol Biol - published July 23, 2013
2. Doolittle LK, Rosen MK, Padrick SB
In vitro microtubule severing assays.
1. Methods Mol Biol - published July 23, 2013
2. Ziółkowska NE, Roll-Mecak A
Purification of native Arp2/3 complex from bovine thymus.
1. Methods Mol Biol - published July 23, 2013
2. Doolittle LK, Rosen MK, Padrick SB
Regulatory interplay between TFIID's conformational transitions and its modular interaction with core promoter DNA.
1. Transcription - published July 19, 2013
2. Cianfrocco MA, Nogales E
Non-vesicular trafficking by a ceramide-1-phosphate transfer protein regulates eicosanoids.
1. Nature - published July 17, 2013
2. DJ Patel, RE Brown, CE Chalfant, EH Hinchcliffe, L Malinina, JG Molotkovsky, SK Mishra, X Zhai, X Zou, DS Wijesinghe, RK Kamlekar, DK Simanshu
Quantification of mitochondrial acetylation dynamics highlights prominent sites of metabolic regulation.
1. J Biol Chem - published July 17, 2013
2. DJ Pagliarini, JJ Coon, AD Attie, JM Denu, MS Westphall, MP Keller, DS Stapleton, KE Dittenhafer-Reed, PA Grimsrud, BK Dolan, DR Gunderson, JJ Carson, CA Bingman, AS Hebert, BJ Floyd, AJ Still
Tetherin/BST-2 antagonism by Nef depends on a direct physical interaction between Nef and tetherin, and on clathrin-mediated endocytosis.
1. PLoS Pathog - published July 16, 2013
2. Serra-Moreno R, Zimmermann K, Stern LJ, Evans DT
Small molecules inhibit the interaction of Nrf2 and the Keap1 Kelch domain through a non-covalent mechanism.
1. Bioorg Med Chem - published July 15, 2013
2. L Silvian, M Lukashev, J Chao, V Hong, D Winkler, J Kraemer, V Vivat, M Vecchi, D Roecklin, C Atmanene, D Wang, H Cuervo, I Enyedy, A Lugovskoy, C Bergeron, P Jin, C Hession, A McKenzie, JC Hus, W Zeng, D Marcotte
Optimized E. coli expression strain LOBSTR eliminates common contaminants from His-tag purification.
1. Proteins - published July 15, 2013
2. TU Schwartz, NC Leksa, KR Andersen
Experimental analysis of co-evolution within protein complexes: The yeast exosome as a model.
1. Proteins - published July 15, 2013
2. A Aharoni, O Medalia, I Sandler
Structure and function of CarD, an essential mycobacterial transcription factor.
1. Proc Natl Acad Sci U S A - published July 15, 2013
2. EA Campbell, CL Stallings, SA Darst, R Landick, MS Glickman, LF Westblade, LA Weiss, AL Garner, J Osmundson, K Leon, DB Srivastava
The crystal structure of the eukaryotic 40S ribosomal subunit in complex with eIF1 and eIF1A.
1. Nat Struct Mol Biol - published July 14, 2013
2. N Ban, M Leibundgut, J Rabl, F Voigts-Hoffmann, M Weisser
Assessment and challenges of ligand docking into comparative models of G-protein coupled receptors.
1. PLoS One - published July 12, 2013
2. Nguyen ED, Norn C, Frimurer TM, Meiler J
Does bromodomain flexibility influence histone recognition?
1. FEBS Lett - published July 11, 2013
2. D Huang, A Magno, S Steiner, A Caflisch
Towards ligand docking including explicit interface water molecules.
1. PLoS One - published July 11, 2013
2. Lemmon G, Meiler J
The sequence signature of an Ig-fold.
1. Protein Cell - published July 11, 2013
2. JH Wang
Conformational Flexibility and Structural Dynamics in GPCR-Mediated G Protein Activation: A Perspective.
1. J Mol Biol - published July 10, 2013
2. HE Hamm, J Meiler, AM Preininger
Removal of N-Alkyl Modifications from N²-Alkylguanine and N⁴-Alkylcytosine in DNA by the Adaptive Response Protein AlkB.
1. Chem Res Toxicol - published July 10, 2013
2. JM Essigmann, CL Drennan, C Wong, X Yang, JC Delaney, N Shrivastav, BI Fedeles, D Li
Residue-Level Prediction of HIV-1 Antibody Epitopes Based on Neutralization of Diverse Viral Strains.
1. J Virol - published July 10, 2013
2. IS Georgiev, PD Kwong, JR Mascola, MC Nussenzweig, NA Doria-Rose, RT Bailer, M Pancera, YD Kwon, T Zhou, MK Louder, Y Yang, SD Schmidt, P Acharya, GY Chuang
Heavy chain-only IgG2b-llama antibody effects near-pan HIV-1 neutralization by recognizing a CD4-induced epitope that includes elements of both CD4- and co-receptor-binding sites.
1. J Virol - published July 10, 2013
2. PD Kwong, JR Mascola, L Martin, P Chames, D Baty, L Chen, S O'Dell, K McKee, Y Yang, P Kessler, MK Louder, SD Schmidt, J Matz, I Georgiev, T Luongo, P Acharya, IS Georgiev, TS Luongo
The role of integrin-linked kinase in the molecular architecture of focal adhesions.
1. J Cell Sci - published July 10, 2013
2. O Medalia, B Geiger, R Fässler, JP Spatz, C Grashoff, V Hirschfeld-Warneken, I Patla, T Volberg, N Elad
Structure of the human cohesin inhibitor Wapl.
1. Proc Natl Acad Sci U S A - published July 9, 2013
2. H Yu, S Rankin, DR Tomchick, CA Brautigam, Z Otwinowski, DM Borek, J Song, G Zheng, Z Ouyang
Dynamic Equilibria between Monomeric and Oligomeric Misfolded States of the Mammalian Prion Protein Measured by ¹⁹F NMR.
1. J Am Chem Soc - published July 9, 2013
2. RS Prosser, S Sharpe, MS Al-Abdul-Wahid, K Simonetti, ST Larda
Enthalpy-Entropy Compensation in Biomolecular Halogen Bonds Measured in DNA Junctions.
1. Biochemistry - published July 9, 2013
2. PS Ho, LC Sowers, B Rummel, MR Scholfield, AR Voth, M Carter
Cracking the code of human T-cell immunity.
1. Nat Biotechnol - published July 9, 2013
2. KW Wucherpfennig, CJ Harvey
Multiplexed Illumina sequencing libraries from picogram quantities of DNA.
1. BMC Genomics - published July 9, 2013
2. RE Kingston, ML Borowsky, M Tolstorukov, AM Deaton, MD Simon, SE Bowman
Phosphorylation-mediated PTEN conformational closure and deactivation revealed with protein semisynthesis.
1. Elife - published July 9, 2013
2. Bolduc D, Rahdar M, Tu-Sekine B, Sivakumaren SC, Raben D, Amzel LM, Devreotes P, Gabelli SB, Cole P
Specificity of intersubunit general anesthetic-binding sites in the transmembrane domain of the human α1β3γ2 γ-aminobutyric acid type A (GABAA) receptor.
1. J Biol Chem - published July 5, 2013
2. Chiara DC, Jayakar SS, Zhou X, Zhang X, Savechenkov PY, Bruzik KS, Miller KW, Cohen JB
Binding of the CYK-4 subunit of the centralspindlin complex induces a large scale conformational change in the kinesin subunit.
1. J Biol Chem - published July 5, 2013
2. White EA, Raghuraman H, Perozo E, Glotzer M
Engineered SIRPα variants as immunotherapeutic adjuvants to anticancer antibodies.
1. Science - published July 5, 2013
2. Weiskopf K, Ring AM, Ho CC, Volkmer JP, Levin AM, Volkmer AK, Ozkan E, Fernhoff NB, van de Rijn M, Weissman IL, Garcia KC
Structural basis for alternating access of a eukaryotic calcium/proton exchanger.
1. Nature - published July 4, 2013
2. Waight AB, Pedersen BP, Schlessinger A, Bonomi M, Chau BH, Roe-Zurz Z, Risenmay AJ, Sali A, Stroud RM
53BP1 is a reader of the DNA-damage-induced H2A Lys 15 ubiquitin mark.
1. Nature - published July 4, 2013
2. Fradet-Turcotte A, Canny MD, Escribano-Díaz C, Orthwein A, Leung CC, Huang H, Landry MC, Kitevski-LeBlanc J, Noordermeer SM, Sicheri F, Durocher D
An extracellular interactome of immunoglobulin and LRR proteins reveals receptor-ligand networks.
1. Cell - published July 3, 2013
2. Özkan E, Carrillo RA, Eastman CL, Weiszmann R, Waghray D, Johnson KG, Zinn K, Celniker SE, Garcia KC
Competition between homodimerization and cholesterol binding to the C99 domain of the amyloid precursor protein.
1. Biochemistry - published July 3, 2013
2. Song Y, Hustedt EJ, Brandon S, Sanders CR
Structural analysis of autoinhibition in the Ras-specific exchange factor RasGRP1.
1. Elife - published July 3, 2013
2. Iwig JS, Vercoulen Y, Das R, Barros T, Limnander A, Che Y, Pelton JG, Wemmer DE, Roose JP, Kuriyan J
Tubulin tyrosine ligase and stathmin compete for tubulin binding in vitro.
1. J Mol Biol - published July 2, 2013
2. Szyk A, Piszczek G, Roll-Mecak A
BCL::MP-fold: folding membrane proteins through assembly of transmembrane helices.
1. Structure - published July 2, 2013
2. Weiner BE, Woetzel N, Karakaş M, Alexander N, Meiler J
MIF intersubunit disulfide mutant antagonist supports activation of CD74 by endogenous MIF trimer at physiologic concentrations.
1. Proc Natl Acad Sci U S A - published July 2, 2013
2. Fan C, Rajasekaran D, Syed MA, Leng L, Loria JP, Bhandari V, Bucala R, Lolis EJ
structural Studies of Wnts and identification of an LRP6 binding site.
1. Structure - published July 2, 2013
2. Chu ML, Ahn VE, Choi HJ, Daniels DL, Nusse R, Weis WI
Gold nanorod vaccine for respiratory syncytial virus.
1. Nanotechnology - published July 2, 2013
2. Stone JW, Thornburg NJ, Blum DL, Kuhn SJ, Wright DW, Crowe JE Jr
Isolated pseudo-RNA-recognition motifs of SR proteins can regulate splicing using a noncanonical mode of RNA recognition.
1. Proc Natl Acad Sci U S A - published July 2, 2013
2. Cléry A, Sinha R, Anczuków O, Corrionero A, Moursy A, Daubner GM, Valcárcel J, Krainer AR, Allain FH
Acetylphosphate: a novel link between lysine acetylation and intermediary metabolism in bacteria.
1. Mol Cell - published July 2, 2013
2. Verdin E, Ott M
Multimodal interaction with BCL-2 family proteins underlies the proapoptotic activity of PUMA BH3.
1. Chem Biol - published July 2, 2013
2. Edwards AL, Gavathiotis E, LaBelle JL, Braun CR, Opoku-Nsiah KA, Bird GH, Walensky LD
The structure of DesR from Streptomyces venezuelae, a β-glucosidase involved in macrolide activation.
1. Protein Sci - published July 1, 2013
2. Zmudka MW, Thoden JB, Holden HM
Evaluating the role of macrocycles in the susceptibility of hepatitis C virus NS3/4A protease inhibitors to drug resistance.
1. ACS Chem Biol - published July 1, 2013
2. Ali A, Aydin C, Gildemeister R, Romano KP, Cao H, Ozen A, Soumana D, Newton A, Petropoulos CJ, Huang W, Schiffer CA
Virus-specific effects of TRIM5α(rh) RING domain functions on restriction of retroviruses.
1. J Virol - published July 1, 2013
2. Li X, Kim J, Song B, Finzi A, Pacheco B, Sodroski J
The challenge of determining handedness in electron tomography and the use of DNA origami gold nanoparticle helices as molecular standards.
1. J Struct Biol - published July 1, 2013
2. Briegel A, Pilhofer M, Mastronarde DN, Jensen GJ
Cells surviving fractional killing by TRAIL exhibit transient but sustainable resistance and inflammatory phenotypes.
1. Mol Biol Cell - published July 1, 2013
2. Flusberg DA, Roux J, Spencer SL, Sorger PK
Structural basis for diverse N-glycan recognition by HIV-1-neutralizing V1-V2-directed antibody PG16.
1. Nat Struct Mol Biol - published July 1, 2013
2. Pancera M, Shahzad-Ul-Hussan S, Doria-Rose NA, McLellan JS, Bailer RT, Dai K, Loesgen S, Louder MK, Staupe RP, Yang Y, Zhang B, Parks R, Eudailey J, Lloyd KE, Blinn J, Alam SM, Haynes BF, Amin MN, Wang LX, Burton DR, Koff WC, Nabel GJ, Mascola JR, Bewley CA, Kwong PD
Development and binding mode assessment of N-[4-[2-propyn-1-yl[(6S)-4,6,7,8-tetrahydro-2-(hydroxymethyl)-4-oxo-3H-cyclopenta[g]quinazolin-6-yl]amino]benzoyl]-l-γ-glutamyl-D-glutamic acid (BGC 945), a novel thymidylate synthase inhibitor that targets tumor cells.
1. J Med Chem - published July 1, 2013
2. Tochowicz A, Dalziel S, Eidam O, O'Connell JD 3rd, Griner S, Finer-Moore JS, Stroud RM
The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals.
1. Nat Struct Mol Biol - published July 1, 2013
2. Watson LC, Kuchenbecker KM, Schiller BJ, Gross JD, Pufall MA, Yamamoto KR
From lamins to lamina: a structural perspective.
1. Histochem Cell Biol - published July 1, 2013
2. Zwerger M, Medalia O
Structural mimicry in transcription regulation of human RNA polymerase II by the DNA helicase RECQL5.
1. Nat Struct Mol Biol - published July 1, 2013
2. Kassube SA, Jinek M, Fang J, Tsutakawa S, Nogales E
Structure of the Ca2+-dependent PP2A heterotrimer and insights into Cdc6 dephosphorylation.
1. Cell Res - published July 1, 2013
2. Wlodarchak N, Guo F, Satyshur KA, Jiang L, Jeffrey PD, Sun T, Stanevich V, Mumby MC, Xing Y
An siRNA screen for NFAT activation identifies septins as coordinators of store-operated Ca2+ entry.
1. Nature - published July 1, 2013
2. Sharma S, Quintana A, Findlay GM, Mettlen M, Baust B, Jain M, Nilsson R, Rao A, Hogan PG
Decision making in xia2.
1. Acta Crystallogr D Biol Crystallogr - published July 1, 2013
2. Winter G, Lobley CM, Prince SM
The use of a mini-κ goniometer head in macromolecular crystallography diffraction experiments.
1. Acta Crystallogr D Biol Crystallogr - published July 1, 2013
2. Brockhauser S, Ravelli RB, McCarthy AA
Building a better stop sign: understanding the signals that terminate transcription.
1. Nat Methods - published July 1, 2013
2. Mooney RA, Landick R
Kinetic response of a photoperturbed allosteric protein.
1. Proc Natl Acad Sci U S A - published July 1, 2013
2. Buchli B, Waldauer SA, Walser R, Donten ML, Pfister R, Blöchliger N, Steiner S, Caflisch A, Zerbe O, Hamm P
High-resolution structure of the Tiam1 PHn-CC-Ex domain.
1. Acta Crystallogr Sect F Struct Biol Cryst Commun - published July 1, 2013
2. Joshi M, Gakhar L, Fuentes EJ
Crystallization reports are the backbone of Acta Cryst. F, but do they have any spine?
1. Acta Crystallogr Sect F Struct Biol Cryst Commun - published July 1, 2013
2. Newman J, Burton DR, Caria S, Desbois S, Gee CL, Fazio VJ, Kvansakul M, Marshall B, Mills G, Richter V, Seabrook SA, Wu M, Peat TS
Marking and measuring single microtubules by PRC1 and kinesin-4.
1. Cell - published July 1, 2013
2. Subramanian R, Ti SC, Tan L, Darst SA, Kapoor TM
Simplified protein models: predicting folding pathways and structure using amino acid sequences.
1. Phys Rev Lett - published July 1, 2013
2. Adhikari AN, Freed KF, Sosnick TR
Discovery of Protein-Protein Interaction Inhibitors of Replication Protein A.
1. ACS Med Chem Lett - published July 1, 2013
2. Patrone JD, Kennedy JP, Frank AO, Feldkamp MD, Vangamudi B, Pelz NF, Rossanese OW, Waterson AG, Chazin WJ, Fesik SW
Study of the one dimensional and transient bioheat transfer equation: multi-layer solution development and applications.
1. Int J Heat Mass Transf - published July 1, 2013
2. Rodrigues DB, Pereira PJ, Limão-Vieira P, Stauffer PR, Maccarini PF
The SAS-5 N-terminal domain is a tetramer, with implications for centriole assembly in C. elegans.
1. Worm - published July 1, 2013
2. Shimanovskaya E, Qiao R, Lesigang J, Dong G