Research Topics
Species | Elaine C MengSummaryAffiliation: University of California Country: USA Publications
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Detail Information
Publications
Tools for integrated sequence-structure analysis with UCSF ChimeraElaine C Meng
Computer Graphics Laboratory, University of California San Francisco, 600 16th Street, San Francisco, CA 94143 2440, USA
BMC Bioinformatics 7:339. 2006..and (d) interoperate with each other and with a full complement of molecular graphics features. We describe enhancements to UCSF Chimera to achieve these goals...- The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouseAlex S Nord
University of California San Francisco, 600 16th Street, San Francisco, CA 94143-2240, USA
Nucleic Acids Res 34:D642-8. 2006.... - UCSF Chimera, MODELLER, and IMP: an integrated modeling systemZheng Yang
Resource for Biocomputing, Visualization, and Informatics, Department of Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA 94158, USA
J Struct Biol 179:269-78. 2012.... 
UCSF Chimera--a visualization system for exploratory research and analysisEric F Pettersen
Computer Graphics Laboratory, Department of Pharmaceutical Chemistry, University of California, 600 16th Street, San Francisco, California 94143-2240, USA
J Comput Chem 25:1605-12. 2004..Chimera includes full user documentation, is free to academic and nonprofit users, and is available for Microsoft Windows, Linux, Apple Mac OS X, SGI IRIX, and HP Tru64 Unix from http://www.cgl.ucsf.edu/chimera/...- Topological variation in the evolution of new reactions in functionally diverse enzyme superfamiliesElaine C Meng
Department of Pharmaceutical Chemistry, University of California, 600 16th Street, San Francisco, CA 94158 2517, USA
Curr Opin Struct Biol 21:391-7. 2011.... - Leveraging enzyme structure-function relationships for functional inference and experimental design: the structure-function linkage databaseScott C-H Pegg
Department of Biopharmaceutical Sciences, University of California, San Francisco, 1700 Fourth Street, San Francisco, California 94143-2250, USA
Biochemistry 45:2545-55. 2006..The SFLD is freely accessible at http://sfld.rbvi.ucsf.edu... - Computational tools for the interactive exploration of proteomic and structural dataJohn H Morris
Resource for Biocomputing, Visualization, and Informatics, Department of Pharmaceutical Chemistry, University of California, San Francisco, California 94158 2517, USA
Mol Cell Proteomics 9:1703-15. 2010..We briefly describe several relevant tools, and then, using three scenarios, we present in depth two tools for the integrated exploration of proteomics and structural data... - The Structure Superposition DatabaseRanyee A Chiang
Department of Biopharmaceutical Sciences, University of California San Francisco, 513 Parnassus Avenue, San Francisco, CA 94143, USA
Nucleic Acids Res 31:505-10. 2003..Features of the user interface module facilitate viewing multiple superpositions together. The SSD interface module can be downloaded from http://ssd.rbvi.ucsf.edu... - Evolution of function in the "two dinucleotide binding domains" flavoproteinsSunil Ojha
Department of Biopharmaceutical Sciences, University of California San Francisco, San Francisco, California, USA
PLoS Comput Biol 3:e121. 2007..Overlaid on this foundation of conserved interactions, nature has conscripted different protein partners to serve as electron acceptors, thereby generating diversification of function across the superfamily... - DOCK 6: combining techniques to model RNA-small molecule complexesP Therese Lang
Graduate Program in Chemistry and Chemical Biology, University of California, San Francisco, California 94143, USA
RNA 15:1219-30. 2009..In addition, in the course of the study, we explore a variety of newly added DOCK functions, demonstrating the ease with which new functions can be added to address new scientific questions... - Constitutive activation and endocytosis of the complement factor 5a receptor: evidence for multiple activated conformations of a G protein-coupled receptorJennifer L Whistler
Ernest Gallo Clinic and Research Center, Department of Neurology, University of California, San Francisco, Emeryville, California, USA
Traffic 3:866-77. 2002..Dissociation of two responses normally dependent on agonist binding indicates that the corresponding functions of an activated GPCR reflect different sets of changes in the receptor's conformation... - BayGenomics: a resource of insertional mutations in mouse embryonic stem cellsDoug Stryke
Department of Pharmaceutical Chemistry, University of California San Francisco, 513 Parnassus Avenue, San Francisco, CA 94143, USA
Nucleic Acids Res 31:278-81. 2003..They can then obtain the mutant ES cell line for the purpose of generating knockout mice... - Superfamily active site templatesElaine C Meng
Department of Pharmaceutical Chemistry, University of California, Genentech Hall, 600 Sixteenth Street, San Francisco, CA 94143-2240, USA
Proteins 55:962-76. 2004.... - Apolipoprotein (apo) E4 enhances amyloid beta peptide production in cultured neuronal cells: apoE structure as a potential therapeutic targetShiming Ye
Gladstone Institute of Neurological Disease, 1650 Owens Street, San Francisco, CA 94158, USA
Proc Natl Acad Sci U S A 102:18700-5. 2005..These findings provide insights into why apoE4 is associated with increased risk for Alzheimer's disease and may represent a potential target for drug development... - Evolutionary trace of G protein-coupled receptors reveals clusters of residues that determine global and class-specific functionsSrinivasan Madabushi
Program in Structural and Computational Biology and Molecular Biophysics, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
J Biol Chem 279:8126-32. 2004..These results define in GPCRs a canonical signal transduction mechanism where ligand binding induces conformational changes propagated through adjacent trigger, linking core, and coupling regions...