UNIVERSITY OF CALIFORNIA, SAN DIEGO

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6 CALIFORNIA, SAN DIEGO E. L. O’Dea, D. Barken, R. Q. Peralta, K. T. Tran, S. L. Benjamin T. Andrews, Shachi Gosavi, John M. Finke, Jose makrishnan, Structures of tRNAs with an expanded antico- Werner, J. D. Kearns, A. Levchenko and A. Hoffmann, A ho- N. Onuchic and Patricia A. Jennings, The dual-basin land- don loop in the decoding center of the 30S ribosomal subunit, meostatic model of IkappaB metabolism to control constitu- scape in GFP folding, Proc. Natl. Acad. Sci. U. S. A, 105, RNA, 13, 817-823 (2007). tive activity, Molecular Systems Biology, 3, 111 (2007). 12283-12288 (2008). Lucia Garcia-Ortega, Jenise Stephen and Simpson Joseph, Soumen Basak and Alexander Hoffmann, Crosstalk via the Dominique T. Capraro, Melinda Roy, Jose N. Onuchic and Precise alignment of peptidyl tRNA by the decoding center is NF-�B signaling system, Cytokine Growth Factor Rev, 19, Patricia A. Jennings, Backtracking on the folding landscape essential for EF-G-dependent translocation, Mol. Cell, 32, 187-197 (2008). of the �-trefoil protein interleukin-1�?, Proc. Natl. Acad. Sci. 292-299 (2008). Erika Mathes, Ellen L. O’Dea, Alexander Hoffmann and U. S. A, 105, 14844-14848 (2008). Gourisankar Ghosh, NF-�B dictates the degradation pathway Shachi Gosavi, Paul C. Whitford, Patricia A. Jennings and J. S. Feinberg, Interactions between the acceptor arm of of I�B�, EMBO J, 27, 1357-1367 (2008). Jose N. Onuchic, Extracting function from a �-trefoil folding tRNA and the large subunit of the bacterial ribosome impor- Tomohisa Kato, Jr., Yusuke Gotoh, Alexander Hoffmann motif. [Erratum to document cited in CA149:240950], Proc. tant for translocation. (D) and Yoshitaka Ono, Negative regulation of constitutive NF- Natl. Acad. Sci. U. S. A, 105, 16057 (2008). S. M. Studer, MRNA interaction with the bacterial ribo- �B and JNK signaling by PKN1-mediated phosphorylation some during initiation and translocation. (D) of TRAF1, Genes Cells, 13, 509-520 (2008). Christine S. Cheng, Tracy L. Johnson and Alexander Hoffmann, Epigenetic control: slow and global, nimble and local, Genes Dev, 22, 1110-1114 (2008). Shannon L. Werner, Jeffrey D. Kearns, Victoria Zadorozhnaya, Candace Lynch, Ellen O’Dea, Mark P. Boldin, Averil Ma, David Baltimore and Alexander Hoffmann, Encoding NF-�B temporal control in response to TNF: distinct roles for the negative regulators I�B� and A20, Genes Dev, 22, 2093-2101 (2008). Amanda J. Fusco, Olga V. Savinova, Rashmi Talwar, Jeffrey D. Kearns, Alexander Hoffmann and Gourisankar Ghosh, Stabilization of RelB Requires Multidomain Interactions with p100/p52, J. Biol. Chem, 283, 12324-12332 (2008). Irene L. Ch’en, Stephen M. Hedrick and Alexander Hoffmann, NF-�B as a determinant of distinct cell death pathways, Methods Enzymol, 446, 175-187 (2008). Ellen L. O’Dea, Jeffrey D. Kearns and Alexander Hoffmann, UV as an amplifier rather than inducer of NF-�B activity, Mol. Cell, 30, 632-641 (2008). Soumen Basak, Vincent Feng-Sheng Shih and Alexander Hoffmann, Generation and activation of multiple dimeric transcription factors within the NF-�B signaling system, Mol. Cell. Biol, 28, 3139-3150 (2008). Irene L. Ch’en, Daniel R. Beisner, Alexei Degterev, Candace Lynch, Junying Yuan, Alexander Hoffmann and Stephen M. Hedrick, Antigen-mediated T cell expansion regulated by parallel pathways of death, Proc. Natl. Acad. Sci. U. S. A, 105, 17463-17468 (2008). James Lee, Regulation of the ISRE by NFkB: A novel role for the P50 homodimer. (M) D. Barken, Temporal encoding and homeostatic control in the IKK-IkB-NFkB signaling system. (D) JENNINGS, PATRICIA A. (b.1962) Professor. B.S, 1985, Rutgers University; Ph.D, 1991, Pennsylvania State University. Postdoctoral Research Fellowship, 1991-1993, Scripps Research Institute. Biochemistry; NMR Spectroscopy. Biophysical chemistry: protein structure, function, dynamics and folding; multinuclear (1H, 15N, 13C, 2H)-multidimensional (2, 3 and 4D) NMR spectroscopy; cloning and site-specific mutagenesis by PCR; equilibrium and kinetic-fluorescence, UVabsorbance. TEL: (858) 534-6417 FAX: (858) 534-7042 Web: www.chem/Faculty/Research_txt/jennings.html Email: pajennin@ucsd.edu pajennings@ucsd.edu Publication list has not been verified by the department. John M. Finke, Patricia A. Jennings, Jennifer C. Lee, Jose N. Onuchic and Jay R. Winkler, Equilibrium unfolding of the poly(glutamic acid)20 helix, Biopolymers, 86, 193-211 (2007). Sandra E. Wiley, Mark L. Paddock, Edward C. Abresch, Larry Gross, Peter van der Geer, Rachel Nechushtai, Anne N. Murphy, Patricia A. Jennings and Jack E. Dixon, The outer mitochondrial membrane protein mitoNEET contains a novel redox-active 2Fe-2S cluster, J. Biol. Chem, 282, 23745- 23749 (2007). Jamie E. Mills, Paul C. Whitford, Jennifer Shaffer, Jose N. Onuchic, Joseph A. Adams and Patricia A. Jennings, A Novel Disulfide Bond in the SH2 Domain of the C-terminal Src Kinase Controls Catalytic Activity, J. Mol. Biol, 365, 1460- 1468 (2007). Benjamin T. Andrews, Andrea R. Schoenfish, Melinda Roy, Geoffrey Waldo and Patricia A. Jennings, The Rough Energy Landscape of Superfolder GFP Is Linked to the Chromophore, J. Mol. Biol, 373, 476-490 (2007). Mark L. Paddock, Sandra E. Wiley, Herbert L. Axelrod, Aina E. Cohen, Melinda Roy, Edward C. Abresch, Domi- nique Capraro, Anne N. Murphy, Rachel Nechushtai, Jack E. Dixon and Patricia A. Jennings, MitoNEET is a uniquely folded 2Fe-2S outer mitochondrial membrane protein stabilized by pioglitazone, Proc. Natl. Acad. Sci. U. S. A, 104, 14342-14347 (2007). Jonathan C. Hagopian, Chen-Ting Ma, Bryan R. Meade, Claudio P. Albuquerque, Jacky Chi Ki Ngo, Gourisankar Ghosh, Patricia A. Jennings, Xiang-Dong Fu and Joseph A. Adams, Adaptable Molecular Interactions Guide Phosphorylation of the SR Protein ASF/SF2 by SRPK1, J. Mol. Biol, JOHNSON, JOHN E. (b.1945) Professor. B.A, 1967, Carthage College, Kenosha, WI; Ph.D, 1972, Iowa State University, Ames, Iowa. National Cancer Institute Fellowship, 1974-1976, Purdue University; NATO Travel Fellowship, 1978, Purdue Unversity; Travel Fellowship, 2000, Japanese Society for the Promotion of Science; Travel Fellowship, 2001, Taiwan National Science Committee. TEL: (858) 784-9705 FAX: (858) 784-8660 Web: www.noda.scripps.edu Email: jackj@scripps.edu Publication list has not been verified by the department. John E. Johnson and Wah Chiu, DNA packaging and delivery machines in tailed bacteriophages, Curr. Opin. Struct. Biol, 17, 237-243 (2007). Blair R. Szymczyna, Lu Gan, John E. Johnson and James R. Williamson, Solution NMR Studies of the Maturation Intermediates of a 13 MDa Viral Capsid, J. Am. Chem. Soc, 129, 7867-7876 (2007). Anton Poliakov, Esther van Duijn, Gabriel Lander, Chi-yu Fu, John E. Johnson, Peter E. Prevelige and Albert J. R. Heck, Macromolecular mass spectrometry and electron microscopy as complementary tools for investigation of the heterogeneity of bacteriophage portal assemblies, J. Struct. Biol, 157, 371-383 (2007). Sebyung Kang, Gabriel C. Lander, John E. Johnson and Peter E. Prevelige, Development of bacteriophage P22 as a platform for molecular display: genetic and chemical modifications of the procapsid exterior surface, ChemBioChem, 9, 514-518 (2008). Manidipa Banerjee and John E. Johnson, Activation, exposure and penetration of virally encoded, membrane-active polypeptides during nonenveloped virus entry, Curr. Protein Pept. Sci, 9, 16-27 (2008). Daniel Nemecek, Gabriel C. Lander, John E. Johnson, Sherwood R. Casjens and George J. Thomas, Assembly Architecture and DNA Binding of the Bacteriophage P22 Terminase Small Subunit, J. Mol. Biol, 383, 494-501 (2008). Gina E. Sosinsky, John Crum, Ying Z. Jones, Jason Lanman, Benjamin Smarr, Masako Terada, Maryann E. Martone, Thomas J. Deerinck, John E. Johnson and Mark H. Ellisman, The combination of chemical fixation procedures with high pressure freezing and freeze substitution preserves highly labile tissue ultrastructure for electron tomography applications, J. Struct. Biol, 161, 359-371 (2008). Jason Lanman, John Crum, Thomas J. Deerinck, Guido M. Gaietta, Anette Schneemann, Gina E. Sosinsky, Mark H. Ellisman and John E. Johnson, Visualizing flock house virus infection in Drosophila cells with correlated fluorescence and electron microscopy, J. Struct. Biol, 161, 439-446 (2008). Lu Gan and John E. Johnson, An optimal exposure strategy for cryoprotected virus crystals with lattice constants greater than 1000 Å, J. Synchrotron Radiat, 15, 223-226 (2008). Hanna E. Walukiewicz, Manidipa Banerjee, Anette Schneemann and John E. Johnson, Rescue of maturation-defective flock house virus infectivity with noninfectious, mature, viruslike particles, J. Virol, 82, 2025-2027 (2008). Reed B. Wickner, Jinghua Tang, Nora A. Gardner and John E. Johnson, The yeast dsRNA virus L-A resembles mammalian dsRNA virus cores, Segmented Double-Stranded RNA Viruses, 105-114 (2008). Gabriel C. Lander, Alex Evilevitch, Meerim Jeembaeva, Clinton S. Potter, Bridget Carragher and John E. Johnson, Bacteriophage Lambda Stabilization by Auxiliary Protein gpD: Timing, Location, and Mechanism of Attachment Determined by Cryo-EM, Structure (Cambridge, MA, U. S.), 16, 1399-1406 (2008). Kelly K. Lee, Lu Gan, Hiro Tsuruta, Crystal Moyer, James F. Conway, Robert L. Duda, Roger W. Hendrix, Alasdair C. Steven and John E. Johnson, Virus Capsid Expansion Driven by the Capture of Mobile Surface Loops, Structure (Cam- bridge, MA, U. S.), 16, 1491-1502 (2008). JOSEPH, SIMPSON (b.1966) Full Professor. Ph.D, 1994, University of Vermont. American Cancer Society Fellowship, 1994-1998, University of California, Santa Cruz. Biochemistry; Biophysics/Biophysical Chemistry. Ribosome structure, function and dynamics; role of rRNA in translation; mechanism of translocation; interaction of antibiotics with ribosomes. TEL: (858) 822- 2957 FAX: (858) 534-7042 Email: sjoseph@chem.ucsd.edu KEARNS, DAVID R. (b.1935) Professor Emeritus. B.S, 1956, University of Illinois; Ph.D, 1960, University of California, Berkeley. NAS Postdoctoral Fellow, 1960- 1961, University of Chicago; NAS Postdoctoral Fellow, 1961-1962, M. I. T; Guggenheim Fellowship, 1969- 1970. Physical chemistry of polynucleotides; dynamics and structural studies by one-, two-, three-dimensional NMR; drug-DNA, metal-DNA, protein-DNA interactions, unusual DNA structures, and protein structure. TEL: (858) 534-2760 FAX: (858) 534-0202 Web: www.chem.ucsd.edu/Faculty/emeritus.html# kearns Email: dkearns@ucsd.edu No publication information submitted for this edition. KIM, JUDY E. Assistant Professor. M.S, 1994, M.I.T; Ph.D, 2001, University of California, Berkeley. NIH Postdoc Fellow, 2003-2005, California Institute of Technology. Biophysics/Biophysical Chemistry; Physical Chemistry. Integral membrane proteins comprise ~30% of all cell proteins, and play essential roles in cellular functions as gates, pumps, receptors, energy transducers, and enzymes. Despite recent progress towards understanding the structure and function of membrane proteins, a more complex and fundamental question persists: What are the molecular mechanisms for the folding, in- sertion, and assembly of integral membrane proteins that give rise to functional structures? TEL: (858) 534-5598 FAX: (858) 534-7042 Web: www-chem.ucsd.edu/research/profile.cfm?cid= C04912 Email: judyk@ucsd.edu Arneh Babakhani, Alemayehu A. Gorfe, Justin Gullingsrud, Judy E. Kim and J. Andrew McCammon, Peptide inser- tion, positioning, and stabilization in a membrane: insight from an all-atom molecular dynamics simulation, Biopolymers, 85, 490-497 (2007). Katheryn M. Sanchez, Jonathan E. Gable, Diana E. Schlamadinger and Judy E. Kim, Effects of Tryptophan Microenvironment, Soluble Domain, and Vesicle Size on the Ther- modynamics of Membrane Protein Folding: Lessons from the Transmembrane Protein OmpA, Biochemistry, 47, 12844- 12852 (2008). Arneh Babakhani, Alemayehu A. Gorfe, Judy E. Kim and J. Andrew McCammon, Thermodynamics of Peptide Inser- tion and Aggregation in a Lipid Bilayer, J. Phys. Chem. B, 112, 10528-10534 (2008). Katheryn M. Sanchez, Tiffany J. Neary and Judy E. Kim, Ultraviolet Resonance Raman Spectroscopy of Folded and Unfolded States of an Integral Membrane Protein, J. Phys. Chem. B, 112, 9507-9511 (2008). K. M. Sanchez, D. E. Schlamadinger, J. E. Gable and J. E. Kim, Forster resonance energy transfer and conformational stability of proteins: An advanced biophysical module for physical chemistry students, Journal of Chemical Education, 85, 1253-1256 (2008). Tiffany J. Neary, Ultraviolet resonance raman spectroscopy of the integral membrane protein OmpA: Elucidating structure and tryptophan microenvironment of folded and unfolded states. (M) KOBAYASHI, YOSHIHISA (b.1970) Assistant Professor. B.A, 1994, The University of Tokyo; M.A, 1996, The University of Tokyo; Ph.D, 1999, The University of Tokyo. Postdoctoral Fellow, 1999-2002, Harvard University; Research Associate, 2002-2003, Harvard University. Natural Products Chemistry; Synthesis. Total synthesis of natural products, heterocycles, development of methodology of synthetic organic chemistry. TEL: (858) 822-5870 FAX: (858) 822-5870 Web: www.chem-faculty.ucsd.edu/kobayashi/index.html Email: ykoba@chem.ucsd.edu Matthew J. Buller, Travis G. Cook and Yoshihisa Kobayashi, Versatile synthesis of 2,2-disubstituted indolinones via protected indolones generated by one-pot multi-oxidation of 2-substituted indoles, Heterocycles, 72, 163-166 (2007). Jerry Isaacson, Cynthia B. Gilley and Yoshihisa Kobayashi, Expeditious access to unprotected racemic pyroglutamic 382, 894-909 (2008). Sean M. Studer and Simpson Joseph, Binding of mRNA to acids, J. Org. Chem, 72, 3913-3916 (2007). Shachi Gosavi, Paul C. Whitford, Patricia A. Jennings and the bacterial translation initiation complex, Methods Enzy- Jerry Isaacson, Cynthia B. Gilley and Yoshihisa Kobaya- Jose N. Onuchic, Extracting function from a �-trefoil folding mol, 430, 31-44 (2007). shi, Expeditious access to unprotected racemic pyroglutamic motif, Proc. Natl. Acad. Sci. U. S. A, 105, 10384-10389 Christine M. Dunham, Maria Selmer, Steven S. Phelps, acids. [Erratum to document cited in CA147:031335], J. Org. (2008). Ann C. Kelley, Tsutomu Suzuki, Simpson Joseph and V. Ra- Chem, 72, 5024 (2007).
CALIFORNIA, SAN DIEGO 7 Cynthia B. Gilley, Matthew J. Buller and Yoshihisa Koba- ments meet theory, Curr. Opin. Struct. Biol, 18, 27-34 Jonathan B. Caballero, Chemical sensor development leadyashi, New Entry to Convertible Isocyanides for the Ugi Re- (2008). ing to an alternative glucose detection method. (D) action and Its Application to the Stereocontrolled Formal To- Gina N. Betts, Peter van der Geer and Elizabeth A. Kotal Synthesis of the Proteasome Inhibitor Omuralide, Org. Lett, 9, 3631-3634 (2007). Mitchell Vamos, Kerem Ozboya and Yoshihisa Kobayashi, Synthesis of bicyclic pyroglutamic acid featuring the Ugi reaction and a unique stereoisomerization at the angular position by Grob fragmentation followed by a transannular ke- tene [2+2] cycloaddition reaction, Synlett, 1595-1599 (2007). Mitchell Vamos and Yoshihisa Kobayashi, Scalable Preparation of Both Enantiomers of 2-(1-Hydroxy-2-oxocyclo- hexyl)acetic Acid, J. Org. Chem, 73, 3938-3941 (2008). Cynthia B. Gilley and Yoshihisa Kobayashi, 2-Nitrophenyl Isocyanide as a Versatile Convertible Isocyanide: Rapid Access to a Fused �-Lactam �-Lactone Bicycle, J. Org. Chem, 73, 4198-4204 (2008). Thong X. Nguyen and Yoshihisa Kobayashi, Synthesis of the Common Propellane Core Structure of the Hasubanan Alkaloids, J. Org. Chem, 73, 5536-5541 (2008). Jerry Isaacson, Mandy Loo and Yoshihisa Kobayashi, To- tal Synthesis of (±)-Dysibetaine, Org. Lett, 10, 1461-1463 (2008). M. J. Buller, C. B. Gilley, B. Nguyen, L. Olshansky, B. Fraga and Y. Kobayashi, Synthesis of functionalized pyroglutamic acids. Part 1: The synthetic utility of N-Acylindole and the ugi reaction with a chiral levulinic acid, Synlett, 2244-2248 (2008). mives, Structural and Functional Consequences of Tyrosine Phosphorylation in the LRP1 Cytoplasmic Domain, J. Biol. Chem, 283, 15656-15664 (2008). Stephanie M. E. Truhlar, Erika Mathes, Carla F. Cervantes, Gourisankar Ghosh and Elizabeth A. Komives, Pre-folding I�B� Alters Control of NF-�B Signaling, J. Mol. Biol, 380, 67-82 (2008). Shih-Che Sue, Carla Cervantes, Elizabeth A. Komives and H. Jane Dyson, Transfer of Flexibility between Ankyrin Re- peats in I�B� upon Formation of the NF-�B Complex, J. Mol. Biol, 380, 917-931 (2008). David G. Mendoza-Cozatl, Emerald Butko, Franziska Springer, Justin W. Torpey, Elizabeth A. Komives, Julia Kehr and Julian I. Schroeder, Identification of high levels of phytochelatins, glutathione and cadmium in the phloem sap of Brassica napus. A role for thiol-peptides in the long-dis- tance transport of cadmium and the effect of cadmium on iron translocation, Plant J, 54, 249-259 (2008). Diego U. Ferreiro, Aleksandra M. Walczak, Elizabeth A. Komives and Peter G. Wolynes, The energy landscapes of repeat-containing proteins: topology, cooperativity, and the folding funnels of one-dimensional architectures, PLoS Comput. Biol, 4, No pp. given (2008). Stephanie M. E. Truhlar, Carla F. Cervantes, Justin W. Torpey, Magnus Kjaergaard and Elizabeth A. Komives, Rapid mass spectrometric analysis of KUMMEL, A. C. (b.1959) Professor. B.S, 1981, Yale University; M.S, 1984, Stanford University; Ph.D, 1988, Stanford University. 1988, Cornell University. Deposition of oxides on compound semiconductors to form passive interfaces for use in MOSFETs: STM/STS structure determination of the oxide/semiconductor interface; Computational modeling of absorbates, oxides, and defects on compounds semiconductor surfaces; Deposition of organo-metallic films for use in ChemFET sensors; Chemical Dynamics of gas-surface reaction. TEL: (858) 534-3368 FAX: (858) 534-2063 Web: www.chem-faculty.ucsd.edu/kummel/ Email: ack@chem.ucsd.edu akummel@ucsd.edu Publication list has not been verified by the department. D. L. Winn, T. J. Grassman and A. C. Kummel, Electronic properties of adsorbates on In0.37Ga0.63As(001)-(2 × 4), ECS Trans, 11, 441-449 (2007). M. J. Hale, S. I. Yi, J. Z. Sexton, A. C. Kummel and M. Passlack, Scanning tunneling microscopy and spectroscopy of gallium oxide deposition and oxidation on GaAs(001)-c (2×8)/(2×4). [Erratum to document cited in CA140:009103], J. Chem. Phys, 127, 049902/1 (2007). 15 C. B. Gilley, M. J. Buller and Y. Kobayashi, Synthesis of functionalized pyroglutamic acids. Part 2: The stereoselective condensation of multi-functional groups with chiral levulinic acids, Synlett, 2249-2252 (2008). S. Born and Y. Kobayashi, A stable synthetic equivalent of 2,3-Dihydropyridine, Synlett, 2479-2482 (2008). S. Born, G. Bacani, E. E. Olson and Y. Kobayashi, Microwave-assisted intramolecular diels-alder reaction towards the total synthesis of symbioimine, Synlett, 2877-2881 (2008). N-Leu incorporation fidelity during preparation of specifically labeled NMR sam- ples, Protein Sci, 17, 1636-1639 (2008). S. Bergqvist, G. Ghosh and E. A. Komives, The IkBa /NFkB complex has two hot-spots, one at either end of the interface, Protein Science, 17, 2051-2058 (2008). Stephanie M. E. Truhlar and Elizabeth A. Komives, LRR Domain Folding: Just Put a Cap on It, Structure (Cambridge, MA, U. S.), 16, 655-657 (2008). KYTE, JACK (b.1946) Professor Emeritus. B.A, 1967, Carleton College; Ph.D, 1972, Harvard University. Post- doctoral Fellowship, 1972-1974, University of Califor- nia, San Diego. Enzymology, active transport, biomem- brane, membrane proteins, pharmacological receptors. TEL: (858) 534-3281 FAX: (858) 534-4864 Email: jkyte@ucsd.edu No publication information submitted for this edition. C. B. Gilley, New convertible isocyanides for the ugi reaction; application to the stereoselective synthesis of omuralide. (D) KOMIVES, ELIZABETH A. (b.1960) Professor. B.S, 1982, M.I.T; M.S, 1982, M.I.T; Ph.D, 1987, Uni- versity of California, San Francisco. NIH Postdoctoral Fellowship, 1987-1990, Harvard University. Biochemistry; Biophysics/Biophysical Chemistry. Protein-protein interactions of multidomain proteins; disulfide bonded domains; thrombomodulin, LRP, IkappaB; NMR, binding kinetics, binding thermodynamics, H/D exchange, Muneera Beach, Thermodynamics and the role of allostery in the thrombin-thrombomodulin interaction. (D) KRAUT, JOSEPH (b.1926) Research Professor. B.S, 1950, Bucknell University; Ph.D, 1954, California Institute of Technology. Fellowship, 1955-1956, Howard Hughes Medical Institute. Molecular structure, function and evolution of proteins and other biologically important molecules; x-ray diffraction crystallography; site di- rected mutagenesis. TEL: (626) 794-6352 FAX: (858) 534-4864 Email: jkraut@ucsd.edu LINDENBERG, KATJA (b.1941) Distinguished Professor. B.A, 1962, Alfred University; Ph.D, 1967, Cor- nell University. Postdoctoral Fellowship, 1967-1969, University of Rochester. Chemical Physics; Theoretical Chemistry. Stochastic processes and their applications, nonlinear systems, nonequilibrium statistical mechanics, pulse propagation in granular materials. TEL: (858) 534- 3285 FAX: (858) 534-7244 Web: hypatia.ucsd.edu Email: klindenberg@ucsd.edu A. H. Romero, A. M. Lacasta, J. M. Sancho and Katja Lindenberg, Numerical study of A + A � 0 and A + B � 0re- mass spectrometry. TEL: (858) 534-3058 FAX: (858) joek@chem.ucsd.edu actions with inertia, J. Chem. Phys, 127, 174506/1-174506/7 534-6174 Web: www.chem.ucsd.edu/Faculty/bios/komives.html Email: ekomives@ucsd.edu No publication information submitted for this edition. KUBIAK, CLIFFORD P. (b.1953) Harold C. Urey (2007). J. M. Sancho, A. H. Romero, A. M. Lacasta and Katja Lindenberg, Langevin dynamics of A + A reactions in one di- Xiaohua Wu, Zhi-fang Li, Randolph Brooks, Elizabeth A. Komives, Justin W. Torpey, Eva Engvall, Steven L. Gonias and G. Diane Shelton, Autoantibodies in Canine Masticatory Muscle Myositis Recognize a Novel Myosin Binding Protein-C Family Member, J. Immunol, 179, 4939-4944 (2007). Diego U. Ferreiro, Carla F. Cervantes, Stephanie M. E. Truhlar, Samuel S. Cho, Peter G. Wolynes and Elizabeth A. Komives, Stabilizing I�B� by “Consensus” Design, J. Mol. Biol, 365, 1201-1216 (2007). Joachim Laetzer, Garegin A. Papoian, Michael C. Prentiss, Elizabeth A. Komives and Peter G. Wolynes, Induced Fit, Professor. B.Sc, 1975, Brown University; Ph.D, 1980, University of Rochester. Postdoctoral Associate, 1980- 1981, M. I. T. Inorganic Chemistry; Materials Chemistry. Inorganic and materials chemistry. Electron and atom transfer chemistry. Effects of ultrafast intramolecular reactions on IR spectra. Molecular electronics and nanoscience. Energy conversion. Carbon dioxide conversion. TEL: (858) 822-2665 FAX: (858) 822-4442 Web: kubiak.ucsd.edu Email: ckubiak@ucsd.edu mension, J. Phys.: Condens. Matter, 19, 065108/1-065108/ 12 (2007). J. J. Ruiz-Lorenzo, Santos B. Yuste and Katja Lindenberg, Simulations for trapping reactions with subdiffusive traps and subdiffusive particles, J. Phys.: Condens. Matter, 19, 065120/1-065120/12 (2007). Kevin Wood, C. Van den Broeck, V. Kawai and Katja Lin- denberg, Continuous and discontinuous phase transitions and partial synchronization in stochastic three-state oscillators, Los Alamos Natl. Lab., Prepr. Arch., Condens. Matter, 1-10 (2007). Folding, and Recognition of the NF-�B-Nuclear Localization Clifford P. Kubiak and Eugenio Simon-Manso, Nickel Santos Bravo Yuste, J. Klafter and Katja Lindenberg, Signals by I�B� and I�B�, J. Mol. Biol, 367, 262-274 complexes with carbonyl, isocyanide and carbene ligands, Number of distinct sites visited by a subdiffusive random (2007). Comprehensive Organometallic Chemistry III, 8, 1-26 walker, Los Alamos Natl. Lab., Prepr. Arch., Condens. Mat- Ganesh S. Anand, Matthew Hotchko, Simon H. J. Brown, (2007). ter, 1-4 (2007). Lynn F. Ten Eyck, Elizabeth A. Komives and Susan S. Tay- Benjamin J. Lear, Starla D. Glover, J. Catherine Salsman, S. B. Yuste and Katja Lindenberg, The subdiffusive target lor, R-subunit Isoform Specificity in Protein Kinase A: Dis- Casey H. Londergan and Clifford P. Kubiak, Solvent dynam- problem: Survival probability, Los Alamos Natl. Lab., Prepr. tinct Features of Protein Interfaces in PKA Types I and II by ical control of ultrafast ground state electron transfer: impli- Arch., Condens. Matter, 1-5 (2007). Amide H/ 2H Exchange Mass Spectrometry, J. Mol. Biol, 374, cations for class II-III mixed valency, J. Am. Chem. Soc, 129, Francisco J. Cao, Kevin Wood and Katja Lindenberg, 487-499 (2007). 12772-12779 (2007). Noise-induced phase transitions in field-dependent relaxa- Dong-Yul Sung, David Lee, Hugh Harris, Andrea Raab, Benjamin J. Lear and Clifford P. Kubiak, Origins of coop- tional dynamics: the Gaussian ansatz, Los Alamos Natl. Lab., Jorg Feldmann, Andrew Meharg, Bryan Kumabe, Elizabeth erative noncovalent host-guest chemistry in mixed valence Prepr. Arch., Condens. Matter, 1-9 (2007). A. Komives and Julian I. Schroeder, Identification of an arse- complexes, J. Phys. Chem. B, 111, 6766-6771 (2007). Kevin Wood, C. Van den Broeck, R. Kawai and Katja Linnic tolerant double mutant with a thiol-mediated component Timi P. Singa, Antonio G. DiPasquale, Arnold L. Rhein- denberg, Effects of disorder on synchronization of discrete and increased arsenic tolerance in phyA mutants, Plant J, 49, gold and Clifford P. Kubiak, Bis(2, 6-dimethyphenyl isocya- phase-coupled oscillators, Phys. Rev. E: Stat., Nonlinear, Soft 1064-1075 (2007). nide) gold (I) tetrafluoridoborate, Acta Cryst, E64, m1221 Matter Phys, 75, 041107/1-041107/11 (2007). Diego U. Ferreiro, Joseph A. Hegler, Elizabeth A. Ko- (2008). Kevin Wood, C. Van den Broeck, R. Kawai and Katja Linmives and Peter G. Wolynes, Localizing frustration in native John C. Goeltz and Clifford P. Kubiak, Mixed Valence denberg, Continuous and discontinuous phase transitions and proteins and protein assemblies, Proc. Natl. Acad. Sci. U. S. Self-Assembled Monolayers: Electrostatic Polarizabilities of partial synchronization in stochastic three-state oscillators, A, 104, 19819-19824 (2007). the Mixed Valence States, J. Phys. Chem. C, 112, 8114-8116 Phys. Rev. E: Stat., Nonlinear, Soft Matter Phys, 76, 041132/ Diego U. Ferreiro and Elizabeth A. Komives, The plastic (2008). 1-041132/9 (2007). landscape of repeat proteins, Proc. Natl. Acad. Sci. U. S. A, Starla D. Glover, Benjamin J. Lear, Jennifer C. Salsman, Francisco J. Cao, Kevin Wood and Katja Lindenberg, 104, 7735-7736 (2007). Casey H. Londergan and Clifford P. Kubiak, Electron trans- Noise-induced phase transitions in field-dependent relaxa- Chun-Ming Huang, Justin W. Torpey, Yu-Tseung Liu, fer at the class II/III borderline of mixed valency: Depen- tional dynamics: the Gaussian ansatz, Phys. Rev. E: Stat., Yun-Ru Chen, Katherine E. Williams, Elizabeth A. Komives dence of rates on solvent dynamics and observation of a lo- Nonlinear, Soft Matter Phys, 76, 051111/1-051111/9 (2007). and Richard L. Gallo, A peptide with a ProGln C terminus in calized-to-delocalized transitioin in freezing solvents, Phil. S. B. Yuste and Katja Lindenberg, Subdiffusive target the human saliva peptidome exerts bactericidal activity Trans. Roy. Soc. A, 366, 177-185 (2008). problem: survival probability, Phys. Rev. E: Stat., Nonlinear, against Propionibacterium acnes, Antimicrob. Agents Che- J. Catherine Salsman and Clifford P. Kubiak, Infrared Soft Matter Phys, 76, 051114/1-051114/6 (2007). mother, 52, 1834-1836 (2008). spectroelectrochemical investigations of ultrafast electron Kevin Wood, C. Van den Broeck, R. Kawai and Katja Lin- Julia R. Koeppe, Muneera A. Beach, Abel Baerga-Ortiz, S. transfer in mixed-valence complexes, Spectroelectrochem, denberg, Continuous and discontinuous phase transitions and Jordan Kerns and Elizabeth A. Komives, Mutations in the 123-144 (2008). partial synchronization in stochastic three-state oscillators. Fourth EGF-like Domain Affect Thrombomodulin-Induced [Erratum to document cited in CA148:086141], Phys. Rev. E: Changes in the Active Site of Thrombin, Biochemistry, 47, Benjamin J. Lear, The effects of electronic delocalization Stat., Nonlinear, Soft Matter Phys, 76, 059901/1 (2007). 10933-10939 (2008). in highly coupled mixed valence systems. (D) Kevin Wood, C. Van den Broeck, R. Kawai and Katja Lin- Doug Barrick, Diego U. Ferreiro and Elizabeth A. Ko- John C. Stires IV, Charge transfer complexes in molecular denberg, Fluctuation theorem for entropy production during mives, Folding landscapes of ankyrin repeat proteins: Experi- electronics: Approaching metallic conduction. (D) effusion of an ideal gas with momentum transfer, Phys. Rev.
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