David S. Eisenberg, Ph.D.

David S. Eisenberg, Ph.D.

Distinguished Professor, Biological Chemistry Lab Director, Eisenberg Lab Professor, Chemistry and Biochemistry, Biochemistry, Molecular Biology Paul D. Boyer Professor of Molecular Biology & Biochemistry, Molecular Biology Institute Member, Biochemistry, Biophysics & Structural Biology GPB Home Area, Bioinformatics GPB Home Area, CTSI, California NanoSystems Institute, JCCC Signal Transduction and Therapeutics Program Area, Molecular Biology Institute, Molecular Pharmacology GPB Home Area Researcher, Biochemistry, Biophysics and Structural Biology, Proteomics and Bioinformatics Investigator, Howard Hughes Medical Institute

(310) 825-3754

Office Address:
Howard Hughes Medical Institute
University of California, Los Angeles
611 C.E. Young Drive East
Los Angeles, CA 90095


Biography

David Eisenberg is currently Professor of Chemistry and Biochemistry and Biological Chemistry, as well as HHMI Investigator and Director of the UCLA-DOE Institute for Genomics and Proteomics. Before he came to UCLA, Eisenberg earned an A.B. in Biochemical Sciences from Harvard College and a D.Phil. from Oxford University in Theoretical Chemistry on a Rhodes Scholarship. After postdoctoral study at Princeton University on water and hydrogen bonding and at Caltech on protein crystallography, he joined the faculty at UCLA. Currently he studies protein interactions by X-ray crystallography, bioinformatics, and biochemistry, with an emphasis on amyloid-forming proteins. This recently recognized protein state offers opportunities to understand cells in health and disease, and in synthesizing new materials and in understanding processes as diverse as biofilms and corrosion. Eisenberg has published over 300 papers and reviews, holds half a dozen patents. His awards include: the UCLA Distinguished Teaching Award, John Simon Guggenheim Fellowship, the UCLA Faculty Research Lectureship, the Stein and Moore Award of the Protein Society, the ACS Faculty Mentoring Award, and membership in the National Academy of Sciences, the American Academy of Arts and Sciences, the American Philosophical Society, and the Institute of Medicine.

Selected Scientific Public Service

    • • 2009-2015 SAB St. Jude Children’s Research Hospital
    • • 2008-2009 Pfizer’s Biotherapeutics and Bioinnovation Scientific Advisory Panel
    • • 2007-2017 SAB UCSF HARC Center
    • • 2006-2009 SAB, BioDesign Institute, Arizona State University
    • • 2005-2012 SAB, Harvard University Bauer Center
    • • 2001-2012 Advisory Committee, Caltech Beckman Center
    • • 2004 Review Panel: Centre for Protein Engineering, LMB, Cambridge, UK
    • • 2001-2004 National Academy of Sciences: Organizing Chair, Biophysics Section
    • • 1999-2005 European Molecular Biology Organization (EMBL) Scientific Advisory Committee
    • • 1998-2001 National Research Council, Commission on Life Sciences
    • • 1996-2000 Hereditary Disease Foundation, Scientific Advisory Board
    • • 1995-1998 National Research Council, Board of Biology
    • • 1995-1999 Chair, Protein Data Bank Advisory Board
    • • 1989-present Editorial Advisory Board, Current Opinion in Biology
    • • 1988-2009 Editor, Advances in Protein Chemistry
    • 1987-1989 First President, Protein Society

 

Publications

A selected list of publications:

Miallau Linda, Jain Paras, Arbing Mark A, Cascio Duilio, Phan Tung, Ahn Christine J, Chan Sum, Chernishof Irina, Maxson Michelle, Chiang Janet, Jacobs William R, Eisenberg David S   Comparative proteomics identifies the cell-associated lethality of M. tuberculosis RelBE-like toxin-antitoxin complexes Structure (London, England : 1993), 2013; 21(4): 627-37.
Cheng Pin-Nan, Liu Cong, Zhao Minglei, Eisenberg David, Nowick James S   Amyloid β-sheet mimics that antagonize protein aggregation and reduce amyloid toxicity Nature chemistry, 2012; 4(11): 927-33.
Laganowsky Arthur, Liu Cong, Sawaya Michael R, Whitelegge Julian P, Park Jiyong, Zhao Minglei, Pensalfini Anna, Soriaga Angela B, Landau Meytal, Teng Poh K, Cascio Duilio, Glabe Charles, Eisenberg David   Atomic view of a toxic amyloid small oligomer Science (New York, N.Y.), 2012; 335(6073): 1228-31.
Kato Masato, Han Tina W, Xie Shanhai, Shi Kevin, Du Xinlin, Wu Leeju C, Mirzaei Hamid, Goldsmith Elizabeth J, Longgood Jamie, Pei Jimin, Grishin Nick V, Frantz Douglas E, Schneider Jay W, Chen She, Li Lin, Sawaya Michael R, Eisenberg David, Tycko Robert, McKnight Steven L   Cell-free formation of RNA granules: low complexity sequence domains form dynamic fibers within hydrogels Cell, 2012; 149(4): 753-67.
Liu Cong, Zhao Minglei, Jiang Lin, Cheng Pin-Nan, Park Jiyong, Sawaya Michael R, Pensalfini Anna, Gou Dawei, Berk Arnold J, Glabe Charles G, Nowick James, Eisenberg David   Out-of-register β-sheets suggest a pathway to toxic amyloid aggregates Proceedings of the National Academy of Sciences of the United States of America, 2012; 109(51): 20913-8.
Teng Poh K, Anderson Natalie J, Goldschmidt Lukasz, Sawaya Michael R, Sambashivan Shilpa, Eisenberg David   Ribonuclease A suggests how proteins self-chaperone against amyloid fiber formation Protein science : a publication of the Protein Society, 2012; 21(1): 26-37.
Eisenberg David, Jucker Mathias   The amyloid state of proteins in human diseases Cell, 2012; 148(6): 1188-203.
Min Andrew B, Miallau Linda, Sawaya Michael R, Habel Jeff, Cascio Duilio, Eisenberg David   The crystal structure of the Rv0301-Rv0300 VapBC-3 toxin-antitoxin complex from M. tuberculosis reveals a Mg²⁺ ion in the active site and a putative RNA-binding site Protein science : a publication of the Protein Society, 2012; 21(11): 1754-67.
Stroud James C, Liu Cong, Teng Poh K, Eisenberg David   Toxic fibrillar oligomers of amyloid-β have cross-β structure Proceedings of the National Academy of Sciences of the United States of America, 2012; 109(20): 7717-22.
Cong Liu, Michael R Sawaya & David Eisenberg   ?2-microglobulin forms three-dimensional domain-swapped amyloid fibrils with disulfide linkages Nature Structural & Molecular Biology, 2011; 18: 49-55.
Apostol MI, Wiltzius JJ, Sawaya MR, Cascio D, Eisenberg D   Atomic structures suggest determinants of transmission barriers in Mammalian prion disease Biochemistry, 2011; 50(13): 2456-63.
Apostol Marcin I, Wiltzius Jed J W, Sawaya Michael R, Cascio Duilio, Eisenberg David   Atomic structures suggest determinants of transmission barriers in mammalian prion disease Biochemistry, 2011; 50(13): 2456-63.
Liu Cong, Sawaya Michael R, Cheng Pin-Nan, Zheng Jing, Nowick James S, Eisenberg David   Characteristics of amyloid-related oligomers revealed by crystal structures of macrocyclic β-sheet mimics Journal of the American Chemical Society, 2011; 133(17): 6736-44.
Zheng J, Liu C, Sawaya MR, Vadla B, Khan S, Woods RJ, Eisenberg D, Goux WJ, Nowick JS   Macrocyclic ?-sheet peptides that inhibit the aggregation of a tau-protein-derived hexapeptide J Am Chem Soc, 2011; 133(9): 3144-57.
Zheng Jing, Liu Cong, Sawaya Michael R, Vadla Balraju, Khan Shafiullah, Woods R Jeremy, Eisenberg David, Goux Warren J, Nowick James S   Macrocyclic β-sheet peptides that inhibit the aggregation of a tau-protein-derived hexapeptide Journal of the American Chemical Society, 2011; 133(9): 3144-57.
Colletier Jacques-Philippe, Laganowsky Arthur, Landau Meytal, Zhao Minglei, Soriaga Angela B, Goldschmidt Lukasz, Flot David, Cascio Duilio, Sawaya Michael R, Eisenberg David   Molecular basis for amyloid-beta polymorphism Proceedings of the National Academy of Sciences of the United States of America, 2011; 108(41): 16938-43.
Zhao Minglei, Cascio Duilio, Sawaya Michael R, Eisenberg David   Structures of segments of α-synuclein fused to maltose-binding protein suggest intermediate states during amyloid formation Protein science : a publication of the Protein Society, 2011; 20(6): 996-1004.
Chim Nicholas, Habel Jeff E, Johnston Jodie M, Krieger Inna, Miallau Linda, Sankaranarayanan Ramasamy, Morse Robert P, Bruning John, Swanson Stephanie, Kim Haelee, Kim Chang-Yub, Li Hongye, Bulloch Esther M, Payne Richard J, Manos-Turvey Alexandra, Hung Li-Wei, Baker Edward N, Lott J Shaun, James Michael N G, Terwilliger Thomas C, Eisenberg David S, Sacchettini James C, Goulding Celia W   The TB Structural Genomics Consortium: a decade of progress Tuberculosis (Edinburgh, Scotland), 2011; 91(2): 155-72.
Landau Meytal, Sawaya Michael R, Faull Kym F, Laganowsky Arthur, Jiang Lin, Sievers Stuart A, Liu Jie, Barrio Jorge R, Eisenberg David   Towards a pharmacophore for amyloid PLoS biology, 2011; 9(6): e1001080.
Liu Cong, Sawaya Michael R, Eisenberg David   Î²â‚‚-microglobulin forms three-dimensional domain-swapped amyloid fibrils with disulfide linkages Nature structural & molecular biology, 2011; 18(1): 49-55.
Laganowsky Arthur, Benesch Justin L P, Landau Meytal, Ding Linlin, Sawaya Michael R, Cascio Duilio, Huang Qingling, Robinson Carol V, Horwitz Joseph, Eisenberg David   Crystal structures of truncated alphaA and alphaB crystallins reveal structural mechanisms of polydispersity important for eye lens function Protein science : a publication of the Protein Society, 2010; 19(5): 1031-43.
Apostol Marcin I, Sawaya Michael R, Cascio Duilio, Eisenberg David   Crystallographic studies of prion protein (PrP) segments suggest how structural changes encoded by polymorphism at residue 129 modulate susceptibility to human prion disease The Journal of biological chemistry, 2010; 285(39): 29671-5.
Goldschmidt Lukasz, Teng Poh K, Riek Roland, Eisenberg David   Identifying the amylome, proteins capable of forming amyloid-like fibrils Proceedings of the National Academy of Sciences of the United States of America, 2010; 107(8): 3487-92.
Wang Lei, Schubert David, Sawaya Michael R, Eisenberg David, Riek Roland   Multidimensional Structure-Activity Relationship of a Protein in Its Aggregated States Angewandte Chemie, 2010; 49(23): 3904-8.
Eisenberg David L, Stika Catherine, Desai Ami, Baker David, Yost Kathleen J   Providing contraception for women taking potentially teratogenic medications: a survey of internal medicine physicians’ knowledge, attitudes and barriers Journal of general internal medicine, 2010; 25(4): 291-7.
Ostapchenko Valeriy G, Sawaya Michael R, Makarava Natallia, Savtchenko Regina, Nilsson K Peter R, Eisenberg David, Baskakov Ilia V   Two amyloid States of the prion protein display significantly different folding patterns Journal of molecular biology, 2010; 400(4): 908-21.
Khakshoor O, Lin AJ, Korman TP, Sawaya MR, Tsai SC, Eisenberg D, Nowick JS   X-ray crystallographic structure of an artificial beta-sheet dimer J Am Chem Soc, 2010; 132(33): 11622-8.
Khakshoor Omid, Lin Aaron J, Korman Tyler P, Sawaya Michael R, Tsai Shiou-Chuan, Eisenberg David, Nowick James S   X-ray crystallographic structure of an artificial beta-sheet dimer Journal of the American Chemical Society, 2010; 132(33): 11622-8.
Wiltzius JJ, Sievers SA, Sawaya MR, Eisenberg D   Atomic structures of IAPP (amylin) fusions suggest a mechanism for fibrillation and the role of insulin in the process Protein Science, 2009; 18(7): 1521-30.
Sprinzak Einat, Cokus Shawn J, Yeates Todd O, Eisenberg David, Pellegrini Matteo   Detecting coordinated regulation of multi-protein complexes using logic analysis of gene expression BMC systems biology, 2009; 3(1): 115.
Maji Samir K, Perrin Marilyn H, Sawaya Michael R, Jessberger Sebastian, Vadodaria Krishna, Rissman Robert A, Singru Praful S, Nilsson K Peter R, Simon Rozalyn, Schubert David, Eisenberg David, Rivier Jean, Sawchenko Paul, Vale Wylie, Riek Roland   Functional amyloids as natural storage of peptide hormones in pituitary secretory granules Science (New York, N.Y.), 2009; 325(5938): 328-32.
Ivanova Magdalena I, Sievers Stuart A, Sawaya Michael R, Wall Joseph S, Eisenberg David   Molecular basis for insulin fibril assembly Proceedings of the National Academy of Sciences of the United States of America, 2009; 106(45): 18990-5.
Wiltzius Jed J W, Landau Meytal, Nelson Rebecca, Sawaya Michael R, Apostol Marcin I, Goldschmidt Lukasz, Soriaga Angela B, Cascio Duilio, Rajashankar Kanagalaghatta, Eisenberg David   Molecular mechanisms for protein-encoded inheritance Nature structural & molecular biology, 2009; 16(9): 973-8.
Salwinski Lukasz, Licata Luana, Winter Andrew, Thorneycroft David, Khadake Jyoti, Ceol Arnaud, Aryamontri Andrew Chatr, Oughtred Rose, Livstone Michael, Boucher Lorrie, Botstein David, Dolinski Kara, Berardini Tanya, Huala Eva, Tyers Mike, Eisenberg David, Cesareni Gianni, Hermjakob Henning   Recurated protein interaction datasets Nature methods, 2009; 6(12): 860-1.
Teng Poh K, Eisenberg David   Short protein segments can drive a non-fibrillizing protein into the amyloid state Protein engineering, design & selection : PEDS, 2009; 22(8): 531-6.
Miallau Linda, Faller Michael, Chiang Janet, Arbing Mark, Guo Feng, Cascio Duilio, Eisenberg David   Structure and proposed activity of a member of the VapBC family of toxin-antitoxin systems. VapBC-5 from Mycobacterium tuberculosis The Journal of biological chemistry, 2009; 284(1): 276-83.
Sawaya, M. R. Wojtowicz, W. M. Andre, I. Qian, B. Wu, W. Baker, D. Eisenberg, D. Zipursky, S. L.   A double S shape provides the structural basis for the extraordinary binding specificity of Dscam isoforms Cell, 2008; 134(6): 1007-18.
Sawaya Michael R, Wojtowicz Woj M, Andre Ingemar, Qian Bin, Wu Wei, Baker David, Eisenberg David, Zipursky S Lawrence   A double S shape provides the structural basis for the extraordinary binding specificity of Dscam isoforms Cell, 2008; 134(6): 1007-18.
Llewellyn Richard, Eisenberg David S   Annotating proteins with generalized functional linkages Proceedings of the National Academy of Sciences of the United States of America, 2008; 105(46): 17700-5.
Wiltzius JJ, Sievers SA, Sawaya MR, Cascio D, Popov D, Riekel C, Eisenberg D   Atomic Structure of the Cross-Beta Spine of Islet Amyloid Polypeptide Protein Science, 2008; 17(9): 1467-74.
Wiltzius Jed J W, Sievers Stuart A, Sawaya Michael R, Cascio Duilio, Popov Dmitriy, Riekel Christian, Eisenberg David   Atomic structure of the cross-beta spine of islet amyloid polypeptide (amylin) Protein science : a publication of the Protein Society, 2008; 17(9): 1467-74.
Wang L, Maji SK, Sawaya MR, Eisenberg D, Riek R   Bacterial Inclusion Bodies Contain Amyloid-Like Structure PLoS Biol, 2008; 6(8): .
Wang Lei, Maji Samir K, Sawaya Michael R, Eisenberg David, Riek Roland   Bacterial inclusion bodies contain amyloid-like structure PLoS biology, 2008; 6(8): e195.
Zhang Kechun, Sawaya Michael R, Eisenberg David S, Liao James C   Expanding metabolism for biosynthesis of nonnatural alcohols Proceedings of the National Academy of Sciences of the United States of America, 2008; 105(52): 20653-8.
Cruz, D. Watson, A. D. Miller, C. S. Montoya, D. Ochoa, M. T. Sieling, P. A. Gutierrez, M. A. Navab, M. Reddy, S. T. Witztum, J. L. Fogelman, A. M. Rea, T. H. Eisenberg, D. Berliner, J. Modlin, R. L.   Host-derived oxidized phospholipids and HDL regulate innate immunity in human leprosy J Clin Invest, 2008; 118(8): 2917-28.
Cruz, Watson, Miller, Montoya, Ochoa, Sieling, Gutierrez, Navab, Reddy, Witztum, Fogelman, Rea, Eisenberg, Berliner, Modlin   Host-derived oxidized phospholipids and HDL regulate innate immunity in human leprosy J. Clin. Invest, 2008; .
Medrano-Soto, A. Pal, D. Eisenberg, D.   Inferring molecular function: contributions from functional linkages Trends Genet, 2008; 24(12): 587-90.
Dunn B., Long J.W., Rolison D.R.   Rethinking Multifunctions in Three Dimensions for Miniaturizing Electrical Energy Storage Interface, 2008; 17(3): 49.
Guo, Z. Eisenberg, D.   The structure of a fibril-forming sequence, NNQQNY, in the context of a globular fold Protein Sci, 2008; 17(9): 1617-23.
Miller Christopher S, Eisenberg David   Using inferred residue contacts to distinguish between correct and incorrect protein models Bioinformatics, 2008; 24(14): 1575-82.
White, E. L. Southworth, K. Ross, L. Cooley, S. Gill, R. B. Sosa, M. I. Manouvakhova, A. Rasmussen, L. Goulding, C. Eisenberg, D. Fletcher, T. M., 3rd   A novel inhibitor of Mycobacterium tuberculosis pantothenate synthetase J Biomol Screen, 2007; 12(1): 100-5.
Sawaya Michael R, Sambashivan Shilpa, Nelson Rebecca, Ivanova Magdalena I, Sievers Stuart A, Apostol Marcin I, Thompson Michael J, Balbirnie Melinda, Wiltzius Jed J W, McFarlane Heather T, Madsen Anders Ã, Riekel Christian, Eisenberg David   Atomic structures of amyloid cross-beta spines reveal varied steric zippers Nature, 2007; 447(7143): 453-7.
Galynker,, II Eisenberg, D. Matochik, J. A. Gertmenian-King, E. Cohen, L. Kimes, A. S. Contoreggi, C. Kurian, V. Ernst, M. Rosenthal, R. N. Prosser, J. London, E. D.   Cerebral metabolism and mood in remitted opiate dependence Drug Alcohol Depend, 2007; 90(2-3): 166-74.
Tsemekhman, K. Goldschmidt, L. Eisenberg, D. Baker, D.   Cooperative hydrogen bonding in amyloid formation Protein Sci, 2007; 16(4): 761-4.
Anderson, D. H. Kickhoefer, V. A. Sievers, S. A. Rome, L. H. Eisenberg, D.   Draft crystal structure of the vault shell at 9-A resolution PLoS Biol, 2007; 5(11): e318.
Anderson Daniel H, Kickhoefer Valerie A, Sievers Stuart A, Rome Leonard H, Eisenberg David   Draft crystal structure of the vault shell at 9-A resolution PLoS Biol, 2007; 5(11): e318.
Kim Sul-Min, Bowers Peter M, Pal Debnath, Strong Michael, Terwilliger Thomas C, Kaufmann Markus, Eisenberg David   Functional linkages can reveal protein complexes for structure determination Structure, 2007; 15(9): 1079-89.
Salwinski Lukasz, Eisenberg David   The MiSink Plugin: Cytoscape as a graphical interface to the Database of Interacting Proteins Bioinformatics, 2007; 23(16): 2193-5.
Guo Zhefeng, Eisenberg David   The mechanism of the amyloidogenic conversion of T7 endonuclease I J. Biol. Chem, 2007; 282(20): 14968-74.
Sandra Orchard, Lukasz Salwinski, Samuel Kerrien, Luisa Montecchi-Palazzi, Matthias Oesterheld, Volker Stümpflen, Arnaud Ceol, Andrew Chatr-aryamontri, John Armstrong, Peter Woollard, John J Salama, Susan Moore, Jérôme Wojcik, Gary D Bader, Marc Vidal, Michael E Cusick, Mark Gerstein, Anne-Claude Gavin, Giulio Superti-Furga, Jack Greenblatt, Joel Bader, Peter Uetz, Mike Tyers, Pierre Legrain, Stan Fields, Nicola Mulder, Michael Gilson, Michael Niepmann, Lyle Burgoon, Javier De Las Rivas, Carlos Prieto, Victoria M Perreau, Chris Hogue, Hans-Werner Mewes, Rolf Apweiler, Ioannis Xenarios, David Eisenberg, Gianni Cesareni & Henning Hermjakob   The minimum information required for reporting a molecular interaction experiment (MIMIx) Nature Biotechnology, 2007; 25: 894-8.
Kuriyan John, Eisenberg David   The origin of protein interactions and allostery in colocalization Nature, 2007; 450(7172): 983-90.
Strong, M. Eisenberg, D.   The protein network as a tool for finding novel drug targets Prog Drug Res, 2007; 64(number): 191, 193-215.
Strong Michael, Eisenberg David   The protein network as a tool for finding novel drug targets Mol. Ther, 2007; 64(1): 191, 193-215.
Goulding Celia W, Bowers Peter M, Segelke Brent, Lekin Tim, Kim Chang-Yub, Terwilliger Thomas C, Eisenberg David   The structure and computational analysis of Mycobacterium tuberculosis protein CitE suggest a novel enzymatic function J. Mol. Biol, 2007; 365(2): 275-83.
Goldschmidt, L. Cooper, D. R. Derewenda, Z. S. Eisenberg, D.   Toward rational protein crystallization: A Web server for the design of crystallizable protein variants Protein Sci, 2007; 16(8): 1569-76.
Goldschmidt Lukasz, Cooper David R, Derewenda Zygmunt S, Eisenberg David   Toward rational protein crystallization: A Web server for the design of crystallizable protein variants Protein Sci, 2007; 16(8): 1569-76.
Ivanova, M. I. Thompson, M. J. Eisenberg, D.   A systematic screen of beta(2)-microglobulin and insulin for amyloid-like segments Proc Natl Acad Sci U S A, 2006; 103(11): 4079-82.
Eisenberg, D. Marcotte, E. McLachlan, A. D. Pellegrini, M.   Bioinformatic challenges for the next decade(s) Philos Trans R Soc Lond B Biol Sci, 2006; 361(1467): 525-7.
Bennett Melanie J, Sawaya Michael R, Eisenberg David   Deposition diseases and 3D domain swapping Structure, 2006; 14(5): 811-24.
Nelson, R. Eisenberg, D.   Recent atomic models of amyloid fibril structure Curr Opin Struct Biol, 2006; 16(2): 260-5.
Guo Zhefeng, Eisenberg David   Runaway domain swapping in amyloid-like fibrils of T7 endonuclease I Proc. Natl. Acad. Sci. U.S.A, 2006; 103(21): 8042-7.
Nelson Rebecca, Eisenberg David   Structural models of amyloid-like fibrils Adv. Protein Chem, 2006; 73(2): 235-82.
Thompson, M. J. Sievers, S. A. Karanicolas, J. Ivanova, M. I. Baker, D. Eisenberg, D.   The 3D profile method for identifying fibril-forming segments of proteins Proc Natl Acad Sci U S A, 2006; 103(11): 4074-8.
Eisenberg, D. Nelson, R. Sawaya, M. R. Balbirnie, M. Sambashivan, S. Ivanova, M. I. Madsen, A. O. Riekel, C.   The structural biology of protein aggregation diseases: Fundamental questions and some answers Acc Chem Res, 2006; 39(9): 568-75.
Strong Michael, Sawaya Michael R, Wang Shuishu, Phillips Martin, Cascio Duilio, Eisenberg David   Toward the structural genomics of complexes: crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis Proc. Natl. Acad. Sci. U.S.A, 2006; 103(21): 8060-5.
Sambashivan, S. Liu, Y. Sawaya, M. R. Gingery, M. Eisenberg, D.   Amyloid-like fibrils of ribonuclease A with three-dimensional domain-swapped and native-like structure Nature, 2005; 437(7056): 266-9.
Li, H. Pellegrini, M. Eisenberg, D.   Detection of parallel functional modules by comparative analysis of genome sequences Nat Biotechnol, 2005; 23(2): 253-60.
Nelson, R. Sawaya, M. R. Balbirnie, M. Madsen, A. O. Riekel, C. Grothe, R. Eisenberg, D.   Structure of the cross-beta spine of amyloid-like fibrils Nature, 2005; 435(7043): 773-8.
Bowers, P. M. O’Connor, B. D. Cokus, S. J. Sprinzak, E. Yeates, T. O. Eisenberg, D.   Utilizing logical relationships in genomic data to decipher cellular processes FEBS J, 2005; 272(20): 5110-8.
Ivanova, M. I. Sawaya, M. R. Gingery, M. Attinger, A. Eisenberg, D.   An amyloid-forming segment of beta2-microglobulin suggests a molecular model for the fibril Proc Natl Acad Sci U S A, 2004; 101(29): 10584-9.
Goulding, C. W. Apostol, M. I. Gleiter, S. Parseghian, A. Bardwell, J. Gennaro, M. Eisenberg, D.   Gram-positive DsbE proteins function differently from Gram-negative DsbE homologs. A structure to function analysis of DsbE from Mycobacterium tuberculosis J Biol Chem, 2004; 279(5): 3516-24.
Kleiger, G. Panina, E. M. Mallick, P. Eisenberg, D.   PFIT and PFRIT: bioinformatic algorithms for detecting glycosidase function from structure and sequence Protein Sci, 2004; 13(1): 221-9.
Salwinski, L. Miller, C. S. Smith, A. J. Pettit, F. K. Bowie, J. U. Eisenberg, D.   The Database of Interacting Proteins: 2004 update Nucleic Acids Res, 2004; 32(Database issue): D449-51.
Bowers, P. M. Cokus, S. J. Eisenberg, D. Yeates, T. O.   Use of logic relationships to decipher protein network organization Science, 2004; 306(5705): 2246-9.
Salwinski, L. Eisenberg, D.   Computational methods of analysis of protein-protein interactions Curr Opin Struct Biol, 2003; 13(3): 377-82.
Anderson, D. H. Sawaya, M. R. Cascio, D. Ernst, W. Modlin, R. Krensky, A. Eisenberg, D.   Granulysin crystal structure and a structure-derived lytic mechanism J Mol Biol, 2003; 325(2): 355-65.
Ivanova, M. I. Gingery, M. Whitson, L. J. Eisenberg, D.   Role of the C-terminal 28 residues of beta2-microglobulin in amyloid fibril formation Biochemistry, 2003; 42(46): 13536-40.
McCarty, A. S. Kleiger, G. Eisenberg, D. Smale, S. T.   Selective dimerization of a C2H2 zinc finger subfamily Mol Cell, 2003; 11(2): 459-70.
Cech, T. R. Eddy, S. R. Eisenberg, D. Hersey, K. Holtzman, S. H. Poste, G. H. Raikhel, N. V. Scheller, R. H. Singer, D. B. Waltham, M. C.   Sharing publication-related data and materials: responsibilities of authorship in the life sciences Plant Physiol, 2003; 132(1): 19-24.
Mura, C. Phillips, M. Kozhukhovsky, A. Eisenberg, D.   Structure and assembly of an augmented Sm-like archaeal protein 14-mer Proc Natl Acad Sci U S A, 2003; 100(8): 4539-44.
Eisenberg, D.   The discovery of the alpha-helix and beta-sheet, the principal structural features of proteins Proc Natl Acad Sci U S A, 2003; 100(20): 11207-10.
Hsu, T. Hingley-Wilson, S. M. Chen, B. Chen, M. Dai, A. Z. Morin, P. M. Marks, C. B. Padiyar, J. Goulding, C. Gingery, M. Eisenberg, D. Russell, R. G. Derrick, S. C. Collins, F. M. Morris, S. L. King, C. H. Jacobs, W. R., Jr.   The primary mechanism of attenuation of bacillus Calmette-Guerin is a loss of secreted lytic function required for invasion of lung interstitial tissue Proc Natl Acad Sci U S A, 2003; 100(21): 12420-5.
Strong, M. Graeber, T. G. Beeby, M. Pellegrini, M. Thompson, M. J. Yeates, T. O. Eisenberg, D.   Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps Nucleic Acids Res, 2003; 31(24): 7099-109.
Liu, Y. Eisenberg, D.   3D domain swapping: as domains continue to swap Protein Sci, 2002; 11(6): 1285-99.
Duan, X. J. Xenarios, I. Eisenberg, D.   Describing biological protein interactions in terms of protein states and state transitions: the LiveDIP database Mol Cell Proteomics, 2002; 1(2): 104-16.
Kleiger, G. Grothe, R. Mallick, P. Eisenberg, D.   GXXXG and AXXXA: common alpha-helical interaction motifs in proteins, particularly in extremophiles Biochemistry, 2002; 41(19): 5990-7.
Deane, C. M. Salwinski, L. Xenarios, I. Eisenberg, D.   Protein interactions: two methods for assessment of the reliability of high throughput observations Mol Cell Proteomics, 2002; 1(5): 349-56.
Liu, Y. Gotte, G. Libonati, M. Eisenberg, D.   Structures of the two 3D domain-swapped RNase A trimers Protein Sci, 2002; 11(2): 371-80.
Mallick, P. Weiss, R. Eisenberg, D.   The directional atomic solvation energy: an atom-based potential for the assignment of protein sequences to known folds Proc Natl Acad Sci U S A, 2002; 99(25): 16041-6.
Goulding, C. W. Sawaya, M. R. Parseghian, A. Lim, V. Eisenberg, D. Missiakas, D.   Thiol-disulfide exchange in an immunoglobulin-like fold: structure of the N-terminal domain of DsbD Biochemistry, 2002; 41(22): 6920-7.