Publications | David Eisenberg's Lab

2024

Rosenberg GM, Abskharon R, Boyer DR, Ge P, Sawaya MR, Eisenberg DS Fibril structures of TFG protein mutants validate the identification of TFG as a disease-related amyloid protein by the IMPAcT method PNAS Nexus. 2023 Nov 20;2(12):pgad402 2024 PMID: 38077690

Lu J, Ge P, Sawaya MR, Hughes MP, Boyer DR, Cao Q, Abskharon R, Cascio D, Tayeb-Fligelman E Cryo-EM structures of the D290V mutant of the hnRNPA2 low-complexity domain suggests how D290V affects phase separation and aggregation J Biol Chem. 2024 Feb;300(2):105531, Epub 2023 Dec 9. 2024 PMID: 38072051

Nguyen BA, Singh V, Afrin S, Yakubovska A, Wang L, Ahmed Y, Pedretti R, Fernandez-Ramirez MDC, Singh P, Pekala M, Cabrera Hernandez LO, Kumar S, Lemoff A, Gonzalez-Prieto R, Sawaya MR, Eisenberg DS, Benson MD, Saelices L Structural polymorphism of amyloid fibrils in ATTR amyloidosis revealed by cryo-electron microscopy Nat Commun. 2024 Jan 17;15(1):581 2024 PMID: 38233397

2023

Abskharon, R, Pan H, Sawaya MR, Seidler PM, Olivares, EJ, Chen Y, Murray KA, Zhang J, Lantz C, Bentzel M, Boyer DR, Cascio D, Nguyen BA, Hou K, Cheng X, Parton E, Williams CK, Nana AL, Vinters HV, Spina S, Grinberg LT, Seeley WW, Steyaert J, Glabe CG, Loo RO, Loo JA, Eisenberg D Structure-based design of nanobodies that inhibit seeding of Alzheimer's patient-extracted tau fibrils PNAS. October 2023. 120:41, e2300258120; 2023 PMID: 37801475

A. J. Stone, M. Stewart, D. S. Eisenberg and R. A. Crowther Andrew David McLachlan. 25 January 1935—8 July 2022 Royal Society, Memoirs, Aug 16, 2023 2023

2022

Kevin A. Murray Carolyn J. Hu, Sarah L. Griner, Hope Pan, Jeannette T. Bowler, Romany Abskharon, Gregory M. Rosenberg, Xinyi Cheng, Paul M. Seidler, and David S. Eisenberg De novo designed protein inhibitors of amyloid aggregation and seeding BIOPHYSICS AND COMPUTATIONAL BIOLOGY 119 (34) e2206240119 2022 PMID: 35969734

Seidler PM, Murray KA, Boyer DR, Ge P, Sawaya MR, Hu CJ, Cheng X, Abskharon R, Pan H, DeTure MA, Williams CK, Dickson DW, Vinters HV, Eisenberg DS. Structure-based discovery of small molecules that disaggregate Alzheimer's disease tissue derived tau fibrils in vitro Nat Commun. 2022 Sep 16;13(1):5451. 2022 PMID: 36114178

Amaruka Hazari, Michael Sawaya, Niko Vlahakis, Timothy C Johnstone, David Boyer, Jose Rodriguez, David Eisenberg and Jevgenij A. Raskatov The rippled β-sheet layer configuration—a novel supramolecular architecture based on predictions by Pauling and Corey J. Am. Chem. Soc. 2023, 145, 47, 25917-25926 Publication Date:November 16, 2023 2022

Murray KA, Hughes MP, Hu CJ, Sawaya MR, Salwinski L, Pan H, French SW, Seidler PM, Eisenberg DS. Identifying amyloid-related diseases by mapping mutations in low-complexity protein domains to pathologies Nat Struct Mol Biol. 2022 May 30. 2022 PMID: 35637421

Abskharon R, Sawaya MR, Boyer DR, Cao Q, Nguyen BA, Cascio D, Eisenberg DS. Cryo-EM structure of RNA-induced tau fibrils reveals a small C-terminal core that may nucleate fibril formation Proc Natl Acad Sci U S A. 2022 Apr 12;119(15):e2119952119. 2022 PMID: 35377792

Rosenberg GM, Murray KA, Salwinski L, Hughes MP, Abskharon R, Eisenberg DS. Bioinformatic identification of TRK-fused gene protein (TFG) as a previously unrecognized amyloidogenic protein J Biol Chem . 2022 Apr 8;101920. doi: 10.1016/j.jbc.2022.101920. 2022 PMID: 35405097

Jiang YX, Cao Q, Sawaya MR, Abskharon R, Ge P, DeTure M, Dickson DW, Fu JY, Ogorzalek Loo RR, Loo JA, Eisenberg DS. Amyloid fibrils in disease FTLD-TDP are composed of TMEM106B not TDP-43 Nature. 2022 Mar 28 2022 PMID: 35344984

Gray ALH, Sawaya MR, Acharyya D, Lou J, Edington EM, Best MD, Prosser RA, Eisenberg DS, Do TD Atomic view of an amyloid dodecamer exhibiting selective cellular toxic vulnerability in acute brain slices Protein Sci. 2022 Mar 2022 PMID: 34954854

2021

Cao Q, Boyer DR, Sawaya MR, Abskharon R, Saelices L, Nguyen BA, Lu J, Murray KA, Kandeel F, Eisenberg DS Cryo-EM structures of hIAPP fibrils seeded by patient-extracted fibrils reveal new polymorphs and conserved fibril cores. Nat Struct Mol Biol. Sep 2021. 28(9):724-730. 2021 PMID: 34518699

Sawaya MR, Hughes MP, Rodriguez JA, Riek R, Eisenberg DS The expanding amyloid family: Structure, stability, function, and pathogenesis. Cell. Sep 2021. 184(19):4857-4873. 2021 PMID: 34534463

Hughes MP, Goldschmidt L, Eisenberg DS Prevalence and species distribution of the low-complexity, amyloid-like, reversible, kinked segment (LARKS) structural motif in amyloid-like fibrils. J Biol Chem. Sep 2021. :101194. 2021 PMID: 34537246

Shipps C, Kelly HR, Dahl PJ, Yi SM, Vu D, Boyer D, Glynn C, Sawaya MR, Eisenberg D, Batista VS, Malvankar NS Intrinsic electronic conductivity of individual atomically resolved amyloid crystals reveals micrometer-long hole hopping via tyrosines. Proc Natl Acad Sci U S A. 01 2021. 118(2):. 2021 PMID: 33372136

Anton El Khoury, Paul M. Seidler, David S. Eisenberg∗, Patrick G. Harran Catalytic Synthesis of PEGylated EGCG Conjugates that Disaggregate Alzheimer's Tau Georg Thieme Verlag KG (online) 2021

Tayeb-Fligelman E, Cheng X, Tai C, Bowler JT, Griner S, Sawaya MR, Seidler PM, Jiang YX, Lu J, Rosenberg GM, Salwinski L, Abskharon R, Zee CT, Hou K, Li Y, Boyer DR, Murray KA, Falcon G, Anderson DH, Cascio D, Saelices L, Damoiseaux R, Guo F, Eisenberg DS Inhibition of amyloid formation of the Nucleoprotein of SARS-CoV-2. bioRxiv. Mar 2021. :. 2021 PMID: 33688654

2020

Benson MD, Buxbaum JN, Eisenberg DS, Merlini G, Saraiva MJM, Sekijima Y, Sipe JD, Westermark P Amyloid nomenclature 2020: update and recommendations by the International Society of Amyloidosis (ISA) nomenclature committee. Amyloid. Dec 2020. 27(4):217-222. 2020 PMID: 33100054

Lu J, Cao Q, Hughes MP, Sawaya MR, Boyer DR, Cascio D, Eisenberg DS CryoEM structure of the low-complexity domain of hnRNPA2 and its conversion to pathogenic amyloid. Nat Commun. Aug 2020. 11(1):4090. 2020 PMID: 32796831

Ke PC, Zhou R, Serpell LC, Riek R, Knowles TPJ, Lashuel HA, Gazit E, Hamley IW, Davis TP, Fändrich M, Otzen DE, Chapman MR, Dobson CM, Eisenberg DS, Mezzenga R Half a century of amyloids: past, present and future. Chem Soc Rev. Jul 2020. :. 2020 PMID: 32632432

Cao Q, Boyer DR, Sawaya MR, Ge P, Eisenberg DS Cryo-EM structure and inhibitor design of human IAPP (amylin) fibrils. Nat. Struct. Mol. Biol.. Jun 2020. :. 2020 PMID: 32541896

Abskharon R, Seidler PM, Sawaya MR, Cascio D, Yang TP, Philipp S, Williams CK, Newell KL, Ghetti B, DeTure MA, Dickson DW, Vinters HV, Felgner PL, Nakajima R, Glabe CG, Eisenberg DS Crystal structure of a conformational antibody that binds tau oligomers and inhibits pathological seeding by extracts from donors with Alzheimer J. Biol. Chem.. Jun 2020. :. 2020 PMID: 32493775

Glynn C, Sawaya MR, Ge P, Gallagher-Jones M, Short CW, Bowman R, Apostol M, Zhou ZH, Eisenberg DS, Rodriguez JA Cryo-EM structure of a human prion fibril with a hydrophobic, protease-resistant core. Nat. Struct. Mol. Biol.. Apr 2020. :. 2020 PMID: 32284600

Boyer DR, Li B, Sun C, Fan W, Zhou K, Hughes MP, Sawaya MR, Jiang L, Eisenberg DS The α-synuclein hereditary mutation E46K unlocks a more stable, pathogenic fibril structure. Proc. Natl. Acad. Sci. U.S.A.. Feb 2020. 117(7):3592-3602. 2020 PMID: 32015135

Sangwan S, Sahay S, Murray KA, Morgan S, Guenther EL, Jiang L, Williams CK, Vinters HV, Goedert M, Eisenberg DS Inhibition of synucleinopathic seeding by rationally designed inhibitors. Elife. Jan 2020. 9:. 2020 PMID: 31895037

2019

Boyer DR, Li B, Sun C, Fan W, Sawaya MR, Jiang L, Eisenberg DS Structures of fibrils formed by α-synuclein hereditary disease mutant H50Q reveal new polymorphs. Nat. Struct. Mol. Biol.. Nov 2019. 26(11):1044-1052. 2019 PMID: 31695184

Basavalingappa V, Bera S, Xue B, Azuri I, Tang Y, Tao K, Shimon LJW, Sawaya MR, Kolusheva S, Eisenberg DS, Kronik L, Cao Y, Wei G, Gazit E Mechanically rigid supramolecular assemblies formed from an Fmoc-guanine conjugated peptide nucleic acid. Nat Commun. Nov 2019. 10(1):5256. 2019 PMID: 31748568

Makam P, Yamijala SSRKC, Tao K, Shimon LJW, Eisenberg DS, Sawaya MR, Wong BM, Gazit E Non-proteinaceous hydrolase comprised of a phenylalanine metallo-supramolecular amyloid-like structure. Nat Catal. Nov 2019. 2(11):977-985. 2019 PMID: 31742246

Guenther EL, Cao Q, Trinh H, Lu J, Sawaya MR, Cascio D, Boyer DR, Rodriguez JA, Hughes MP, Eisenberg DS Atomic structures of TDP-43 LCD segments and insights into reversible or pathogenic aggregation. Nat. Struct. Mol. Biol.. Oct 2019. 26(10):988. 2019 PMID: 31530939

Griner SL, Seidler P, Bowler J, Murray KA, Yang TP, Sahay S, Sawaya MR, Cascio D, Rodriguez JA, Philipp S, Sosna J, Glabe CG, Gonen T, Eisenberg DS Structure based inhibitors of Amyloid Beta core suggest a common interface with Tau. Elife. Oct 2019. 8:. 2019 PMID: 31612856

Seidler PM, Boyer DR, Murray KA, Yang TP, Bentzel M, Sawaya MR, Rosenberg G, Cascio D, Williams CK, Newell KL, Ghetti B, DeTure MA, Dickson DW, Vinters HV, Eisenberg DS Structure-based inhibitors halt prion-like seeding by Alzheimer's disease- and tauopathy-derived brain tissue samples J. Biol. Chem.. Sep 2019. :. 2019 PMID: 31537646

Warmack RA, Boyer DR, Zee CT, Richards LS, Sawaya MR, Cascio D, Gonen T, Eisenberg DS, Clarke SG Structure of amyloid-β (20-34) with Alzheimer Nat Commun. Jul 2019. 10(1):3357. 2019 PMID: 31350392

Cao Q, Boyer DR, Sawaya MR, Ge P, Eisenberg DS Cryo-EM structures of four polymorphic TDP-43 amyloid cores. Nat. Struct. Mol. Biol.. Jul 2019. 26(7):619-627. 2019 PMID: 31235914

Lu J, Cao Q, Wang C, Zheng J, Luo F, Xie J, Li Y, Ma X, He L, Eisenberg D, Nowick J, Jiang L, Li D Structure-Based Peptide Inhibitor Design of Amyloid-β Aggregation. Front Mol Neurosci. 2019. 12:54. 2019 PMID: 30886570

Benson MD, Buxbaum JN, Eisenberg DS, Merlini G, Saraiva MJM, Sekijima Y, Sipe JD, Westermark P Amyloid nomenclature 2018: recommendations by the International Society of Amyloidosis (ISA) nomenclature committee. Amyloid. Jan 2019. :1-5. 2019 PMID: 30614283

Saelices L, Nguyen BA, Chung K, Wang Y, Ortega A, Lee JH, Coelho T, Bijzet J, Benson MD, Eisenberg DS A pair of peptides inhibits seeding of the hormone transporter transthyretin into amyloid fibrils. J. Biol. Chem.. Feb 2019. :. 2019 PMID: 30733338

2018

Cao Q, Shin WS, Chan H, Vuong CK, Dubois B, Li B, Murray KA, Sawaya MR, Feigon J, Black DL, Eisenberg DS, Jiang L Inhibiting amyloid-β cytotoxicity through its interaction with the cell surface receptor LilrB2 by structure-based design. Nat Chem. Dec 2018. 10(12):1267. 2018 PMID: 30420778

Brumshtein B, Esswein SR, Sawaya MR, Rosenberg G, Ly AT, Landau M, Eisenberg DS Identification of two principal amyloid-driving segments in variable domains of Ig light chains in systemic light-chain amyloidosis. J. Biol. Chem.. Dec 2018. 293(51):19659-19671. 2018 PMID: 30355736

Saelices L, Pokrzywa M, Pawelek K, Eisenberg DS Assessment of the effects of transthyretin peptide inhibitors in Drosophila models of neuropathic ATTR. Neurobiol. Dis.. Dec 2018. 120:118-125. 2018 PMID: 30213731

McPartland L, Heller DM, Eisenberg DS, Hochschild A, Sawaya MR Atomic insights into the genesis of cellular filaments by globular proteins. Nat. Struct. Mol. Biol.. Aug 2018. 25(8):705-714. 2018 PMID: 30076408

Eisenberg DS Paul D. Boyer (1918-2018). Science. Jul 2018. 361(6400):334. 2018 PMID: 30049866

Guenther EL, Cao Q, Trinh H, Lu J, Sawaya MR, Cascio D, Boyer DR, Rodriguez JA, Hughes MP, Eisenberg DS Atomic structures of TDP-43 LCD segments and insights into reversible or pathogenic aggregation. Nat. Struct. Mol. Biol.. Jun 2018. 25(6):463-471. 2018 PMID: 29786080

Eisenberg DS How Hard It Is Seeing What Is in Front of Your Eyes. Cell. Jun 2018. 174(1):8-11. 2018 PMID: 29958112

Saelices L, Chung K, Lee JH, Cohn W, Whitelegge JP, Benson MD, Eisenberg DS Amyloid seeding of transthyretin by ex vivo cardiac fibrils and its inhibition. Proc. Natl. Acad. Sci. U.S.A.. Jun 2018. :. 2018 PMID: 29954863

Saelices L, Sievers SA, Sawaya MR, Eisenberg DS Crystal Structures of Amyloidogenic Segments of Human Transthyretin. Protein Sci.. Apr 2018. :. 2018 PMID: 29626847

Guenther EL, Ge P, Trinh H, Sawaya MR, Cascio D, Boyer DR, Gonen T, Zhou ZH, Eisenberg DS Atomic-level evidence for packing and positional amyloid polymorphism by segment from TDP-43 RRM2. Nat. Struct. Mol. Biol.. Mar 2018. :. 2018 PMID: 29531287

Hughes MP, Sawaya MR, Boyer DR, Goldschmidt L, Rodriguez JA, Cascio D, Chong L, Gonen T, Eisenberg DS Atomic structures of low-complexity protein segments reveal kinked β sheets that assemble networks. Science. 02 2018. 359(6376):698-701. 2018 PMID: 29439243

Seidler PM, Boyer DR, Rodriguez JA, Sawaya MR, Cascio D, Murray K, Gonen T, Eisenberg DS Structure-based inhibitors of tau aggregation. Nat Chem. Feb 2018. 10(2):170-176. 2018 PMID: 29359764

Sangwan S, Sawaya MR, Murray KA, Hughes MP, Eisenberg DS Atomic structures of corkscrew-forming segments of SOD1 reveal varied oligomer conformations. Protein Sci.. Feb 2018. :. 2018 PMID: 29453800

Gallagher-Jones M, Glynn C, Boyer DR, Martynowycz MW, Hernandez E, Miao J, Zee CT, Novikova IV, Goldschmidt L, McFarlane HT, Helguera GF, Evans JE, Sawaya MR, Cascio D, Eisenberg DS, Gonen T, Rodriguez JA Sub-ångström cryo-EM structure of a prion protofibril reveals a polar clasp. Nat. Struct. Mol. Biol.. Jan 2018. :. 2018 PMID: 29335561

Do TD, Sangwan S, de Almeida NEC, Ilitchev AI, Giammona M, Sawaya MR, Buratto SK, Eisenberg DS, Bowers MT Distal Amyloid β-Protein Fragments Template Amyloid Assembly. Protein Sci.. Jan 2018. :. 2018 PMID: 29349888

Hughes MP, Sawaya MR, Boyer DR, Goldschmidt L, Rodriguez JA, Cascio D, Chong L, Gonen T, Eisenberg DS Atomic structures of low-complexity protein segments reveal kinked β sheets that assemble networks. Science. 02 2018. 359(6376):698-701. 2018 PMID: 29439243

Vogler TO, Wheeler JR, Nguyen ED, Hughes MP, Britson KA, Lester E, Rao B, Betta ND, Whitney ON, Ewachiw TE, Gomes E, Shorter J, Lloyd TE, Eisenberg DS, Taylor JP, Johnson AM, Olwin BB, Parker R TDP-43 and RNA form amyloid-like myo-granules in regenerating muscle. Nature. 11 2018. 563(7732):508-513. 2018 PMID: 30464263

Li B, Ge P, Murray KA, Sheth P, Zhang M, Nair G, Sawaya MR, Shin WS, Boyer DR, Ye S, Eisenberg DS, Zhou ZH, Jiang L Cryo-EM of full-length α-synuclein reveals fibril polymorphs with a common structural kernel. Nat Commun. 09 2018. 9(1):3609. 2018 PMID: 30190461

Cao Q, Shin WS, Chan H, Vuong CK, Dubois B, Li B, Murray KA, Sawaya MR, Feigon J, Black DL, Eisenberg DS, Jiang L Inhibiting amyloid-β cytotoxicity through its interaction with the cell surface receptor LilrB2 by structure-based design. Nat Chem. Dec 2018. 10(12):1213-1221. 2018 PMID: 30297750

Hanczyc P, Mikhailovsky A, Boyer DR, Sawaya MR, Heeger A, Eisenberg D Ultrafast Time-Resolved Studies on Fluorescein for Recognition Strands Architecture in Amyloid Fibrils. J Phys Chem B. 01 2018. 122(1):8-18. 2018 PMID: 29237120

2017

Krotee P, Griner SL, Sawaya MR, Cascio D, Rodriguez JA, Shi D, Philipp S, Murray K, Saelices L, Lee J, Seidler P, Glabe CG, Jiang L, Gonen T, Eisenberg DS Common fibrillar spines of amyloid-β and human Islet Amyloid Polypeptide revealed by Micro Electron Diffraction and inhibitors developed using structure-based design. J. Biol. Chem.. Dec 2017. :. 2017 PMID: 29282295

P. M. Seidler, D. R. Boyer, J. A. Rodriguez, M. R. Sawaya, D. Cascio, K. Murray, T. Gonen & D. S. Eisenberg Structure-based inhibitors of tau aggregation Nature Chemistry, DOI: 10.1038/NCHEM.2889 2017

Kurt TD, Aguilar-Calvo P, Jiang L, Rodriguez JA, Alderson N, Eisenberg DS, Sigurdson CJ Asparagine and glutamine ladders promote cross-species prion conversion. J. Biol. Chem.. Sep 2017. :. 2017 PMID: 28931606

Eisenberg DS, Sawaya MR Neurodegeneration: Taming tangled tau. Nature. Jul 2017. :. 2017 PMID: 28678777

Sangwan S, Zhao A, Adams KL, Jayson CK, Sawaya MR, Guenther EL, Pan AC, Ngo J, Moore DM, Soriaga AB, Do TD, Goldschmidt L, Nelson R, Bowers MT, Koehler CM, Shaw DE, Novitch BG, Eisenberg DS Atomic structure of a toxic, oligomeric segment of SOD1 linked to amyotrophic lateral sclerosis (ALS). Proc. Natl. Acad. Sci. U.S.A.. Jul 2017. :. 2017 PMID: 28760994

Goedert M, Eisenberg DS, Crowther RA Propagation of Tau Aggregates and Neurodegeneration. Annu. Rev. Neurosci.. Jul 2017. 40:189-210. 2017 PMID: 28772101

Popp D, Loh ND, Zorgati H, Ghoshdastider U, Liow LT, Ivanova MI, Larsson M, DePonte DP, Bean R, Beyerlein KR, Gati C, Oberthuer D, Arnlund D, Brändén G, Berntsen P, Cascio D, Chavas LMG, Chen JPJ, Ding K, Fleckenstein H, Gumprecht L, Harimoorthy R, Mossou E, Sawaya MR, Brewster AS, Hattne J, Sauter NK, Seibert M, Seuring C, Stellato F, Tilp T, Eisenberg DS, Messerschmidt M, Williams GJ, Koglin JE, Makowski L, Millane RP, Forsyth T, Boutet S, White TA, Barty A, Chapman H, Chen SL, Liang M, Neutze R, Robinson RC Flow-aligned, single-shot fiber diffraction using a femtosecond X-ray free-electron laser. Cytoskeleton (Hoboken). Jun 2017. :. 2017 PMID: 28574190

Rodriguez JA, Eisenberg DS, Gonen T Taking the measure of MicroED. Curr. Opin. Struct. Biol.. Jun 2017. 46:79-86. 2017 PMID: 28648726

de la Cruz, M. Jason; Hattne, Johan; Shi, Dan; Seidler, Paul; Rodriguez, Jose; Reyes, Francis; Sawaya, Michael R.; Cascio, Duilio; Weiss, Simon C.; Kim, Sun Kyung; Hinck, Cynthia S.; Hinck, Andrew P.; Calero, Guillermo; Eisenberg, David; Gonen, Tamir Atomic-resolution structures from fragmented protein crystals with the cryoEM method MicroED Nature Methods, DOI:10.1038/NMETH.4178 2017

Pascal Krotee, Jose A Rodriguez, Michael R Sawaya, Duilio Cascio, Francis E Reyes, Dan Shi, Johan Hattne, Brent L Nannenga, Marie E Oskarsson, Stephan Philipp, Sarah Griner, Lin Jiang, Charles G Glabe, Gunilla T Westermark, Tamir Gonen, David S Eisenberg Atomic structures of fibrillar segments of hIAPP suggest tightly mated β-sheets are important for cytotoxicity Elife. 2017 Jan 3;6. pii: e19273. doi: 10.7554/eLife.19273 2017 PMID: 28045370

Rodriguez JA, Jiang L, Eisenberg DS Toward the Atomic Structure of PrPSc. Cold Spring Harb Perspect Biol. Jan 2017. :. 2017 PMID: 28096267

Eisenberg DS, Sawaya MR Structural Studies of Amyloid Proteins at the Molecular Level. Annu. Rev. Biochem.. Jan 2017. :. 2017 PMID: 28125289

2016

Thanh D. Do, Nichole E. LaPointe, Rebecca Nelson, Pascal Krotee, Eric Y. Hayden, Brittany Ulrich, Sarah Quan, Stuart C. Feinstein, David B. Teplow, David Eisenberg, Joan-Emma Shea, and Michael T. Bowers Amyloid β-Protein C-Terminal Fragments: Formation of Cylindrins and β-Barrels J. Am. Chem. Soc., 2016, 138 (2), pp 549–557 DOI: 10.1021/jacs.5b09536 2016

Sawaya MR, Rodriguez J, Cascio D, Collazo MJ, Shi D, Reyes FE, Hattne J, Gonen T, Eisenberg DS Ab initio structure determination from prion nanocrystals at atomic resolution by MicroED. Proc. Natl. Acad. Sci. U.S.A.. Sep 2016. :. 2016 PMID: 27647903

Colletier JP, Sawaya MR, Gingery M, Rodriguez JA, Cascio D, Brewster AS, Michels-Clark T, Hice RH, Coquelle N, Boutet S, Williams GJ, Messerschmidt M, DePonte DP, Sierra RG, Laksmono H, Koglin JE, Hunter MS, Park HW, Uervirojnangkoorn M, Bideshi DK, Brunger AT, Federici BA, Sauter NK, Eisenberg DS De novo phasing with X-ray laser reveals mosquito larvicide BinAB structure. Nature. Sep 2016. :. 2016 PMID: 27680699

Eisenberg DS, Sawaya MR Implications for Alzheimer's disease of an atomic resolution structure of amyloid-β(1-42) fibrils. Proc. Natl. Acad. Sci. U.S.A.. Aug 2016. 113(34):9398-400. 2016 PMID: 27506787

Smriti Sangwan, David S. Eisenberg Perspective on SOD1 mediated toxicity in Amyotrophic Lateral Sclerosis Review in Postepy Biochemii 2016 PMID: 28132491

Landreh M, Sawaya MR, Hipp MS, Eisenberg DS, Wüthrich K, Hartl FU The formation, function and regulation of amyloids: insights from structural biology. J. Intern. Med.. May 2016. :. 2016 PMID: 27237473

Soragni A, Janzen DM, Johnson LM, Lindgren AG, Thai-Quynh Nguyen A, Tiourin E, Soriaga AB, Lu J, Jiang L, Faull KF, Pellegrini M, Memarzadeh S, Eisenberg DS A Designed Inhibitor of p53 Aggregation Rescues p53 Tumor Suppression in Ovarian Carcinomas. Cancer Cell. Jan 2016. 29(1):90-103. 2016 PMID: 26748848

Moshe A, Landau M, Eisenberg D Preparation of Crystalline Samples of Amyloid Fibrils and Oligomers. Methods Mol. Biol.. 2016. 1345:201-10. 2016 PMID: 26453214

Riek R, Eisenberg DS The activities of amyloids from a structural perspective. Nature. 11 2016. 539(7628):227-235. 2016 PMID: 27830791

2015

Soriaga AB, Sangwan S, Macdonald R, Sawaya MR, Eisenberg DS Crystal Structures of IAPP Amyloidogenic Segments Reveal a Novel Packing Motif of Out-of-Register Beta Sheets J. Phys. Chem. B, Article ASAP DOI: 10.1021/acs.jpcb.5b09981 Publication Date (Web): December 2, 2015 2015

Brumshtein B, Esswein SR, Salwinski L, Phillips ML, Ly AT, Cascio D, Sawaya MR, Eisenberg DS Inhibition by small-molecule ligands of formation of amyloid fibrils of an immunoglobulin light chain variable domain. Elife. Nov 2015. 4:. 2015 PMID: 26576950

Saelices L, Johnson LM, Liang WY, Sawaya MR, Cascio D, Ruchala P, Whitelegge J, Jiang L, Riek R, Eisenberg DS Uncovering the Mechanism of Aggregation of Human Transthyretin. J. Biol. Chem.. Oct 2015. :. 2015 PMID: 26459562

Rodriguez JA, Ivanova MI, Sawaya MR, Cascio D, Reyes FE, Shi D, Sangwan S, Guenther EL, Johnson LM, Zhang M, Jiang L, Arbing MA, Nannenga BL, Hattne J, Whitelegge J, Brewster AS, Messerschmidt M, Boutet S, Sauter NK, Gonen T, Eisenberg DS Structure of the toxic core of α-synuclein from invisible crystals. Nature. Sep 2015. :. 2015 PMID: 26352473

Soragni A, Yousefi S, Stoeckle C, Soriaga AB, Sawaya MR, Kozlowski E, Schmid I, Radonjic-Hoesli S, Boutet S, Williams GJ, Messerschmidt M, Seibert MM, Cascio D, Zatsepin NA, Burghammer M, Riekel C, Colletier JP, Riek R, Eisenberg DS, Simon HU Toxicity of Eosinophil MBP Is Repressed by Intracellular Crystallization and Promoted by Extracellular Aggregation. Mol. Cell. Feb 2015. :. 2015 PMID: 25728769

Kurt TD, Jiang L, Fernández-Borges N, Bett C, Liu J, Yang T, Spraker TR, Castilla J, Eisenberg D, Kong Q, Sigurdson CJ Human prion protein sequence elements impede cross-species chronic wasting disease transmission. J. Clin. Invest.. Feb 2015. :. 2015 PMID: 25705888

Brewster AS, Sawaya MR, Rodriguez J, Hattne J, Echols N, McFarlane HT, Cascio D, Adams PD, Eisenberg DS, Sauter NK Indexing amyloid peptide diffraction from serial femtosecond crystallography: new algorithms for sparse patterns. Acta Crystallogr. D Biol. Crystallogr.. Feb 2015. 71(Pt 2):357-66. 2015 PMID: 25664747

2014

Li D, Jones EM, Sawaya MR, Furukawa H, Luo F, Ivanova M, Sievers SA, Wang W, Yaghi OM, Liu C, Eisenberg DS Structure-based design of functional amyloid materials. J. Am. Chem. Soc.. Dec 2014. 136(52):18044-51. 2014 PMID: 25474758

Sawaya MR, Cascio D, Gingery M, Rodriguez J, Goldschmidt L, Colletier JP, Messerschmidt MM, Boutet S, Koglin JE, Williams GJ, Brewster AS, Nass K, Hattne J, Botha S, Doak RB, Shoeman RL, DePonte DP, Park HW, Federici BA, Sauter NK, Schlichting I, Eisenberg DS Protein crystal structure obtained at 2.9 Å resolution from injecting bacterial cells into an X-ray free-electron laser beam. Proc. Natl. Acad. Sci. U.S.A.. Sep 2014. 111(35):12769-74. 2014 PMID: 25136092

Brumshtein B, Esswein SR, Landau M, Ryan CM, Whitelegge JP, Phillips ML, Cascio D, Sawaya MR, Eisenberg DS Formation of Amyloid Fibers by Monomeric Light-chain Variable Domains. J. Biol. Chem.. Aug 2014. :. 2014 PMID: 25138218

Do TD, LaPointe NE, Sangwan S, Teplow DB, Feinstein SC, Sawaya MR, Eisenberg DS, Bowers MT Factors that drive Peptide assembly from native to amyloid structures: experimental and theoretical analysis of [leu-5]-enkephalin mutants. J Phys Chem B. Jul 2014. 118(26):7247-56. 2014 PMID: 24915112

Korman TP, Sahachartsiri B, Li D, Vinokur JM, Eisenberg D, Bowie JU A synthetic biochemistry system for the in vitro production of isoprene from glycolysis intermediates. Protein Sci.. May 2014. 23(5):576-85. 2014 PMID: 24623472

Hochberg GK, Ecroyd H, Liu C, Cox D, Cascio D, Sawaya MR, Collier MP, Stroud J, Carver JA, Baldwin AJ, Robinson CV, Eisenberg DS, Benesch JL, Laganowsky A The structured core domain of αB-crystallin can prevent amyloid fibrillation and associated toxicity. Proc. Natl. Acad. Sci. U.S.A.. Apr 2014. 111(16):E1562-70. 2014 PMID: 24711386

Kurt TD, Jiang L, Bett C, Eisenberg D, Sigurdson CJ A Proposed Mechanism for the Promotion of Prion Conversion Involving a Strictly Conserved Tyrosine Residue in the β2-α2 loop of PrPC. J Biol Chem 289, 10660-10667 (2014); published online EpubApr 11 (10.1074/jbc.M114.549030) 2014 PMID: 24596090

Li D, Furukawa H, Deng H, Liu C, Yaghi OM, Eisenberg DS Designed amyloid fibers as materials for selective carbon dioxide capture. Proc. Natl. Acad. Sci. U.S.A.. Jan 2014. 111(1):191-6. 2014 PMID: 24367077

Ivanova MI, Sievers SA, Guenther EL, Johnson LM, Winkler DD, Galaleldeen A, Sawaya MR, Hart PJ, Eisenberg DS Aggregation-triggering segments of SOD1 fibril formation support a common pathway for familial and sporadic ALS. Proc. Natl. Acad. Sci. U.S.A.. Jan 2014. 111(1):197-201. 2014 PMID: 24344300

Goldschmidt L, Eisenberg D, Derewenda ZS Salvage or recovery of failed targets by mutagenesis to reduce surface entropy. Methods Mol. Biol.. 2014. 1140:201-9. 2014 PMID: 24590720

2013

Miallau L, Jain P, Arbing MA, Cascio D, Phan T, Ahn CJ, Chan S, Chernishof I, Maxson M, Chiang J, Jacobs WR, Eisenberg DS Comparative proteomics identifies the cell-associated lethality of M. tuberculosis RelBE-like toxin-antitoxin complexes. Structure. Apr 2013. 21(4):627-37. 2013 PMID: 23523424

Arbing MA, Chan S, Harris L, Kuo E, Zhou TT, Ahn CJ, Nguyen L, He Q, Lu J, Menchavez PT, Shin A, Holton T, Sawaya MR, Cascio D, Eisenberg D Heterologous expression of mycobacterial Esx complexes in Escherichia coli for structural studies is facilitated by the use of maltose binding protein fusions. PLoS ONE. 2013. 8(11):e81753. 2013 PMID: 24312350

Jiang L, Liu C, Leibly D, Landau M, Zhao M, Hughes MP, Eisenberg DS Structure-based discovery of fiber-binding compounds that reduce the cytotoxicity of amyloid beta. Elife. 2013. 2:e00857. 2013 PMID: 23878726

Eisenberg D My Sabbatical at the LMB in Memoirs of Scientists who Have Worked at the Laboratory of Molecular Biology, Cambridge, UK edited by H. Huxley. (2013) 2013

David Eisenberg Federal funding loss hurts research, economy UCLA Daily Bruin Editorial, October 16, 2013. 2013

2012

Liu C, Zhao M, Jiang L, Cheng PN, Park J, Sawaya MR, Pensalfini A, Gou D, Berk AJ, Glabe CG, Nowick J, Eisenberg D Out-of-register beta-sheets suggest a pathway to toxic amyloid aggregates Proc. Natl. Acad. Sci. U.S.A.. Dec 2012. 109(51):20913-8. 2012 PMID: 23213214

Cheng PN, Liu C, Zhao M, Eisenberg D, Nowick JS Amyloid beta-sheet mimics that antagonize protein aggregation and reduce amyloid toxicity Nat Chem. Nov 2012. 4(11):927-33. 2012 PMID: 23089868

Min AB, Miallau L, Sawaya MR, Habel J, Cascio D, Eisenberg D 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 Sci.. Nov 2012. 21(11):1754-67. 2012 PMID: 23011806

Gallat FX, Laganowsky A, Wood K, Gabel F, van Eijck L, Wuttke J, Moulin M, Härtlein M, Eisenberg D, Colletier JP, Zaccai G, Weik M Dynamical coupling of intrinsically disordered proteins and their hydration water: comparison with folded soluble and membrane proteins. Biophys. J.. Jul 2012. 103(1):129-36. 2012 PMID: 22828339

Kato M, Han TW, Xie S, Shi K, Du X, Wu LC, Mirzaei H, Goldsmith EJ, Longgood J, Pei J, Grishin NV, Frantz DE, Schneider JW, Chen S, Li L, Sawaya MR, Eisenberg D, Tycko R, McKnight SL Cell-free formation of RNA granules: low complexity sequence domains form dynamic fibers within hydrogels. Cell. May 2012. 149(4):753-67. 2012 PMID: 22579281

Stroud JC, Liu C, Teng PK, Eisenberg D Toxic fibrillar oligomers of amyloid-beta have cross-beta structure Proc. Natl. Acad. Sci. U.S.A.. May 2012. 109(20):7717-22. 2012 PMID: 22547798

Eisenberg D, Jucker M The amyloid state of proteins in human diseases. Cell. Mar 2012. 148(6):1188-203. 2012 PMID: 22424229

Laganowsky A, Liu C, Sawaya MR, Whitelegge JP, Park J, Zhao M, Pensalfini A, Soriaga AB, Landau M, Teng PK, Cascio D, Glabe C, Eisenberg D Atomic view of a toxic amyloid small oligomer. Science. Mar 2012. 335(6073):1228-31. 2012 PMID: 22403391

Teng PK, Anderson NJ, Goldschmidt L, Sawaya MR, Sambashivan S, Eisenberg D Ribonuclease A suggests how proteins self-chaperone against amyloid fiber formation. Protein Sci.. Jan 2012. 21(1):26-37. 2012 PMID: 22095666

Sawaya MR, Cascio D, Eisenberg D Amyloid Structures at the Atomic Level: Insights from Crystallography In Amyloid Fibrils and Prefibrillar Aggregates: Molecular and Biological Properties. Editor: Daniel E. Otzen. © 2013 Wiley-VCH Verlag GmbH & Co. KGaA. Published 2013 by Wiley-VCH Verlag GmbH & Co. KGaA. 2012

2011

Colletier JP, Laganowsky A, Landau M, Zhao M, Soriaga AB, Goldschmidt L, Flot D, Cascio D, Sawaya MR, Eisenberg D Molecular basis for amyloid-beta polymorphism. Proc. Natl. Acad. Sci. U.S.A.. Oct 2011. 108(41):16938-43. 2011 PMID: 21949245

Aranda B, Blankenburg H, Kerrien S, Brinkman FS, Ceol A, Chautard E, Dana JM, De Las Rivas J, Dumousseau M, Galeota E, Gaulton A, Goll J, Hancock RE, Isserlin R, Jimenez RC, Kerssemakers J, Khadake J, Lynn DJ, Michaut M, O'Kelly G, Ono K, Orchard S, Prieto C, Razick S, Rigina O, Salwinski L, Simonovic M, Velankar S, Winter A, Wu G, Bader GD, Cesareni G, Donaldson IM, Eisenberg D, Kleywegt GJ, Overington J, Ricard-Blum S, Tyers M, Albrecht M, Hermjakob H PSICQUIC and PSISCORE: accessing and scoring molecular interactions. Nat. Methods. Jul 2011. 8(7):528-9. 2011 PMID: 21716279

Sievers SA, Karanicolas J, Chang HW, Zhao A, Jiang L, Zirafi O, Stevens JT, Munch J, Baker D, Eisenberg D Structure-based design of non-natural amino-acid inhibitors of amyloid fibril formation. Nature. Jul 2011. 475(7354):96-100. 2011 PMID: 21677644

Landau M, Sawaya MR, Faull KF, Laganowsky A, Jiang L, Sievers SA, Liu J, Barrio JR, Eisenberg D Towards a pharmacophore for amyloid. PLoS Biol.. Jun 2011. 9(6):e1001080. 2011 PMID: 21695112

Zhao M, Cascio D, Sawaya MR, Eisenberg D Structures of segments of alpha-synuclein fused to maltose-binding protein suggest intermediate states during amyloid formation Protein Sci.. Jun 2011. 20(6):996-1004. 2011 PMID: 21462277

Liu C, Sawaya MR, Cheng PN, Zheng J, Nowick JS, Eisenberg D Characteristics of amyloid-related oligomers revealed by crystal structures of macrocyclic beta-sheet mimics J. Am. Chem. Soc.. May 2011. 133(17):6736-44. 2011 PMID: 21473620

Apostol MI, Wiltzius JJ, Sawaya MR, Cascio D, Eisenberg D Atomic structures suggest determinants of transmission barriers in mammalian prion disease. Biochemistry. Apr 2011. 50(13):2456-63. 2011 PMID: 21323366

Zheng J, Liu C, Sawaya MR, Vadla B, Khan S, Woods RJ, Eisenberg D, Goux WJ, Nowick JS Macrocyclic beta-sheet peptides that inhibit the aggregation of a tau-protein-derived hexapeptide J. Am. Chem. Soc.. Mar 2011. 133(9):3144-57. 2011 PMID: 21319744

Chim N, Habel JE, Johnston JM, Krieger I, Miallau L, Sankaranarayanan R, Morse RP, Bruning J, Swanson S, Kim H, Kim CY, Li H, Bulloch EM, Payne RJ, Manos-Turvey A, Hung LW, Baker EN, Lott JS, James MN, Terwilliger TC, Eisenberg DS, Sacchettini JC, Goulding CW The TB Structural Genomics Consortium: a decade of progress. Tuberculosis (Edinb). Mar 2011. 91(2):155-72. 2011 PMID: 21247804

Liu C, Sawaya MR, Eisenberg D Beta2-microglobulin forms three-dimensional domain-swapped amyloid fibrils with disulfide linkages. Nat. Struct. Mol. Biol.. Jan 2011. 18(1):49-55. 2011 PMID: 21131979

2010

Laganowsky A, Eisenberg D Non-3D domain swapped crystal structure of truncated zebrafish alphaA crystallin. Protein Sci.. Oct 2010. 19(10):1978-84. 2010 PMID: 20669149

Apostol MI, Sawaya MR, Cascio D, Eisenberg D Crystallographic studies of prion protein (PrP) segments suggest how structural changes encoded by polymorphism at residue 129 modulate susceptibility to human prion disease. J. Biol. Chem.. Sep 2010. 285(39):29671-5. 2010 PMID: 20685658

Arbing MA, Kaufmann M, Phan T, Chan S, Cascio D, Eisenberg D The crystal structure of the Mycobacterium tuberculosis Rv3019c-Rv3020c ESX complex reveals a domain-swapped heterotetramer. Protein Sci.. Sep 2010. 19(9):1692-703. 2010 PMID: 20629176

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.. Aug 2010. 132(33):11622-8. 2010 PMID: 20669960

Ostapchenko VG, Sawaya MR, Makarava N, Savtchenko R, Nilsson KP, Eisenberg D, Baskakov IV Two amyloid States of the prion protein display significantly different folding patterns. J. Mol. Biol.. Jul 2010. 400(4):908-21. 2010 PMID: 20553730

Laganowsky A, Benesch JL, Landau M, Ding L, Sawaya MR, Cascio D, Huang Q, Robinson CV, Horwitz J, Eisenberg D Crystal structures of truncated alphaA and alphaB crystallins reveal structural mechanisms of polydispersity important for eye lens function. Protein Sci.. May 2010. 19(5):1031-43. 2010 PMID: 20440841

Wang L, Schubert D, Sawaya MR, Eisenberg D, Riek R Multidimensional structure-activity relationship of a protein in its aggregated states. Angew. Chem. Int. Ed. Engl.. May 2010. 49(23):3904-8. 2010 PMID: 20397175

Goldschmidt L, Teng PK, Riek R, Eisenberg D Identifying the amylome, proteins capable of forming amyloid-like fibrils. Proc. Natl. Acad. Sci. U.S.A.. Feb 2010. 107(8):3487-92. 2010 PMID: 20133726

2009

Salwinski L, Licata L, Winter A, Thorneycroft D, Khadake J, Ceol A, Aryamontri AC, Oughtred R, Livstone M, Boucher L, Botstein D, Dolinski K, Berardini T, Huala E, Tyers M, Eisenberg D, Cesareni G, Hermjakob H Recurated protein interaction datasets. Nat. Methods. Dec 2009. 6(12):860-1. 2009 PMID: 19935838

Ivanova MI, Sievers SA, Sawaya MR, Wall JS, Eisenberg D Molecular basis for insulin fibril assembly. Proc. Natl. Acad. Sci. U.S.A.. Nov 2009. 106(45):18990-5. 2009 PMID: 19864624

Wiltzius JJ, Landau M, Nelson R, Sawaya MR, Apostol MI, Goldschmidt L, Soriaga AB, Cascio D, Rajashankar K, Eisenberg D Molecular mechanisms for protein-encoded inheritance. Nat. Struct. Mol. Biol.. Sep 2009. 16(9):973-8. 2009 PMID: 19684598

Teng PK, Eisenberg D Short protein segments can drive a non-fibrillizing protein into the amyloid state. Protein Eng. Des. Sel.. Aug 2009. 22(8):531-6. 2009 PMID: 19602569

Maji SK, Perrin MH, Sawaya MR, Jessberger S, Vadodaria K, Rissman RA, Singru PS, Nilsson KP, Simon R, Schubert D, Eisenberg D, Rivier J, Sawchenko P, Vale W, Riek R Functional amyloids as natural storage of peptide hormones in pituitary secretory granules. Science. Jul 2009. 325(5938):328-32. 2009 PMID: 19541956

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 Sci.. Jul 2009. 18(7):1521-30. 2009 PMID: 19475663

Miallau L, Faller M, Chiang J, Arbing M, Guo F, Cascio D, Eisenberg D Structure and proposed activity of a member of the VapBC family of toxin-antitoxin systems. VapBC-5 from Mycobacterium tuberculosis. J. Biol. Chem.. Jan 2009. 284(1):276-83. 2009 PMID: 18952600

Sprinzak E, Cokus SJ, Yeates TO, Eisenberg D, Pellegrini M Detecting coordinated regulation of multi-protein complexes using logic analysis of gene expression. BMC Syst Biol. 2009. 3:115. 2009 PMID: 20003439

Hill RL, Glazier AN, Eisenberg D Retrospective: Emil L. Smith (1911-2009) ASBMB Today, ASBMB News, October (2009). 2009

2008

Zhang K, Sawaya MR, Eisenberg DS, Liao JC Expanding metabolism for biosynthesis of nonnatural alcohols. Proc. Natl. Acad. Sci. U.S.A.. Dec 2008. 105(52):20653-8. 2008 PMID: 19064911

Medrano-Soto A, Pal D, Eisenberg D Inferring molecular function: contributions from functional linkages. Trends Genet.. Dec 2008. 24(12):587-90. 2008 PMID: 18951645

Llewellyn R, Eisenberg DS Annotating proteins with generalized functional linkages. Proc. Natl. Acad. Sci. U.S.A.. Nov 2008. 105(46):17700-5. 2008 PMID: 19004787

Sawaya MR, Wojtowicz WM, Andre I, Qian B, Wu W, Baker D, Eisenberg D, Zipursky SL A double S shape provides the structural basis for the extraordinary binding specificity of Dscam isoforms. Cell. Sep 2008. 134(6):1007-18. 2008 PMID: 18805093

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 (amylin). Protein Sci.. Sep 2008. 17(9):1467-74. 2008 PMID: 18556473

Guo Z, Eisenberg D The structure of a fibril-forming sequence, NNQQNY, in the context of a globular fold. Protein Sci.. Sep 2008. 17(9):1617-23. 2008 PMID: 18552127

Wang L, Maji SK, Sawaya MR, Eisenberg D, Riek R Bacterial inclusion bodies contain amyloid-like structure. PLoS Biol.. Aug 2008. 6(8):e195. 2008 PMID: 18684013

Cruz D, Watson AD, Miller CS, Montoya D, Ochoa MT, Sieling PA, Gutierrez MA, Navab M, Reddy ST, Witztum JL, Fogelman AM, Rea TH, Eisenberg D, Berliner J, Modlin RL Host-derived oxidized phospholipids and HDL regulate innate immunity in human leprosy. J. Clin. Invest.. Aug 2008. 118(8):2917-28. 2008 PMID: 18636118

Miller CS, Eisenberg D Using inferred residue contacts to distinguish between correct and incorrect protein models. Bioinformatics. Jul 2008. 24(14):1575-82. 2008 PMID: 18511466

Riley R, Pellegrini M, Eisenberg D Identifying cognate binding pairs among a large set of paralogs: the case of PE/PPE proteins of Mycobacterium tuberculosis. PLoS Comput. Biol.. 2008. 4(9):e1000174. 2008 PMID: 18787688

2007

Anderson DH, Kickhoefer VA, Sievers SA, Rome LH, Eisenberg D Draft crystal structure of the vault shell at 9-A resolution. PLoS Biol.. Nov 2007. 5(11):e318. 2007 PMID: 18044992

Kim SM, Bowers PM, Pal D, Strong M, Terwilliger TC, Kaufmann M, Eisenberg D Functional linkages can reveal protein complexes for structure determination. Structure. Sep 2007. 15(9):1079-89. 2007 PMID: 17850747

Orchard S, Salwinski L, Kerrien S, Montecchi-Palazzi L, Oesterheld M, Stümpflen V, Ceol A, Chatr-aryamontri A, Armstrong J, Woollard P, Salama JJ, Moore S, Wojcik J, Bader GD, Vidal M, Cusick ME, Gerstein M, Gavin AC, Superti-Furga G, Greenblatt J, Bader J, Uetz P, Tyers M, Legrain P, Fields S, Mulder N, Gilson M, Niepmann M, Burgoon L, De Las Rivas J, Prieto C, Perreau VM, Hogue C, Mewes HW, Apweiler R, Xenarios I, Eisenberg D, Cesareni G, Hermjakob H The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat. Biotechnol.. Aug 2007. 25(8):894-8. 2007 PMID: 17687370

Goldschmidt L, Cooper DR, Derewenda ZS, Eisenberg D Toward rational protein crystallization: A Web server for the design of crystallizable protein variants. Protein Sci.. Aug 2007. 16(8):1569-76. 2007 PMID: 17656576

Salwinski L, Eisenberg D The MiSink Plugin: Cytoscape as a graphical interface to the Database of Interacting Proteins. Bioinformatics. Aug 2007. 23(16):2193-5. 2007 PMID: 17553858

Murillo AC, Li HY, Alber T, Baker EN, Berger JM, Cherney LT, Cherney MM, Cho YS, Eisenberg D, Garen CR, Goulding CW, Hung LW, Ioerger TR, Jacobs WR, James MN, Kim C, Krieger I, Lott JS, Sankaranarayanan R, Segelke BW, Terwilliger TC, Wang F, Wang S, Sacchettini JC High throughput crystallography of TB drug targets. Infect Disord Drug Targets. Jun 2007. 7(2):127-39. 2007 PMID: 17970224

Sawaya MR, Sambashivan S, Nelson R, Ivanova MI, Sievers SA, Apostol MI, Thompson MJ, Balbirnie M, Wiltzius JJ, McFarlane HT, Madsen AØ, Riekel C, Eisenberg D Atomic structures of amyloid cross-beta spines reveal varied steric zippers. Nature. May 2007. 447(7143):453-7. 2007 PMID: 17468747

Guo Z, Eisenberg D The mechanism of the amyloidogenic conversion of T7 endonuclease I. J. Biol. Chem.. May 2007. 282(20):14968-74. 2007 PMID: 17360710

Tsemekhman K, Goldschmidt L, Eisenberg D, Baker D Cooperative hydrogen bonding in amyloid formation. Protein Sci.. Apr 2007. 16(4):761-4. 2007 PMID: 17327394

Yooseph S, Sutton G, Rusch DB, Halpern AL, Williamson SJ, Remington K, Eisen JA, Heidelberg KB, Manning G, Li W, Jaroszewski L, Cieplak P, Miller CS, Li H, Mashiyama ST, Joachimiak MP, van Belle C, Chandonia JM, Soergel DA, Zhai Y, Natarajan K, Lee S, Raphael BJ, Bafna V, Friedman R, Brenner SE, Godzik A, Eisenberg D, Dixon JE, Taylor SS, Strausberg RL, Frazier M, Venter JC The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol.. Mar 2007. 5(3):e16. 2007 PMID: 17355171

White EL, Southworth K, Ross L, Cooley S, Gill RB, Sosa MI, Manouvakhova A, Rasmussen L, Goulding C, Eisenberg D, Fletcher TM A novel inhibitor of Mycobacterium tuberculosis pantothenate synthetase. J Biomol Screen. Feb 2007. 12(1):100-5. 2007 PMID: 17175524

Goulding CW, Bowers PM, Segelke B, Lekin T, Kim CY, Terwilliger TC, Eisenberg D The structure and computational analysis of Mycobacterium tuberculosis protein CitE suggest a novel enzymatic function. J. Mol. Biol.. Jan 2007. 365(2):275-83. 2007 PMID: 17064730

Strong M, Eisenberg D The protein network as a tool for finding novel drug targets. Prog Drug Res. 2007. 64:191, 193-215. 2007 PMID: 17195476

Kerrien S, Orchard S, Montecchi-Palazzi L, Aranda B, Quinn AF, Vinod N, Bader GD, Xenarios I, Wojcik J, Sherman D, Tyers M, Salama JJ, Moore S, Ceol A, Chatr-Aryamontri A, Oesterheld M, Stumpflen V, Salwinski L, Nerothin J, Cerami E, Cusick ME, Vidal M, Gilson M, Armstrong J, Woollard P, Hogue C, Eisenberg D, Cesareni G, Apweiler R, Hermjakob H Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol.. 2007. 5:44. 2007 PMID: 17925023

Kuriyan J, Eisenberg D The origin of protein interactions and allostery in colocalization Nature, 450, 983-990, (2007). 2007

2006

Abdallah AM, Verboom T, Hannes F, Safi M, Strong M, Eisenberg D, Musters RJ, Vandenbroucke-Grauls CM, Appelmelk BJ, Luirink J, Bitter W A specific secretion system mediates PPE41 transport in pathogenic mycobacteria. Mol. Microbiol.. Nov 2006. 62(3):667-79. 2006 PMID: 17076665

Eisenberg D, Nelson R, Sawaya MR, Balbirnie M, Sambashivan S, Ivanova MI, Madsen AØ, Riekel C The structural biology of protein aggregation diseases: Fundamental questions and some answers. Acc. Chem. Res.. Sep 2006. 39(9):568-75. 2006 PMID: 16981672

Guo Z, Eisenberg D Runaway domain swapping in amyloid-like fibrils of T7 endonuclease I. Proc. Natl. Acad. Sci. U.S.A.. May 2006. 103(21):8042-7. 2006 PMID: 16698921

Bennett MJ, Sawaya MR, Eisenberg D Deposition diseases and 3D domain swapping. Structure. May 2006. 14(5):811-24. 2006 PMID: 16698543

Strong M, Sawaya MR, Wang S, Phillips M, Cascio D, Eisenberg D Toward the structural genomics of complexes: crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. U.S.A.. May 2006. 103(21):8060-5. 2006 PMID: 16690741

Nelson R, Eisenberg D Recent atomic models of amyloid fibril structure. Curr. Opin. Struct. Biol.. Apr 2006. 16(2):260-5. 2006 PMID: 16563741

Ivanova MI, Thompson MJ, Eisenberg D A systematic screen of beta(2)-microglobulin and insulin for amyloid-like segments. Proc. Natl. Acad. Sci. U.S.A.. Mar 2006. 103(11):4079-82. 2006 PMID: 16537488

Thompson MJ, Sievers SA, Karanicolas J, Ivanova MI, Baker D, Eisenberg D The 3D profile method for identifying fibril-forming segments of proteins. Proc. Natl. Acad. Sci. U.S.A.. Mar 2006. 103(11):4074-8. 2006 PMID: 16537487

Eisenberg D, Marcotte E, McLachlan AD, Pellegrini M Bioinformatic challenges for the next decade(s). Philos. Trans. R. Soc. Lond., B, Biol. Sci.. Mar 2006. 361(1467):525-7. 2006 PMID: 16524841

Rachman H, Strong M, Schaible U, Schuchhardt J, Hagens K, Mollenkopf H, Eisenberg D, Kaufmann SH Mycobacterium tuberculosis gene expression profiling within the context of protein networks. Microbes Infect.. Mar 2006. 8(3):747-57. 2006 PMID: 16513384

Liu PT, Stenger S, Li H, Wenzel L, Tan BH, Krutzik SR, Ochoa MT, Schauber J, Wu K, Meinken C, Kamen DL, Wagner M, Bals R, Steinmeyer A, Zügel U, Gallo RL, Eisenberg D, Hewison M, Hollis BW, Adams JS, Bloom BR, Modlin RL Toll-like receptor triggering of a vitamin D-mediated human antimicrobial response. Science. Mar 2006. 311(5768):1770-3. 2006 PMID: 16497887

Wang S, Eisenberg D Crystal structure of the pantothenate synthetase from Mycobacterium tuberculosis, snapshots of the enzyme in action. Biochemistry. Feb 2006. 45(6):1554-61. 2006 PMID: 16460002

Rachman H, Strong M, Ulrichs T, Grode L, Schuchhardt J, Mollenkopf H, Kosmiadi GA, Eisenberg D, Kaufmann SH Unique transcriptome signature of Mycobacterium tuberculosis in pulmonary tuberculosis. Infect. Immun.. Feb 2006. 74(2):1233-42. 2006 PMID: 16428773

Nelson R, Eisenberg D Structural models of amyloid-like fibrils. Adv. Protein Chem.. 2006. 73:235-82. 2006 PMID: 17190616

Nelson R, Riekel C, Sawaya MR, Balbirnie M, Madsen AO, Eisenberg D ESRF Highlight: The Structure from microcrystals of the cross-β spine of amyloid ESRF Highlights, 62-64 (2006). 2006

2005

Bowers PM, O'Connor BD, Cokus SJ, Sprinzak E, Yeates TO, Eisenberg D Utilizing logical relationships in genomic data to decipher cellular processes. FEBS J.. Oct 2005. 272(20):5110-8. 2005 PMID: 16218945

Sambashivan S, Liu Y, Sawaya MR, Gingery M, Eisenberg D Amyloid-like fibrils of ribonuclease A with three-dimensional domain-swapped and native-like structure. Nature. Sep 2005. 437(7056):266-9. 2005 PMID: 16148936

Nelson R, Sawaya MR, Balbirnie M, Madsen AØ, Riekel C, Grothe R, Eisenberg D Structure of the cross-beta spine of amyloid-like fibrils. Nature. Jun 2005. 435(7043):773-8. 2005 PMID: 15944695

Li H, Sawaya MR, Tabita FR, Eisenberg D Crystal structure of a RuBisCO-like protein from the green sulfur bacterium Chlorobium tepidum. Structure. May 2005. 13(5):779-89. 2005 PMID: 15893668

Goulding CW, Apostol MI, Sawaya MR, Phillips M, Parseghian A, Eisenberg D Regulation by oligomerization in a mycobacterial folate biosynthetic enzyme. J. Mol. Biol.. May 2005. 349(1):61-72. 2005 PMID: 15876368

Muller P, Sawaya MR, Pashkov I, Chan S, Nguyen C, Wu Y, Perry LJ, Eisenberg D The 1.70 angstroms X-ray crystal structure of Mycobacterium tuberculosis phosphoglycerate mutase. Acta Crystallogr. D Biol. Crystallogr.. Mar 2005. 61(Pt 3):309-15. 2005 PMID: 15735341

Li H, Pellegrini M, Eisenberg D Detection of parallel functional modules by comparative analysis of genome sequences. Nat. Biotechnol.. Feb 2005. 23(2):253-60. 2005 PMID: 15696156

Pal D, Eisenberg D Inference of protein function from protein structure. Structure. Jan 2005. 13(1):121-30. 2005 PMID: 15642267

Riley R, Lee C, Sabatti C, Eisenberg D Inferring protein domain interactions from databases of interacting proteins. Genome Biol.. 2005. 6(10):R89. 2005 PMID: 16207360

Dickerso RE Present at the Flood. How Structural Molecular Biology Came About Sinauer Associates, Inc. Sunderland, Massachusetts, U.S.A. Review by D.Eisenberg Nature Structural and Molecular Biology, 12:9, 731-732, (2005). 2005

Eisenberg D, Kauzmann W The Structure and Properties of Water bibl., Book Published of Collection: Oxford Classic Texts in the Physical Sciences (2005). 2005

Wang S, Eisenberg D Snapshots of the Pantothenate Synthetase from Mycobaterium Tuberculosis Along the Reaction Coordinate ACA meeting Review, (2005). 2005

2004

Bowers PM, Cokus SJ, Eisenberg D, Yeates TO Use of logic relationships to decipher protein network organization. Science. Dec 2004. 306(5705):2246-9. 2004 PMID: 15618515

Bennett MJ, Eisenberg D The evolving role of 3D domain swapping in proteins. Structure. Aug 2004. 12(8):1339-41. 2004 PMID: 15296726

Salwinski L, Eisenberg D In silico simulation of biological network dynamics. Nat. Biotechnol.. Aug 2004. 22(8):1017-9. 2004 PMID: 15235611

Reinhardt A, Eisenberg D DPANN: improved sequence to structure alignments following fold recognition. Proteins. Aug 2004. 56(3):528-38. 2004 PMID: 15229885

Ivanova MI, Sawaya MR, 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.. Jul 2004. 101(29):10584-9. 2004 PMID: 15249659

Strong M, Cascio D, Eisenberg D A web-based comparative genomics tutorial for investigating microbial genomes. Microbiol Educ. May 2004. 5:30-5. 2004 PMID: 23653555

Hermjakob H, Montecchi-Palazzi L, Bader G, Wojcik J, Salwinski L, Ceol A, Moore S, Orchard S, Sarkans U, von Mering C, Roechert B, Poux S, Jung E, Mersch H, Kersey P, Lappe M, Li Y, Zeng R, Rana D, Nikolski M, Husi H, Brun C, Shanker K, Grant SG, Sander C, Bork P, Zhu W, Pandey A, Brazma A, Jacq B, Vidal M, Sherman D, Legrain P, Cesareni G, Xenarios I, Eisenberg D, Steipe B, Hogue C, Apweiler R The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat. Biotechnol.. Feb 2004. 22(2):177-83. 2004 PMID: 14755292

Salwinski L, Miller CS, Smith AJ, Pettit FK, Bowie JU, Eisenberg D The Database of Interacting Proteins: 2004 update. Nucleic Acids Res.. Jan 2004. 32(Database issue):D449-51. 2004 PMID: 14681454

Goulding CW, Apostol MI, 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.. Jan 2004. 279(5):3516-24. 2004 PMID: 14597624

Kleiger G, Panina EM, Mallick P, Eisenberg D PFIT and PFRIT: bioinformatic algorithms for detecting glycosidase function from structure and sequence. Protein Sci.. Jan 2004. 13(1):221-9. 2004 PMID: 14691237

Bowers PM, Pellegrini M, Thompson MJ, Fierro J, Yeates TO, Eisenberg D Prolinks: a database of protein functional linkages derived from coevolution. Genome Biol.. 2004. 5(5):R35. 2004 PMID: 15128449

Pellegrini M, Fitz-Gibbon ST, Yeates T, Eisenberg D Phylogenetic Profiling Wiley Publishers, The Atrium, (2004). 2004

2003

Strong M, Graeber TG, Beeby M, Pellegrini M, Thompson MJ, Yeates TO, Eisenberg D Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps. Nucleic Acids Res.. Dec 2003. 31(24):7099-109. 2003 PMID: 14654685

Lee S, Sawaya MR, Eisenberg D Structure of superoxide dismutase from Pyrobaculum aerophilum presents a challenging case in molecular replacement with multiple molecules, pseudo-symmetry and twinning. Acta Crystallogr. D Biol. Crystallogr.. Dec 2003. 59(Pt 12):2191-9. 2003 PMID: 14646077

Ivanova MI, Gingery M, Whitson LJ, Eisenberg D Role of the C-terminal 28 residues of beta2-microglobulin in amyloid fibril formation. Biochemistry. Nov 2003. 42(46):13536-40. 2003 PMID: 14622000

Hsu T, Hingley-Wilson SM, Chen B, Chen M, Dai AZ, Morin PM, Marks CB, Padiyar J, Goulding C, Gingery M, Eisenberg D, Russell RG, Derrick SC, Collins FM, Morris SL, King CH, Jacobs WR 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.. Oct 2003. 100(21):12420-5. 2003 PMID: 14557547

Goulding CW, Perry LJ, Anderson D, Sawaya MR, Cascio D, Apostol MI, Chan S, Parseghian A, Wang SS, Wu Y, Cassano V, Gill HS, Eisenberg D Structural genomics of Mycobacterium tuberculosis: a preliminary report of progress at UCLA. Biophys. Chem.. Sep 2003. 105(2-3):361-70. 2003 PMID: 14499904

Eisenberg D The discovery of the alpha-helix and beta-sheet, the principal structural features of proteins. Proc. Natl. Acad. Sci. U.S.A.. Sep 2003. 100(20):11207-10. 2003 PMID: 12966187

Lee S, Eisenberg D Seeded conversion of recombinant prion protein to a disulfide-bonded oligomer by a reduction-oxidation process. Nat. Struct. Biol.. Sep 2003. 10(9):725-30. 2003 PMID: 12897768

Diaz-Avalos R, Long C, Fontano E, Balbirnie M, Grothe R, Eisenberg D, Caspar DL Cross-beta order and diversity in nanocrystals of an amyloid-forming peptide. J. Mol. Biol.. Jul 2003. 330(5):1165-75. 2003 PMID: 12860136

Salwinski L, Eisenberg D Computational methods of analysis of protein-protein interactions. Curr. Opin. Struct. Biol.. Jun 2003. 13(3):377-82. 2003 PMID: 12831890

Wang S, Eisenberg D Crystal structures of a pantothenate synthetase from M. tuberculosis and its complexes with substrates and a reaction intermediate. Protein Sci.. May 2003. 12(5):1097-108. 2003 PMID: 12717031

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.. Apr 2003. 100(8):4539-44. 2003 PMID: 12668760

Mura C, Kozhukhovsky A, Gingery M, Phillips M, Eisenberg D The oligomerization and ligand-binding properties of Sm-like archaeal proteins (SmAPs). Protein Sci.. Apr 2003. 12(4):832-47. 2003 PMID: 12649441

Mura C, Katz JE, Clarke SG, Eisenberg D Structure and function of an archaeal homolog of survival protein E (SurEalpha): an acid phosphatase with purine nucleotide specificity. J. Mol. Biol.. Mar 2003. 326(5):1559-75. 2003 PMID: 12595266

McCarty AS, Kleiger G, Eisenberg D, Smale ST Selective dimerization of a C2H2 zinc finger subfamily. Mol. Cell. Feb 2003. 11(2):459-70. 2003 PMID: 12620233

Anderson DH, Sawaya MR, Cascio D, Ernst W, Modlin R, Krensky A, Eisenberg D Granulysin crystal structure and a structure-derived lytic mechanism. J. Mol. Biol.. Jan 2003. 325(2):355-65. 2003 PMID: 12488100

Strong M, Mallick P, Pellegrini M, Thompson MJ, Eisenberg D Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach. Genome Biol.. 2003. 4(9):R59. 2003 PMID: 12952538

Terwilliger TC, Park MS, Waldo GS, Berendzen J, Hung LW, Kim CY, Smith CV, Sacchettini JC, Bellinzoni M, Bossi R, De Rossi E, Mattevi A, Milano A, Riccardi G, Rizzi M, Roberts MM, Coker AR, Fossati G, Mascagni P, Coates AR, Wood SP, Goulding CW, Apostol MI, Anderson DH, Gill HS, Eisenberg DS, Taneja B, Mande S, Pohl E, Lamzin V, Tucker P, Wilmanns M, Colovos C, Meyer-Klaucke W, Munro AW, McLean KJ, Marshall KR, Leys D, Yang JK, Yoon HJ, Lee BI, Lee MG, Kwak JE, Han BW, Lee JY, Baek SH, Suh SW, Komen MM, Arcus VL, Baker EN, Lott JS, Jacobs W, Alber T, Rupp B The TB structural genomics consortium: a resource for Mycobacterium tuberculosis biology. Tuberculosis (Edinb). 2003. 83(4):223-49. 2003 PMID: 12906835

Eisenberg D John T. Edsall as tutor and teacher. Biophys. Chem.. 2003. 100(1-3):91-3. 2003 PMID: 12646352

Cech TR, Eddy SR, Eisenberg D, Hersey K, Holtzman SH, Poste GH, Raikhel NV, Scheller RH, Singer DB, Waltham MC Sharing publication-related data and materials: responsibilities of authorship in the life sciences National Academics Committee on Responsibilities of Authorship in the Biological Sciences. Plant Physiology, 132(1):19-24, (2003). 2003

2002

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.. Dec 2002. 99(25):16041-6. 2002 PMID: 12461172

Goulding CW, Parseghian A, Sawaya MR, Cascio D, Apostol MI, Gennaro ML, Eisenberg D Crystal structure of a major secreted protein of Mycobacterium tuberculosis-MPT63 at 1.5-A resolution. Protein Sci.. Dec 2002. 11(12):2887-93. 2002 PMID: 12441386

Kleiger G, Eisenberg D GXXXG and GXXXA motifs stabilize FAD and NAD(P)-binding Rossmann folds through C(alpha)-H... O hydrogen bonds and van der waals interactions. J. Mol. Biol.. Oct 2002. 323(1):69-76. 2002 PMID: 12368099

Gill HS, Pfluegl GM, Eisenberg D Multicopy crystallographic refinement of a relaxed glutamine synthetase from Mycobacterium tuberculosis highlights flexible loops in the enzymatic mechanism and its regulation. Biochemistry. Aug 2002. 41(31):9863-72. 2002 PMID: 12146952

Mallick P, Boutz DR, Eisenberg D, Yeates TO Genomic evidence that the intracellular proteins of archaeal microbes contain disulfide bonds. Proc. Natl. Acad. Sci. U.S.A.. Jul 2002. 99(15):9679-84. 2002 PMID: 12107280

Goulding CW, Apostol M, Anderson DH, Gill HS, Smith CV, Kuo MR, Yang JK, Waldo GS, Suh SW, Chauhan R, Kale A, Bachhawat N, Mande SC, Johnston JM, Lott JS, Baker EN, Arcus VL, Leys D, McLean KJ, Munro AW, Berendzen J, Sharma V, Park MS, Eisenberg D, Sacchettini J, Alber T, Rupp B, Jacobs W, Terwilliger TC The TB structural genomics consortium: providing a structural foundation for drug discovery. Curr Drug Targets Infect Disord. Jun 2002. 2(2):121-41. 2002 PMID: 12462144

Goulding CW, Sawaya MR, 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. Jun 2002. 41(22):6920-7. 2002 PMID: 12033924

Liu Y, Eisenberg D 3D domain swapping: as domains continue to swap. Protein Sci.. Jun 2002. 11(6):1285-99. 2002 PMID: 12021428

Deane CM, Salwinski L, Xenarios I, Eisenberg D Protein interactions: two methods for assessment of the reliability of high throughput observations. Mol. Cell Proteomics. May 2002. 1(5):349-56. 2002 PMID: 12118076

Ghirlanda G, Lear JD, Ogihara NL, Eisenberg D, DeGrado WF A hierarchic approach to the design of hexameric helical barrels. J. Mol. Biol.. May 2002. 319(1):243-53. 2002 PMID: 12051949

Kleiger G, Grothe R, Mallick P, Eisenberg D GXXXG and AXXXA: common alpha-helical interaction motifs in proteins, particularly in extremophiles. Biochemistry. May 2002. 41(19):5990-7. 2002 PMID: 11993993

Wang S, Mura C, Sawaya MR, Cascio D, Eisenberg D Structure of a Nudix protein from Pyrobaculum aerophilum reveals a dimer with two intersubunit beta-sheets. Acta Crystallogr. D Biol. Crystallogr.. Apr 2002. 58(Pt 4):571-8. 2002 PMID: 11914479

Duan XJ, Xenarios I, Eisenberg D Describing biological protein interactions in terms of protein states and state transitions: the LiveDIP database. Mol. Cell Proteomics. Feb 2002. 1(2):104-16. 2002 PMID: 12096128

Liu Y, Gotte G, Libonati M, Eisenberg D Structures of the two 3D domain-swapped RNase A trimers. Protein Sci.. Feb 2002. 11(2):371-80. 2002 PMID: 11790847

Xenarios I, Salwínski L, Duan XJ, Higney P, Kim SM, Eisenberg D DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res.. Jan 2002. 30(1):303-5. 2002 PMID: 11752321

Eisenberg DS, Kuriyan J, Richards FM John T. Edsall and Advances in Protein Chemistry. Adv. Protein Chem.. 2002. 62:xi-xiv. 2002 PMID: 12418097

Eisenberg D In Appreciation of Earl Stadtman Biochemica and Biophysica Acta, 397, 455-456, (2002). 2002

Eisenberg D, Kuriyan J, Richards F John Edsall and Advances in Protein Chemistry: Congratulations on his 100th Year Advances in Protein Chemistry, 60 (2002). 2002

Eisenberg D John Tileston Edsall 1902-2002 Trends in Biochemical Sciences, Vol. 27, (2002). 2002

Bradshaw R, Eisenberg D Hans Neurath and the Foundation of the Protein Science and the Protein Society Protein Science (2002). 2002

Eisenberg D Heroic Battles of the Protein Wars Science, 295, 2021-2022 (2002). 2002

Goulding CW, Apostol M, Anderson DH, Gill HS, Smith CV, Kuo MR, Yang JK, Waldo GS, Suh SW, Chauhan R, Kale A, Bachhawat N, Mande SC, Johnston JM, Lott JS, Baker EN, Arcus VL, Leys D, McLean KJ, Munro AW, Berendzen J, Sharma V, Park MS, Eisenberg D, Sacchettini J, Alber T, Rupp B, Jacobs W Jr, Terwilliger TC. The TB Structural Genomics Consortium: Providing a Structural Foundation for Drug Discovery Current Drug Targets – Infectious Disorders, 2, 121-141, (2002). 2002

2001

Kleiger G, Perry J, Eisenberg D 3D structure and significance of the GPhiXXG helix packing motif in tetramers of the E1beta subunit of pyruvate dehydrogenase from the archeon Pyrobaculum aerophilum. Biochemistry. Dec 2001. 40(48):14484-92. 2001 PMID: 11724561

Salwinski L, Eisenberg D Motif-based fold assignment. Protein Sci.. Dec 2001. 10(12):2460-9. 2001 PMID: 11714913

Graeber TG, Eisenberg D Bioinformatic identification of potential autocrine signaling loops in cancers from gene expression profiles. Nat. Genet.. Nov 2001. 29(3):295-300. 2001 PMID: 11685206

Singer E, Landgraf R, Horan T, Slamon D, Eisenberg D Identification of a heregulin binding site in HER3 extracellular domain. J. Biol. Chem.. Nov 2001. 276(47):44266-74. 2001 PMID: 11555649

Dym O, Eisenberg D Sequence-structure analysis of FAD-containing proteins. Protein Sci.. Sep 2001. 10(9):1712-28. 2001 PMID: 11514662

Xenarios I, Eisenberg D Protein interaction databases. Curr. Opin. Biotechnol.. Aug 2001. 12(4):334-9. 2001 PMID: 11551460

Mura C, Cascio D, Sawaya MR, Eisenberg DS The crystal structure of a heptameric archaeal Sm protein: Implications for the eukaryotic snRNP core. Proc. Natl. Acad. Sci. U.S.A.. May 2001. 98(10):5532-7. 2001 PMID: 11331747

Marcotte EM, Xenarios I, Eisenberg D Mining literature for protein-protein interactions. Bioinformatics. Apr 2001. 17(4):359-63. 2001 PMID: 11301305

Landgraf R, Xenarios I, Eisenberg D Three-dimensional cluster analysis identifies interfaces and functional residue clusters in proteins. J. Mol. Biol.. Apr 2001. 307(5):1487-502. 2001 PMID: 11292355

Anderson DH, Harth G, Horwitz MA, Eisenberg D An interfacial mechanism and a class of inhibitors inferred from two crystal structures of the Mycobacterium tuberculosis 30 kDa major secretory protein (Antigen 85B), a mycolyl transferase. J. Mol. Biol.. Mar 2001. 307(2):671-81. 2001 PMID: 11254389

Liu Y, Gotte G, Libonati M, Eisenberg D A domain-swapped RNase A dimer with implications for amyloid formation. Nat. Struct. Biol.. Mar 2001. 8(3):211-4. 2001 PMID: 11224563

Gill HS, Eisenberg D The crystal structure of phosphinothricin in the active site of glutamine synthetase illuminates the mechanism of enzymatic inhibition. Biochemistry. Feb 2001. 40(7):1903-12. 2001 PMID: 11329256

Balbirnie M, Grothe R, Eisenberg DS An amyloid-forming peptide from the yeast prion Sup35 reveals a dehydrated beta-sheet structure for amyloid. Proc. Natl. Acad. Sci. U.S.A.. Feb 2001. 98(5):2375-80. 2001 PMID: 11226247

Ogihara NL, Ghirlanda G, Bryson JW, Gingery M, DeGrado WF, Eisenberg D Design of three-dimensional domain-swapped dimers and fibrous oligomers. Proc. Natl. Acad. Sci. U.S.A.. Feb 2001. 98(4):1404-9. 2001 PMID: 11171963

Xenarios I, Fernandez E, Salwinski L, Duan XJ, Thompson MJ, Marcotte EM, Eisenberg D DIP: The Database of Interacting Proteins: 2001 update. Nucleic Acids Res.. Jan 2001. 29(1):239-41. 2001 PMID: 11125102

Clarke SG, Eisenberg D, Boyer PD Obituary of John Maxwell Jordan 1938-1997 In Memoriam, Academic Senate, University of California, 113-119, (2001). 2001

Dym O, Eisenberg D, Yeates TO Chapter 21.3 Detection of Errors in Protein Models in International Tables for Crystallography, Volume F. Crystallography of Biological Macromolecules, ed. M.G. Rossmann and E. Arnold. Dordrecht: Kluwer Academic Publishers, The Netherlands, pp. 520-525 (2001). 2001

Eisenberg D, Kauzmann W Structure and Properties of Water Oxford University Press, New York and Oxford (1969). 2nd Japanese edition, (2001). 2001

2000

Steere B, Eisenberg D Characterization of high-order diphtheria toxin oligomers. Biochemistry. Dec 2000. 39(51):15901-9. 2000 PMID: 11123917

Marcotte EM, Xenarios I, van Der Bliek AM, Eisenberg D Localizing proteins in the cell from their phylogenetic profiles. Proc. Natl. Acad. Sci. U.S.A.. Oct 2000. 97(22):12115-20. 2000 PMID: 11035803

Dym O, Pratt EA, Ho C, Eisenberg D The crystal structure of D-lactate dehydrogenase, a peripheral membrane respiratory enzyme. Proc. Natl. Acad. Sci. U.S.A.. Aug 2000. 97(17):9413-8. 2000 PMID: 10944213

Landgraf R, Eisenberg D Heregulin reverses the oligomerization of HER3. Biochemistry. Jul 2000. 39(29):8503-11. 2000 PMID: 10913256

Eisenberg D, Marcotte EM, Xenarios I, Yeates TO Protein function in the post-genomic era. Nature. Jun 2000. 405(6788):823-6. 2000 PMID: 10866208

Kleiger G, Beamer LJ, Grothe R, Mallick P, Eisenberg D The 1.7 A crystal structure of BPI: a study of how two dissimilar amino acid sequences can adopt the same fold. J. Mol. Biol.. Jun 2000. 299(4):1019-34. 2000 PMID: 10843855

Ruth L, Eisenberg D, Neufeld EF alpha-L-iduronidase forms semi-crystalline spherulites with amyloid-like properties. Acta Crystallogr. D Biol. Crystallogr.. Apr 2000. 56(Pt 4):524-8. 2000 PMID: 10739940

Eisenberg D, Gill HS, Pfluegl GM, Rotstein SH Structure-function relationships of glutamine synthetases. Biochim. Biophys. Acta. Mar 2000. 1477(1-2):122-45. 2000 PMID: 10708854

Mallick P, Goodwill KE, Fitz-Gibbon S, Miller JH, Eisenberg D Selecting protein targets for structural genomics of Pyrobaculum aerophilum: validating automated fold assignment methods by using binary hypothesis testing. Proc. Natl. Acad. Sci. U.S.A.. Mar 2000. 97(6):2450-5. 2000 PMID: 10706641

Rees DC, Eisenberg D Turning a reference inside-out: commentary on an article by Stevens and Arkin entitled: "Are membrane proteins 'inside-out' proteins?" (Proteins 1999;36:135-143) Proteins. Feb 2000. 38(2):121-2. 2000 PMID: 10656259

Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM, Eisenberg D DIP: the database of interacting proteins. Nucleic Acids Res.. Jan 2000. 28(1):289-91. 2000 PMID: 10592249

Bork P, Eisenberg D Genome and Proteome Informatics Current Opinion in Structural Biology, 10, 341-342 (2000). 2000

1999

Landgraf R, Fischer D, Eisenberg D Analysis of heregulin symmetry by weighted evolutionary tracing. Protein Eng.. Nov 1999. 12(11):943-51. 1999 PMID: 10585499

Marcotte EM, Pellegrini M, Thompson MJ, Yeates TO, Eisenberg D A combined algorithm for genome-wide prediction of protein function. Nature. Nov 1999. 402(6757):83-6. 1999 PMID: 10573421

Eisenberg D Glories of protein structure Structure. Oct 1999. 7(10):R241-2. 1999 PMID: 10545335

Marcotte EM, Pellegrini M, Yeates TO, Eisenberg D A census of protein repeats. J. Mol. Biol.. Oct 1999. 293(1):151-60. 1999 PMID: 10512723

Fischer D, Eisenberg D Finding families for genomic ORFans. Bioinformatics. Sep 1999. 15(9):759-62. 1999 PMID: 10498776

Eisenberg D How chaperones protect virgin proteins. Science. Aug 1999. 285(5430):1021-2. 1999 PMID: 10475844

Marcotte EM, Pellegrini M, Ng HL, Rice DW, Yeates TO, Eisenberg D Detecting protein function and protein-protein interactions from genome sequences. Science. Jul 1999. 285(5428):751-3. 1999 PMID: 10427000

Patterson WR, Anderson DH, DeGrado WF, Cascio D, Eisenberg D Centrosymmetric bilayers in the 0.75 A resolution structure of a designed alpha-helical peptide, D,L-Alpha-1. Protein Sci.. Jul 1999. 8(7):1410-22. 1999 PMID: 10422829

Privé GG, Anderson DH, Wesson L, Cascio D, Eisenberg D Packed protein bilayers in the 0.90 A resolution structure of a designed alpha helical bundle. Protein Sci.. Jul 1999. 8(7):1400-9. 1999 PMID: 10422828

Thompson MJ, Eisenberg D Transproteomic evidence of a loop-deletion mechanism for enhancing protein thermostability. J. Mol. Biol.. Jul 1999. 290(2):595-604. 1999 PMID: 10390356

Fischer D, Eisenberg D Predicting structures for genome proteins. Curr. Opin. Struct. Biol.. Apr 1999. 9(2):208-11. 1999 PMID: 10322219

Pellegrini M, Marcotte EM, Thompson MJ, Eisenberg D, Yeates TO Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc. Natl. Acad. Sci. U.S.A.. Apr 1999. 96(8):4285-8. 1999 PMID: 10200254

Gill HS, Pfluegl GM, Eisenberg D Preliminary crystallographic studies on glutamine synthetase from Mycobacterium tuberculosis. Acta Crystallogr. D Biol. Crystallogr.. Apr 1999. 55(Pt 4):865-8. 1999 PMID: 10089318

Hart PJ, Balbirnie MM, Ogihara NL, Nersissian AM, Weiss MS, Valentine JS, Eisenberg D A structure-based mechanism for copper-zinc superoxide dismutase. Biochemistry. Feb 1999. 38(7):2167-78. 1999 PMID: 10026301

Beamer LJ, Carroll SF, Eisenberg D The three-dimensional structure of human bactericidal/permeability-increasing protein: implications for understanding protein-lipopolysaccharide interactions. Biochem. Pharmacol.. Feb 1999. 57(3):225-9. 1999 PMID: 9890549

Marcotte EM, Eisenberg D Chicken prion tandem repeats form a stable, protease-resistant domain. Biochemistry. Jan 1999. 38(2):667-76. 1999 PMID: 9888807

Eisenberg D Book Review of Glories of Protein Structure by Carl Branden and John Tooze, Garland: 1999. pp 410, (pbk). in Structure (1999). 1999

Beamer LJ, Carroll SF, Eisenberg D The Three-Dimensional Structure of Human Bactericidal/Permeability-Increasing Protein: Implications for Understanidng Protein-Lipopolysaccharide Interactions Biochemical Pharmacology, 57, 225-229 (1999). 1999

1998

Beamer LJ, Fischer D, Eisenberg D Detecting distant relatives of mammalian LPS-binding and lipid transport proteins. Protein Sci.. Jul 1998. 7(7):1643-6. 1998 PMID: 9684900

Beamer LJ, Carroll SF, Eisenberg D The BPI/LBP family of proteins: a structural analysis of conserved regions. Protein Sci.. Apr 1998. 7(4):906-14. 1998 PMID: 9568897

Liu Y, Hart PJ, Schlunegger MP, Eisenberg D The crystal structure of a 3D domain-swapped dimer of RNase A at a 2.1-A resolution. Proc. Natl. Acad. Sci. U.S.A.. Mar 1998. 95(7):3437-42. 1998 PMID: 9520384

Hart PJ, Liu H, Pellegrini M, Nersissian AM, Gralla EB, Valentine JS, Eisenberg D Subunit asymmetry in the three-dimensional structure of a human CuZnSOD mutant found in familial amyotrophic lateral sclerosis. Protein Sci.. Mar 1998. 7(3):545-55. 1998 PMID: 9541385

Landgraf R, Pegram M, Slamon DJ, Eisenberg D Cytotoxicity and specificity of directed toxins composed of diphtheria toxin and the EGF-like domain of heregulin beta1. Biochemistry. Mar 1998. 37(9):3220-8. 1998 PMID: 9485477

Eisenberg D Obituary of Kenneth N. Trueblood Physics Today (1998) 1998

Bork P, Eisenberg D Sequences and topology: Deriving biological knowledge from genomic sequences Current Opinion in Structural Biology, 8, 331-332 (1998). 1998

1997

Bell CE, Poon PH, Schumaker VN, Eisenberg D Oligomerization of a 45 kilodalton fragment of diphtheria toxin at pH 5.0 to a molecule of 20-24 subunits. Biochemistry. Dec 1997. 36(49):15201-7. 1997 PMID: 9398247

Anderson DH, Weiss MS, Eisenberg D Charges, hydrogen bonds, and correlated motions in the 1 A resolution refined structure of the mating pheromone Er-1 from Euplotes raikovi. J. Mol. Biol.. Oct 1997. 273(2):479-500. 1997 PMID: 9344754

Fischer D, Eisenberg D Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium. Proc. Natl. Acad. Sci. U.S.A.. Oct 1997. 94(22):11929-34. 1997 PMID: 9342339

Bell CE, Yeates TO, Eisenberg D Unusual conformation of nicotinamide adenine dinucleotide (NAD) bound to diphtheria toxin: a comparison with NAD bound to the oxidoreductase enzymes. Protein Sci.. Oct 1997. 6(10):2084-96. 1997 PMID: 9336832

Beamer LJ, Carroll SF, Eisenberg D Crystal structure of human BPI and two bound phospholipids at 2.4 angstrom resolution. Science. Jun 1997. 276(5320):1861-4. 1997 PMID: 9188532

Rice DW, Eisenberg D A 3D-1D substitution matrix for protein fold recognition that includes predicted secondary structure of the sequence. J. Mol. Biol.. Apr 1997. 267(4):1026-38. 1997 PMID: 9135128

Bell CE, Eisenberg D Crystal structure of nucleotide-free diphtheria toxin. Biochemistry. Jan 1997. 36(3):481-8. 1997 PMID: 9012663

Ogihara NL, Weiss MS, Degrado WF, Eisenberg D The crystal structure of the designed trimeric coiled coil coil-VaLd: implications for engineering crystals and supramolecular assemblies. Protein Sci.. Jan 1997. 6(1):80-8. 1997 PMID: 9007979

Rice DW, Fischer D, Weiss R, Eisenberg D Fold assignments for amino acid sequences of the CASP2 experiment. Proteins. 1997. Suppl 1:113-22. 1997 PMID: 9485502

Eisenberg D, Luthy R, Bowie JU VERIFY3D: assessment of protein models with three-dimensional profiles. Meth. Enzymol.. 1997. 277:396-404. 1997 PMID: 9379925

Schlunegger MP, Bennett MJ, Eisenberg D Oligomer formation by 3D domain swapping: a model for protein assembly and misassembly. Adv. Protein Chem.. 1997. 50:61-122. 1997 PMID: 9338079

Bell CE, Eisenberg D Crystal structure of diphtheria toxin bound to nicotinamide adenine dinucleotide. Adv. Exp. Med. Biol.. 1997. 419:35-43. 1997 PMID: 9193634

Eisenberg D Structural Biology and the Human Genome In Industry-University Partnerships in Research: Proceedings of the Third Annual Seaborg Symposium, UCLA, October 12, 1996. Ed. B.A. Levey, pp. 29-34, Regents of the University of California, Los Angeles (1997). 1997

Eisenberg D Into the Black of Night Nature Structural Biology, 4, 95-97 (1997). 1997

1996

Hart PJ, Nersissian AM, Herrmann RG, Nalbandyan RM, Valentine JS, Eisenberg D A missing link in cupredoxins: crystal structure of cucumber stellacyanin at 1.6 A resolution. Protein Sci.. Nov 1996. 5(11):2175-83. 1996 PMID: 8931136

Fahrner RL, Dieckmann T, Harwig SS, Lehrer RI, Eisenberg D, Feigon J Solution structure of protegrin-1, a broad-spectrum antimicrobial peptide from porcine leukocytes. Chem. Biol.. Jul 1996. 3(7):543-50. 1996 PMID: 8807886

Fischer D, Eisenberg D Protein fold recognition using sequence-derived predictions. Protein Sci.. May 1996. 5(5):947-55. 1996 PMID: 8732766

Anderson DH, Weiss MS, Eisenberg D A challenging case for protein crystal structure determination: the mating pheromone Er-1 from Euplotes raikovi. Acta Crystallogr. D Biol. Crystallogr.. May 1996. 52(Pt 3):469-80. 1996 PMID: 15299668

Ogihara NL, Parge HE, Hart PJ, Weiss MS, Goto JJ, Crane BR, Tsang J, Slater K, Roe JA, Valentine JS, Eisenberg D, Tainer JA Unusual trigonal-planar copper configuration revealed in the atomic structure of yeast copper-zinc superoxide dismutase. Biochemistry. Feb 1996. 35(7):2316-21. 1996 PMID: 8652572

Bell CE, Eisenberg D Crystal structure of diphtheria toxin bound to nicotinamide adenine dinucleotide. Biochemistry. Jan 1996. 35(4):1137-49. 1996 PMID: 8573568

Fischer D, Rice D, Bowie JU, Eisenberg D Assigning amino acid sequences to 3-dimensional protein folds. FASEB J.. Jan 1996. 10(1):126-36. 1996 PMID: 8566533

Fischer D, Elofsson A, Rice D, Eisenberg D Assessing the performance of fold recognition methods by means of a comprehensive benchmark. Pac Symp Biocomput. 1996. :300-18. 1996 PMID: 9390240

Elofsson A, Fischer D, Rice DW, Le Grand SM, Eisenberg D A study of combined structure/sequence profiles. Fold Des. 1996. 1(6):451-61. 1996 PMID: 9080191

Betz SF, Raleigh DP, DeGrado WF, Lovejoy B, Anderson D, Ogihara N, Eisenberg D Crystallization of a designed peptide from a molten globule ensemble. Fold Des. 1996. 1(1):57-64. 1996 PMID: 9079364

Bowie JU, Zhang K, Wilmanns M, Eisenberg D Three-dimensional profiles for measuring compatibility of amino acid sequence with three-dimensional structure. Meth. Enzymol.. 1996. 266:598-616. 1996 PMID: 8743708

Eisenberg D Book Review of Amazing Grace by Jonathan Kozol The American Oxonian, Spring (1996). 1996

Fischer D, Elofsson A, Rice D, Eisenberg D Assessing the Performance of Fold Recognition Methods by Means of a Comprehensive Benchmark In Pacific Symposium on Biocomputing ‘96. L. Hunter and T.E. Klein, Eds. World Scientific Publishers, New Jersey, pp. 300-318 (1996) 1996 PMID: 9390240

Weiss, M., Bell, C.E., Bennett, M.J., Collier, R.J., Schlunegger, M.P., Steere, B.A., and Eisenberg, D. A Structure-Based Model of Diphtheria Toxin Action In Protein Toxin Structure, M. Parker, Ed. R.G. Landes Company, Texas, pp. 25-47 (1996). 1996

Stowell, M.H.B., Soltis, S.M., Kisker, C., Peter, J.W., Schindelin, H., Rees, D.C., Cascio, D., Beamer, L., Hart, P.J., Eisenberg, D., Wiener, M.C. and Whitby, F.G. A Simple Device for Studying Macromolecular Crystals Under Moderate Gas Pressures (0.1 - 10 MPa) J. Appl. Cryst., 29, 608 (1996). 1996

1995

Bennett MJ, Schlunegger MP, Eisenberg D 3D domain swapping: a mechanism for oligomer assembly. Protein Sci.. Dec 1995. 4(12):2455-68. 1995 PMID: 8580836

Liaw SH, Kuo I, Eisenberg D Discovery of the ammonium substrate site on glutamine synthetase, a third cation binding site. Protein Sci.. Nov 1995. 4(11):2358-65. 1995 PMID: 8563633

Weiss MS, Anderson DH, Raffioni S, Bradshaw RA, Ortenzi C, Luporini P, Eisenberg D A cooperative model for receptor recognition and cell adhesion: evidence from the molecular packing in the 1.6-A crystal structure of the pheromone Er-1 from the ciliated protozoan Euplotes raikovi. Proc. Natl. Acad. Sci. U.S.A.. Oct 1995. 92(22):10172-6. 1995 PMID: 7479748

Elofsson A, Le Grand SM, Eisenberg D Local moves: an efficient algorithm for simulation of protein folding. Proteins. Sep 1995. 23(1):73-82. 1995 PMID: 8539252

Vrielink A, Beamer L, Le T, Eisenberg D Crystallization of the chaperone protein SecB. Protein Sci.. Aug 1995. 4(8):1651-3. 1995 PMID: 8520492

Wilmanns M, Eisenberg D Inverse protein folding by the residue pair preference profile method: estimating the correctness of alignments of structurally compatible sequences. Protein Eng.. Jul 1995. 8(7):627-39. 1995 PMID: 8577692

Weiss MS, Blanke SR, Collier RJ, Eisenberg D Structure of the isolated catalytic domain of diphtheria toxin. Biochemistry. Jan 1995. 34(3):773-81. 1995 PMID: 7827036

Betz SF, Raleigh DP, DeGrado WF, Lovejoy B, Anderson D, Ogihara N, Eisenberg D Crystallization of a designed peptide from a molten globule ensemble. Fold Des. 1995. 1(1):57-64. 1995 PMID: 9162140

Le Grand SM, Elofsson A, Eisenberg D The Effect on a Distance-Cutoff on the Performance of the Distance Matrix Error when Used as a Potential Function to Drive Conformational Search in Protein Folds: A Distant Based Approach, eds. H. Bohr and S. Burnak, CRC Press Inc., Florida, pp.105-113 (1995) 1995

Bowie, JU, Luthy R, Eisenberg D 3D Profiles: Assessing the Compatibility of an Amino Acid Sequence with a Three-Dimensional Structure in Tracing Biological Evolution in Protein and Gene Structures, eds. M. Go and P. Schimmel, pp. 297-309. Elsevier Science B.V., Japan (1995) 1995

1994

Shen WH, Choe S, Eisenberg D, Collier RJ Participation of lysine 516 and phenylalanine 530 of diphtheria toxin in receptor recognition. J. Biol. Chem.. Nov 1994. 269(46):29077-84. 1994 PMID: 7961874

Eisenberg D Max Perutz's achievements: how did he do it? Protein Sci.. Oct 1994. 3(10):1625-8. 1994 PMID: 7849579

Liaw SH, Jun G, Eisenberg D Interactions of nucleotides with fully unadenylylated glutamine synthetase from Salmonella typhimurium. Biochemistry. Sep 1994. 33(37):11184-8. 1994 PMID: 7727369

Zhan H, Choe S, Huynh PD, Finkelstein A, Eisenberg D, Collier RJ Dynamic transitions of the transmembrane domain of diphtheria toxin: disulfide trapping and fluorescence proximity studies. Biochemistry. Sep 1994. 33(37):11254-63. 1994 PMID: 7537085

Bennett MJ, Eisenberg D Refined structure of monomeric diphtheria toxin at 2.3 A resolution. Protein Sci.. Sep 1994. 3(9):1464-75. 1994 PMID: 7833808

Bennett MJ, Choe S, Eisenberg D Refined structure of dimeric diphtheria toxin at 2.0 A resolution. Protein Sci.. Sep 1994. 3(9):1444-63. 1994 PMID: 7833807

McKenna MC, Anderson D, Cascio D, Eisenberg D Crystallization studies of the human immunodeficiency virus (HIV-1) Tat protein and its trans-activation response element (TAR) RNA. Acta Crystallogr. D Biol. Crystallogr.. Jul 1994. 50(Pt 4):527-34. 1994 PMID: 15299414

Privé GG, Verner GE, Weitzman C, Zen KH, Eisenberg D, Kaback HR Fusion proteins as tools for crystallization: the lactose permease from Escherichia coli. Acta Crystallogr. D Biol. Crystallogr.. Jul 1994. 50(Pt 4):375-9. 1994 PMID: 15299388

Bowie JU, Eisenberg D An evolutionary approach to folding small alpha-helical proteins that uses sequence information and an empirical guiding fitness function. Proc. Natl. Acad. Sci. U.S.A.. May 1994. 91(10):4436-40. 1994 PMID: 8183927

Zhang KY, Eisenberg D Solid-state phase transition in the crystal structure of ribulose 1,5-bisphosphate carboxylase/oxygenase. Acta Crystallogr. D Biol. Crystallogr.. May 1994. 50(Pt 3):258-62. 1994 PMID: 15299436

Zhang KY, Eisenberg D The three-dimensional profile method using residue preference as a continuous function of residue environment. Protein Sci.. Apr 1994. 3(4):687-95. 1994 PMID: 8003986

Bennett MJ, Choe S, Eisenberg D Domain swapping: entangling alliances between proteins. Proc. Natl. Acad. Sci. U.S.A.. Apr 1994. 91(8):3127-31. 1994 PMID: 8159715

McKenna MC, Muchardt C, Gaynor R, Eisenberg D Preparative scale culture of Escherichia coli cells expressing the human immunodeficiency virus type 1 Tat protein. Protein Expr. Purif.. Apr 1994. 5(2):105-11. 1994 PMID: 8054841

Liaw SH, Eisenberg D Structural model for the reaction mechanism of glutamine synthetase, based on five crystal structures of enzyme-substrate complexes. Biochemistry. Jan 1994. 33(3):675-81. 1994 PMID: 7904828

Zhang KY, Cascio D, Eisenberg D Crystal structure of the unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate. Protein Sci.. Jan 1994. 3(1):64-9. 1994 PMID: 8142899

1993

Lovejoy B, Cascio D, Eisenberg D Crystal structure of canine and bovine granulocyte-colony stimulating factor (G-CSF). J. Mol. Biol.. Dec 1993. 234(3):640-53. 1993 PMID: 7504736

Schreuder HA, Knight S, Curmi PM, Andersson I, Cascio D, Brändén CI, Eisenberg D Formation of the active site of ribulose-1,5-bisphosphate carboxylase/oxygenase by a disorder-order transition from the unactivated to the activated form. Proc. Natl. Acad. Sci. U.S.A.. Nov 1993. 90(21):9968-72. 1993 PMID: 8234342

Liaw SH, Villafranca JJ, Eisenberg D A model for oxidative modification of glutamine synthetase, based on crystal structures of mutant H269N and the oxidized enzyme. Biochemistry. Aug 1993. 32(31):7999-8003. 1993 PMID: 8102250

Fujii G, Selsted ME, Eisenberg D Defensins promote fusion and lysis of negatively charged membranes. Protein Sci.. Aug 1993. 2(8):1301-12. 1993 PMID: 8401215

Schreuder HA, Knight S, Curmi PM, Andersson I, Cascio D, Sweet RM, Brändén CI, Eisenberg D Crystal structure of activated tobacco rubisco complexed with the reaction-intermediate analogue 2-carboxy-arabinitol 1,5-bisphosphate. Protein Sci.. Jul 1993. 2(7):1136-46. 1993 PMID: 8358296

Liaw SH, Pan C, Eisenberg D Feedback inhibition of fully unadenylylated glutamine synthetase from Salmonella typhimurium by glycine, alanine, and serine. Proc. Natl. Acad. Sci. U.S.A.. Jun 1993. 90(11):4996-5000. 1993 PMID: 8099447

Hill CP, Osslund TD, Eisenberg D The structure of granulocyte-colony-stimulating factor and its relationship to other growth factors. Proc. Natl. Acad. Sci. U.S.A.. Jun 1993. 90(11):5167-71. 1993 PMID: 7685117

Liaw SH, Jun G, Eisenberg D Extending the diffraction limit of protein crystals: the example of glutamine synthetase from Salmonella typhimurium in the presence of its cofactor ATP. Protein Sci.. Mar 1993. 2(3):470-1. 1993 PMID: 8095834

Lovejoy B, Choe S, Cascio D, McRorie DK, DeGrado WF, Eisenberg D Crystal structure of a synthetic triple-stranded alpha-helical bundle. Science. Feb 1993. 259(5099):1288-93. 1993 PMID: 8446897

Wilmanns M, Eisenberg D Three-dimensional profiles from residue-pair preferences: identification of sequences with beta/alpha-barrel fold. Proc. Natl. Acad. Sci. U.S.A.. Feb 1993. 90(4):1379-83. 1993 PMID: 8433995

Bowie J, Eisenberg D Inverted Protein Structure Prediction Current Opinion in Structural Biology, 3, 437-444 (1993). 1993

1992

Fujii G, Horvath S, Woodward S, Eiserling F, Eisenberg D A molecular model for membrane fusion based on solution studies of an amphiphilic peptide from HIV gp41. Protein Sci.. Nov 1992. 1(11):1454-64. 1992 PMID: 1303764

Eisenberg D John Edsall and Protein Science. Protein Sci.. Nov 1992. 1(11):1399-401. 1992 PMID: 1303759

Curmi PM, Cascio D, Sweet RM, Eisenberg D, Schreuder H Crystal structure of the unactivated form of ribulose-1,5-bisphosphate carboxylase/oxygenase from tobacco refined at 2.0-A resolution. J. Biol. Chem.. Aug 1992. 267(24):16980-9. 1992 PMID: 1512238

Liu Y, Peter D, Roghani A, Schuldiner S, Privé GG, Eisenberg D, Brecha N, Edwards RH A cDNA that suppresses MPP+ toxicity encodes a vesicular amine transporter. Cell. Aug 1992. 70(4):539-51. 1992 PMID: 1505023

Lovejoy B, Akerfeldt KS, DeGrado WF, Eisenberg D Crystallization of proton channel peptides. Protein Sci.. Aug 1992. 1(8):1073-7. 1992 PMID: 1284681

O'Keefe DO, Cabiaux V, Choe S, Eisenberg D, Collier RJ pH-dependent insertion of proteins into membranes: B-chain mutation of diphtheria toxin that inhibits membrane translocation, Glu-349----Lys. Proc. Natl. Acad. Sci. U.S.A.. Jul 1992. 89(13):6202-6. 1992 PMID: 1631109

Lovejoy B, Le TC, Lüthy R, Cascio D, O'Neil KT, DeGrado WF, Eisenberg D X-ray grade crystals of a designed alpha-helical coiled coil. Protein Sci.. Jul 1992. 1(7):956-7. 1992 PMID: 1304378

Choe S, Bennett MJ, Fujii G, Curmi PM, Kantardjieff KA, Collier RJ, Eisenberg D The crystal structure of diphtheria toxin. Nature. May 1992. 357(6375):216-22. 1992 PMID: 1589020

Wilcox W, Eisenberg D Thermodynamics of melittin tetramerization determined by circular dichroism and implications for protein folding. Protein Sci.. May 1992. 1(5):641-53. 1992 PMID: 1304363

Lüthy R, Bowie JU, Eisenberg D Assessment of protein models with three-dimensional profiles. Nature. Mar 1992. 356(6364):83-5. 1992 PMID: 1538787

Wesson L, Eisenberg D Atomic solvation parameters applied to molecular dynamics of proteins in solution. Protein Sci.. Feb 1992. 1(2):227-35. 1992 PMID: 1304905

Eisenberg D, Bowie JU, Lüthy R, Choe S Three-dimensional profiles for analysing protein sequence-structure relationships. Faraday Discuss.. 1992. (93):25-34. 1992 PMID: 1290936

1991

Fujii G, Choe SH, Bennett MJ, Eisenberg D Crystallization of diphtheria toxin. J. Mol. Biol.. Dec 1991. 222(4):861-4. 1991 PMID: 1762153

Bowie JU, Lüthy R, Eisenberg D A method to identify protein sequences that fold into a known three-dimensional structure. Science. Jul 1991. 253(5016):164-70. 1991 PMID: 1853201

Hill CP, Yee J, Selsted ME, Eisenberg D Crystal structure of defensin HNP-3, an amphiphilic dimer: mechanisms of membrane permeabilization. Science. Mar 1991. 251(5000):1481-5. 1991 PMID: 2006422

Lüthy R, McLachlan AD, Eisenberg D Secondary structure-based profiles: use of structure-conserving scoring tables in searching protein sequence databases for structural similarities. Proteins. 1991. 10(3):229-39. 1991 PMID: 1881879

Luthy R, Eisenberg D Protein in Sequence Analysis Primer, eds. M. Gribskov and J. Devereux, pp. 61-87, Stockton Press, New York (1991). 1991

1990

Anderson D, Raffioni S, Luporini P, Bradshaw RA, Eisenberg D Crystallization of the Euplotes raikovi mating pheromone Er-1. J. Mol. Biol.. Nov 1990. 216(1):1-2. 1990 PMID: 2121998

Hill CP, Anderson DH, Wesson L, DeGrado WF, Eisenberg D Crystal structure of alpha 1: implications for protein design. Science. Aug 1990. 249(4968):543-6. 1990 PMID: 2382133

Yamashita MM, Wesson L, Eisenman G, Eisenberg D Where metal ions bind in proteins. Proc. Natl. Acad. Sci. U.S.A.. Aug 1990. 87(15):5648-52. 1990 PMID: 2377604

Eisenberg D, Wesson M The most highly amphiphilic alpha-helices include two amino acid segments in human immunodeficiency virus glycoprotein 41. Biopolymers. Jan 1990. 29(1):171-7. 1990 PMID: 2328285

Gribskov M, Lüthy R, Eisenberg D Profile analysis. Meth. Enzymol.. 1990. 183:146-59. 1990 PMID: 2314273

Schreuder HA, Curmi PMG, Cascio D, Eisenberg D The RuBisCO Saga in Accuracy and Reliability of Macromolecular Crystal Structures, eds. K. Hendrick, D.S. Moss, and I. J. Tickle. Proceedings of a Symposium. Science and Engineering Research Council, Daresbury Lab (1990). 1990

1989

Yamashita MM, Almassy RJ, Janson CA, Cascio D, Eisenberg D Refined atomic model of glutamine synthetase at 3.5 A resolution. J. Biol. Chem.. Oct 1989. 264(30):17681-90. 1989 PMID: 2572586

Rees DC, DeAntonio L, Eisenberg D Hydrophobic organization of membrane proteins. Science. Aug 1989. 245(4917):510-3. 1989 PMID: 2667138

Eisenberg D, Hill CP Protein crystallography: more surprises ahead. Trends Biochem. Sci.. Jul 1989. 14(7):260-4. 1989 PMID: 2672444

Kantardjieff K, Collier RJ, Eisenberg D X-ray grade crystals of the enzymatic fragment of diphtheria toxin. J. Biol. Chem.. Jun 1989. 264(18):10402-4. 1989 PMID: 2732229

Eisenberg D, Wesson M, Wilcox W Hydrophobic Moments as Tools for Analysis of Protein Sequences and Structures in Prediction of Protein Structure and the Principles of Protein Conformation, ed. G.D. Fasman, pp. 635-646, Plenum Publishing Corporation, New York (1989). 1989

Eisenberg D, Wesson M, Yamashita, M Interpretation of Protein Folding and Binding with Atomic Solvation Parameters in Nobel Symposium on Structure and Dynamics in Biological Systems, Lund, Sweden. Chemica Scripta 29A, pp. 217-221 (1989). 1989

Gribskov M, Eisenberg D Detection of Protein Structural Features with Profile Analysis in Techniques in Protein Chemistry, ed. T. E. Hugli, Academic Press, San Diego (1989). 1989

Eisenberg D, Hill CP Protein Crystallography 1989 Trends in Biochemical Sciences 14, 260-264 (1989). 1989

1988

Hermanson GG, Eisenberg D, Kincade PW, Wall R B29: a member of the immunoglobulin gene superfamily exclusively expressed on beta-lineage cells. Proc. Natl. Acad. Sci. U.S.A.. Sep 1988. 85(18):6890-4. 1988 PMID: 3137575

Chapman MS, Suh SW, Curmi PM, Cascio D, Smith WW, Eisenberg DS Tertiary structure of plant RuBisCO: domains and their contacts. Science. Jul 1988. 241(4861):71-4. 1988 PMID: 3133767

Gribskov M, Homyak M, Edenfield J, Eisenberg D Profile scanning for three-dimensional structural patterns in protein sequences. Comput. Appl. Biosci.. Mar 1988. 4(1):61-6. 1988 PMID: 3383004

1987

Suh SW, Cascio D, Chapman MS, Eisenberg D A crystal form of ribulose-1,5-bisphosphate carboxylase/oxygenase from Nicotiana tabacum in the activated state. J. Mol. Biol.. Sep 1987. 197(2):363-5. 1987 PMID: 3681999

Gribskov M, McLachlan AD, Eisenberg D Profile analysis: detection of distantly related proteins. Proc. Natl. Acad. Sci. U.S.A.. Jul 1987. 84(13):4355-8. 1987 PMID: 3474607

Chapman MS, Suh SW, Cascio D, Smith WW, Eisenberg D Sliding-layer conformational change limited by the quaternary structure of plant RuBisCO. Nature. . 329(6137):354-6. 1987 PMID: 3627277

Eisenberg D, Almassy RJ, Janson CA, Chapman MS, Suh SW, Cascio D, Smith WW Some evolutionary relationships of the primary biological catalysts glutamine synthetase and RuBisCO. In Cold Spring Harbor Symposia on Quantitative Biology, Vol. LII, ed. Barker, P. and Brown, D., pp. 483--490, Cold Spring Harbor Laboratory, New York (1987). 1987 PMID: 2900091

Terwilliger TC, Eisenberg D, Kim S-H Generalized Method of Determining Heavy Atom Positions Using the Difference Patterson Function Acta Cryst., A43, 1-5 (1987). 1987

Terwilliger, T.C. and Eisenberg, D. Isomorphous Replacement with Anomalous Scattering Measurements: A Statistical Treatment of the Effects of Errors and Non-Isomorphism Acta Cryst., A43, 6-13 (1987). 1987

Baldwin RL, Eisenberg D Protein Stability UCLA Symposium, in Protein Engineering, ed. by D. Oxender, pp. 127-148, Alan R. Liss, New York (1987). 1987

Eisenberg D, Wilcox W, McLachlan AD Hydrophobicity and Amphiphilicity in Protein Structure UCLA Symposium, in Protein Engineering, ed. by D. Oxender, pp. 181-185, Alan R. Liss, New York (1987) 1987

Kantardjieff KA, Dijkstra BW, Westbrook EM, Barbieri JT, Carroll SF, Collier RJ, Eisenberg D Structural Studies of Diphtheria Toxin Protein Structure, Folding, and Design 2, Proceedings of a DuPont-UCLA Symposium, Steamboat Springs, Colorado, April 1987, ed. D. L. Oxender, vol. 69, 187--202, Alan R. Liss, Inc., New York (1987). 1987

Eisenberg D, Wesson M, Goodsell D, Wilcox W, Gribskov M, Altschuh D, Rees DC Solvation Energy Contributions to Binding Energies Protein Structure, Folding, and Design 2, Proceedings of a DuPont-UCLA Symposium, Steamboat Springs, Colorado, April 1987, ed. D. L. Oxender, vol. 69, 203--213, Alan R. Liss, Inc., New York (1987). 1987

Eisenberg D, Wesson M, Wilcox W Hydrophobic Moments as Tools for Analysis of Protein Sequences and Structures in Proteins: Structure and Function, ed. by J.J. L'Italien, pp. 425-436, Plenum Publishing Corporation, New York (1987) 1987

Sharp PA, Eisenberg D The Evolution of Catalytic Function Science 238, 729-730, 807 (1987). 1987

1986

Chapman MS, Smith WW, Suh SW, Cascio D, Howard A, Hamlin R, Xuong NH, Eisenberg D Structural studies of Rubisco from tobacco. Philos. Trans. R. Soc. Lond., B, Biol. Sci.. Oct 1986. 313(1162):367-78. 1986 PMID: 2878449

Eisenberg D, Wilcox W, Eshita SM, Pryciak PM, Ho SP, DeGrado WF The design, synthesis, and crystallization of an alpha-helical peptide. Proteins. Sep 1986. 1(1):16-22. 1986 PMID: 3449847

Eisenberg D, McLachlan AD Solvation energy in protein folding and binding. Nature. . 319(6050):199-203. 1986 PMID: 3945310

Eisenberg D, Wilcox W, McLachlan AD Hydrophobicity and amphiphilicity in protein structure. J. Cell. Biochem.. 1986. 31(1):11-7. 1986 PMID: 3722276

Janson CA, Kayne PS, Almassy RJ, Grunstein M, Eisenberg D Sequence of glutamine synthetase from Salmonella typhimurium and implications for the protein structure. Gene. 1986. 46(2-3):297-300. 1986 PMID: 2879772

Almassy RJ, Janson CA, Hamlin R, Xuong NH, Eisenberg D Novel subunit-subunit interactions in the structure of glutamine synthetase. Nature. . 323(6086):304-9. 1986 PMID: 2876389

Eisenberg D, Wilcox W, Eshita SM Free Energy and Protein Folding: Hydrophobic Moments and Solvation Free Energy in Computer Graphics, Chapter 11. Cold Spring Harbor Press,(1986) 1986

Pryciak PM, Eiserling FA, Eisenberg D Cylindrical Beta Structure: A Hypothetical Protein Structure Protein Structure, Folding and Design, Ed. by D. Oxender, 243-246, Alan R. Liss, Inc., New York (1986) 1986

1985

Eisenberg D Will Proteins Take Center Stage?, book review of Proteins, Structures and Molecular Properties by T.E. Creighton; and The Protein Folding Problem AAAS Selected Symposium 89, ed. by D.B. Wetlaufer. Cell 41, 655-656, (1985). 1985

1984

Eisenberg D, Schwarz E, Komaromy M, Wall R Analysis of membrane and surface protein sequences with the hydrophobic moment plot. J. Mol. Biol.. Oct 1984. 179(1):125-42. 1984 PMID: 6502707

Janson CA, Smith WW, Eisenberg D, Hartman FC Preliminary structural studies of ribulose-1,5-bisphosphate carboxylase/oxygenase from Rhodospirillum rubrum. J. Biol. Chem.. Sep 1984. 259(18):11594-6. 1984 PMID: 6432800

Janson CA, Almassy RJ, Westbrook EM, Eisenberg D Isolation and crystallization of unadenylylated glutamine synthetase from Salmonella typhimurium. Arch. Biochem. Biophys.. Feb 1984. 228(2):512-8. 1984 PMID: 6141768

Eisenberg D, Weiss RM, Terwilliger TC The hydrophobic moment detects periodicity in protein hydrophobicity. Proc. Natl. Acad. Sci. U.S.A.. Jan 1984. 81(1):140-4. 1984 PMID: 6582470

Eisenberg D Three-dimensional structure of membrane and surface proteins. Annu. Rev. Biochem.. 1984. 53:595-623. 1984 PMID: 6383201

Frey TG, Eisenberg D Formation and Structure of 1-,3-, and 6+1-Stranded Helical Cables of Glutamine Synthetase International Journal of Biological Macromolecules, 6, 2-12, (1984) 1984

Eisenberg D Obituary of Michael T. McNevin American Oxonian, Fall 1984 Issue. (1984) 1984

Eisenberg D, Schwarz E, Komaromy M, Wall R Analysis of Membrane and Surface Protein Sequences with the Hydrophobic Moment Plot J. Mol. Biol., 179, 125-142 (1984). 1984

1983

Sweet RM, Eisenberg D Correlation of sequence hydrophobicities measures similarity in three-dimensional protein structure. J. Mol. Biol.. Dec 1983. 171(4):479-88. 1983 PMID: 6663622

Terwilliger TC, Eisenberg D Unbiased Three Dimensional Refinement of Heavy Atom Parameters by Correlation of Origin-Removed Patterson Functions Acta Cryst., A39, 813-817, (1983). 1983

1982

Eisenberg D, Weiss RM, Terwilliger TC The helical hydrophobic moment: a measure of the amphiphilicity of a helix. Nature. Sep 1982. 299(5881):371-4. 1982 PMID: 7110359

Terwilliger TC, Eisenberg D The structure of melittin. II. Interpretation of the structure. J. Biol. Chem.. Jun 1982. 257(11):6016-22. 1982 PMID: 7076662

Terwilliger TC, Eisenberg D The structure of melittin. I. Structure determination and partial refinement. J. Biol. Chem.. Jun 1982. 257(11):6010-5. 1982 PMID: 7076661

Collier RJ, Westbrook EM, McKay DB, Eisenberg D X-ray grade crystals of diphtheria toxin. J. Biol. Chem.. May 1982. 257(9):5283-5. 1982 PMID: 7068685

Terwilliger TC, Weissman L, Eisenberg D The structure of melittin in the form I crystals and its implication for melittin's lytic and surface activities. Biophys. J.. Jan 1982. 37(1):353-61. 1982 PMID: 7055627

Eisenberg D, Weiss RM, Terwilliger TC, Wilcox W Hydrophobic Moments and Protein Structure Faraday Symp. Chem. Soc., 17, 109-20, (1982) 1982

Eisenberg D A Problem for the Theory of Biological Structure; (editorial comment on a paper by Rayment, et al.) Nature 295(5845), 99-100, (1982). 1982

Eisenberg D, Wagle M-J, Mott-Smith J Two Projects for the Bicycle: The West Los Angeles Veloway and Bicycle Streets in Davis UC Appropriate Technology Program, (1982). 1982

1981

Rogers J, Choi E, Souza L, Carter C, Word C, Kuehl M, Eisenberg D, Wall R Gene segments encoding transmembrane carboxyl termini of immunoglobulin gamma chains. Cell. Oct 1981. 26(1 Pt 1):19-27. 1981 PMID: 6799207

Burton ZF, Sutherland T, Eisenberg D Refinements in the rapid isolation of glutamine synthetase from Escherichia coli. Arch. Biochem. Biophys.. Oct 1981. 211(1):507-9. 1981 PMID: 6118094

Scanlon WJ, Eisenberg D Solvation of Crystalline Proteins. Solvent Bound in Sperm Whale Metmyoglobin Type A Crystals at 6.1 and 23.5°C Phys. Chem., 85, 3251 (1981) 1981

Eisenberg D A Scientific Gold Rush; (book review of Polywater by F. Franks) Science 213, 4512, (1981). 1981

1980

Burton ZF, Eisenberg D A procedure for rapid isolation of both groE protein and glutamine synthetase from E coli. Arch. Biochem. Biophys.. Dec 1980. 205(2):478-88. 1980 PMID: 6110407

Eisenberg D, Terwilliger TC, Tsui F Structural studies of bee melittin. Biophys. J.. Oct 1980. 32(1):252-4. 1980 PMID: 19431375

Johal S, Bourque DP, Smith WW, Suh SW, Eisenberg D Crystallization and characterization of ribulose 1,5-bisphosphate carboxylase/oxygenase from eight plant species. J. Biol. Chem.. Sep 1980. 255(18):8873-80. 1980 PMID: 7410399

Anderson D, Terwilliger TC, Wickner W, Eisenberg D Melittin forms crystals which are suitable for high resolution X-ray structural analysis and which reveal a molecular 2-fold axis of symmetry. J. Biol. Chem.. Mar 1980. 255(6):2578-82. 1980 PMID: 7358689

Eisenberg D, Crothers DM Solutions to Problems in Physical Chemistry with Applications to the Life Sciences W.A. Benjamin, Inc., Menlo Park, California (1980). 1980

Alan R. Liss, Inc., New York (1980). Biological Recognition and Assembly, Progress in Clinical and Biological Research, Vol. 40; ed. by D.S. Eisenberg, J.A. Lake, and C. Fred Fox 1980 1980

1979

Knöppel E, Eisenberg D, Wickner W Interactions of melittin, a preprotein model, with detergents. Biochemistry. Sep 1979. 18(19):4177-81. 1979 PMID: 486416

Lei M, Aebi U, Heidner EG, Eisenberg D Limited proteolysis of glutamine synthetase is inhibited by glutamate and by feedback inhibitors. J. Biol. Chem.. Apr 1979. 254(8):3129-34. 1979 PMID: 34614

Eisenberg D, Crothers DM Physical Chemistry with Applications to the Life Sciences W.A. Benjamin, Inc., Menlo Park, California (1979). 1979

1978

Frink RJ, Eisenberg D, Glitz DG Localization of the site of adenylylation of glutamine synthetase by electron microscopy of an enzyme-antibody complex. Proc. Natl. Acad. Sci. U.S.A.. Dec 1978. 75(12):5778-82. 1978 PMID: 32536

Heidner EG, Frey TG, Held U, Weissman LJ, Fenna RE, Lei M, Harel M, Kabsch H, Sweet RM, Eisenberg D New crystal forms of glutamine synthetase and implications for the molecular structure. J. Mol. Biol.. Jun 1978. 122(2):163-73. 1978 PMID: 28418

Eisenberg D, Baker TS, Suh SW, Smith WW Structural studies of ribulose 1,5-bisphosphate carboxylase/oxygenase. Basic Life Sci.. 1978. 11:271-81. 1978 PMID: 747602

Frank J, Goldfarb W, Eisenberg D, Baker TS Reconstruction of glutamine synthetase using computer averaging. Ultramicroscopy. 1978. 3(3):283-90. 1978 PMID: 32653

Eisenberg D A Solid; (book review) Science 169, 46-47, (1970). 1978

1977

Baker TS, Eisenberg D, Eiserling F Ribulose bisphosphate carboxylase: a two-layered, square-shaped molecule of symmetry 422. Science. Apr 1977. 196(4287):293-5. 1977 PMID: 17756097

Baker TS, Suh SW, Eisenberg D Structure of ribulose-1,5-bisphosphate carboxylase-oxygenase: Form III crystals. Proc. Natl. Acad. Sci. U.S.A.. Mar 1977. 74(3):1037-41. 1977 PMID: 16592389

1976

Scanlon WJ, Eisenberg D A high hydrate of acetylcholine chloride. Biochem. Biophys. Res. Commun.. Oct 1976. 72(4):1285-91. 1976 PMID: 999672

Kabsch W, Kabsch H, Eisenberg D Packing in a new crystalline form of glutamine synthetase from Escherichia coli. J. Mol. Biol.. Jan 1976. 100(3):283-91. 1976 PMID: 3654

Eisenberg, D., Burton Z, Blumenberg M, Magasanik B, Streicher S, Tyler B Electron Microscopy of Glutamine Synthetase DNA Interactions in Molecular Mechanisms of Gene Expression, (ed. by D.Nierlich and W. Rutter). Academic Press, 171-176 (1976). 1976

1975

Scanlon WJ, Eisenberg D Solvation of crystalline proteins: theory and its application to available data. J. Mol. Biol.. Nov 1975. 98(3):485-502. 1975 PMID: 1195396

Frey TG, Eisenberg D, Eiserling FA Glutamine synthetase forms three- and seven-stranded helical cables. Proc. Natl. Acad. Sci. U.S.A.. Sep 1975. 72(9):3402-6. 1975 PMID: 242004

Baker TS, Eisenberg D, Eiserling FA, Weissman L The structure of form I crystals of D-ribulose-1,5-diphosphate carboxylase. J. Mol. Biol.. Feb 1975. 91(4):391-9. 1975 PMID: 1152035

Eisenberg D Toward a Theory of Water; (book review) Science 188, 142, (1975). 1975

1974

Climenson CS, Eisenberg D Rapid Alignment of Macromolecular Crystals for Precession X-ray Photography by Cone-Axis Oscillation J. of Appl. Crystallography, 7, 268-274 (1974) 1974

1972

Eisenberg D, Heidner EG, Goodkin P, Dastoor MN, Weber BH, Wedler F, Bell JD Molecular symmetry and crystal packing of E. coli glutamine synthetase. Cold Spring Harb. Symp. Quant. Biol.. 1972. 36:291-4. 1972 PMID: 4404443

1971

Dickerson RE, Takano T, Eisenberg D, Kallai OB, Samson L, Cooper A, Margoliash E Ferricytochrome c. I. General features of the horse and bonito proteins at 2.8 A resolution. J. Biol. Chem.. Mar 1971. 246(5):1511-35. 1971 PMID: 5545094

Heidner EG, Weber BH, Eisenberg D Subunit structure of aldolase. Science. Feb 1971. 171(3972):677-9. 1971 PMID: 5099718

1970

Eisenberg D X-ray Crystallography and Enzyme Structure in The Enzymes(ed. by P.D. Boyer), 3rd ed., vol. 1, 1, (1970). 1970

David Eisenberg A Solid Science 169, 46-47 (1970). 1970

1969

Dickerson RE, Eisenberg D, Varnum J, Kopka ML PtCl24-: a methionine-specific label for protein crystallography. J. Mol. Biol.. Oct 1969. 45(1):77-84. 1969 PMID: 5387946

Weinzierl JE, Eisenberg D, Dickerson RE Refinement of Protein Phases with the Karle-Hauptman Tangent Formula Acta Crystallographica, B25, 380-387 (1969) 1969

Eisenberg D, Kauzmann W Structure and Properties of Water Oxford University Press, New York and Oxford (1969). Japanese translation, (1974). 1969

1968

Dickerson RE, Kopka ML, Weinzierl JE, Varnum JC, Eisenberg D, Margoliash E An Interpretation of a Two-Derivative, 4 Å; Resolution Electron Density Map of Horse Heart Ferricytochrome Struc. and Func. of Cytochromes, ed. by K. Okunuki, University of Tokyo Press, pp. 225-251 (1968) 1968

1967

Dickerson RE, Kopka ML, Weinzierl J, Varnum J, Eisenberg D, Margoliash E Location of the heme in horse heart ferricytochrome c by x-ray diffraction. J. Biol. Chem.. Jun 1967. 242(12):3015-8. 1967 PMID: 6027262

1966

Eisenberg DS, Coulson CA Interactions of H2O Molecules in Ice. I. The Dipole Moment of an H2O Molecule in Ice Proc. Royal Society, 291, 445-453 (1966) 1966

Eisenberg DS, Coulson CA Interactions of H2O Molecules in Ice. II. Interaction Energies of H2O Molecules in Ice Proc. Royal Society, 291, 454-459 (1966) 1966

1965

Eisenberg D, Pochan JM, Flygare WA Values of Mean Square r2 for H2, NH3, and CH2O J. Chem. Physics, 43, 4531-4532 (1965) 1965

1963

EISENBERG DS, EDSALL JT SPECTROPHOTOMETRIC TITRATIONS OF HUMAN SERUM ALBUMIN AND REDUCED CARBOXYMETHYLATED ALBUMIN. Science. Oct 1963. 142(3588):50-1. 1963 PMID: 14057350

Eisenberg DS, Coulson CA Energy of Formation of D-Defects in Ice Nature, 199, 368-369; (1963) 1963

Obituary

In memoriam – Rainer Jaenicke

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