Publications
2024
Antao NV, Sall J, Petzold C, Ekiert DC, Bhabha G‡, Liang FX‡. Sample preparation and data collection for serial block face scanning electron microscopy of mammalian cell monolayers. PLoS One. 2024 Aug 9;19(8):e0301284. doi: 10.1371/journal.pone.0301284. PMID: 39121154; PMCID: PMC11315281.
Usmani M, Coudray N*, Riggi M, Raghu R, Ramchandani H, Bobe D, Kopylov M, Zhong ED, Iwasa JH, Ekiert DC‡, Bhabha G‡. Cryo-ET reveals the in situ architecture of the polar tube invasion apparatus from microsporidian parasites. bioRxiv [Preprint]. 2024 Jul 13:2024.07.13.603322. doi: 10.1101/2024.07.13.603322. PMID: 39026755; PMCID: PMC11257570.
Porebski B, Christ W, Corman A, Haraldsson M, Barz M, Lidemalm L, Häggblad M, Ilmain J, Wright SC, Murga M, Schlegel J, Jarvius M, Lapins M, Sezgin E, Bhabha G, Lauschke VM, Carreras-Puigvert J, Lafarga M, Klingström J, Hühn D, Fernandez-Capetillo O‡. Discovery of a novel inhibitor of macropinocytosis with antiviral activity. Mol Ther. 2024 Jul 2:S1525-0016(24)00455-6. doi: 10.1016/j.ymthe.2024.06.038. Epub ahead of print. PMID: 38956870.
Edman NI, Phal A, Redler RL, Schlichthaerle T, Srivatsan SR, Ehnes DD, Etemadi A, An SJ, Favor A, Li Z, Praetorius F, Gordon M, Vincent T, Marchiano S, Blakely L, Lin C, Yang W, Coventry B, Hicks DR, Cao L, Bethel N, Heine P, Murray A, Gerben S, Carter L, Miranda M, Negahdari B, Lee S, Trapnell C, Zheng Y, Murry CE, Schweppe DK, Freedman BS, Stewart L, Ekiert DC, Schlessinger J, Shendure J, Bhabha G, Ruohola-Baker H, Baker D‡. Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies. Cell. 2024 Jul 11;187(14):3726-3740.e43. doi: 10.1016/j.cell.2024.05.025. Epub 2024 Jun 10. PMID: 38861993; PMCID: PMC11246234.
Jaroenlak P*, McCarty KL*, Xia B, Lam C, Zwack EE, Yanai I, Bhabha G‡, Ekiert DC‡. scRNA-seq reveals transcriptional dynamics of Encephalitozoon intestinalis parasites in human macrophages. bioRxiv [Preprint]. 2024 May 30:2024.05.30.596468. doi: 10.1101/2024.05.30.596468. PMID: 38853846; PMCID: PMC11160751.
Ennist NM, Wang S, Kennedy MA, Curti M, Sutherland GA, Vasilev C, Redler RL, Maffeis V, Shareef S, Sica AV, Hua AS, Deshmukh AP, Moyer AP, Hicks DR, Swartz AZ, Cacho RA, Novy N, Bera AK, Kang A, Sankaran B, Johnson MP, Phadkule A, Reppert M, Ekiert D, Bhabha G, Stewart L, Caram JR, Stoddard BL, Romero E, Hunter CN, Baker D‡. De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nat Chem Biol. 2024 Jul;20(7):906-915. doi: 10.1038/s41589-024-01626-0. Epub 2024 Jun 3. PMID: 38831036; PMCID: PMC11213709.
Kahne SC, Yoo JH, Chen J, Nakedi K, Iyer LM, Putzel G, Samhadaneh NM, Pironti A, Aravind L, Ekiert DC, Bhabha G, Rhee KY, Darwin KH‡. Identification of a proteolysis regulator for an essential enzyme in Mycobacterium tuberculosis. bioRxiv [Preprint]. 2024 Mar 30:2024.03.29.587195. doi: 10.1101/2024.03.29.587195. PMID: 38585835; PMCID: PMC10996600.
Yoo JH, Santarossa C, Thomas A, Ekiert D, Darwin KH‡. Characterization of a cytokinin-binding protein locus in Mycobacterium tuberculosis. bioRxiv [Preprint]. 2024 Mar 26:2024.03.25.586654. doi: 10.1101/2024.03.25.586654. PMID: 38585767; PMCID: PMC10996566.
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D‡. Blueprinting extendable nanomaterials with standardized protein blocks. Nature. 2024 Mar;627(8005):898-904. doi: 10.1038/s41586-024-07188-4. Epub 2024 Mar 13. PMID: 38480887; PMCID: PMC10972742.
Chang R, Davydov A, Jaroenlak P, Budaitis B, Ekiert DC, Bhabha G‡, Prakash M‡. Energetics of the microsporidian polar tube invasion machinery. Elife. 2024 Feb 21;12:RP86638. doi: 10.7554/eLife.86638. PMID: 38381133; PMCID: PMC10942582.
2023
Romer B, Travis SM*, Mahon BP*, McManus CT, Jeffrey PD, Coudray N, Raghu R, Rale MJ, Zhong ED, Bhabha G‡, Petry S‡. Conformational states of the microtubule nucleator, the γ-tubulin ring complex. bioRxiv [Preprint]. 2023 Dec 21:2023.12.19.572162. doi: 10.1101/2023.12.19.572162. PMID: 38187763; PMCID: PMC10769196.
Antao NV, Lam C, Davydov A, Riggi M, Sall J, Petzold C, Liang FX, Iwasa JH, Ekiert DC‡, Bhabha G‡. 3D reconstructions of parasite development and the intracellular niche of the microsporidian pathogen Encephalitozoon intestinalis. Nat Commun. 2023 Nov 23;14(1):7662. doi: 10.1038/s41467-023-43215-0. PMID: 37996434; PMCID: PMC10667486.
Benjamin F. Cooper, Robert Clark, Anju Kudhail, Gira Bhabha, Damian C. Ekiert, Syma Khalid, Georgia L. Isom‡. Phospholipid transport to the bacterial outer membrane through an envelope-spanning bridge. Preprint. bioRxiv. 2023;2023.10.05.561070. Published 2023 Oct 5. doi:10.1101/2023.10.05.561070
Juliana K Ilmain, Sofya S Perelman, Maria C Panepinto, Irnov Irnov 1, Nicolas Coudray, Nora Samhadaneh, Alejandro Pironti, Beatrix Ueberheide, Damian C Ekiert, Gira Bhabha, Victor J Torres‡. Unlatching of the stem domains in the Staphylococcus aureus pore-forming leukocidin LukAB influences toxin oligomerization. J Biol Chem. 2023 Oct 4;299(12):105321. doi: 10.1016/j.jbc.2023.105321. Epub ahead of print. PMID: 37802313; PMCID: PMC10665946.
Leila T. Alexander‡, Janani Durairaj, Andriy Kryshtafovych, Luciano A. Abriata, Yusupha Bayo, Gira Bhabha, Cécile Breyton, Simon G. Caulton, James Chen, Séraphine Degroux, Damian C. Ekiert, Benedikte S. Erlandsen, Peter L. Freddolino, Dominic Gilzer, Chris Greening, Jonathan M. Grimes, Rhys Grinter, Manickam Gurusaran, Marcus D. Hartmann, Charlie J. Hitchman, Jeremy R. Keown, Ashleigh Kropp, Petri Kursula, Andrew L. Lovering, Bruno Lemaitre, Andrea Lia, Shiheng Liu, Maria Logotheti, Shuze Lu, Sigurbjörn Markússon, Mitchell D. Miller, George Minasov, Hartmut H. Niemann, Felipe Opazo, George N. Phillips Jr, Owen R. Davies, Samuel Rommelaere, Monica Rosas-Lemus, Pietro Roversi, Karla Satchell, Nathan Smith, Mark A. Wilson, Kuan-Lin Wu, Xian Xia, Han Xiao, Wenhua Zhang, Z. Hong Zhou, Krzysztof Fidelis, Maya Topf, John Moult, Torsten Schwede. Protein target highlights in CASP15: Analysis of models by structure providers. Proteins. 2023.07.26; 91(12): 1571-1599. doi:10.1002/prot.26545
Noelle V. Antao, Cherry Lam, Ari Davydov, Margot Riggi, Joseph Sall, ChristopherPetzold, Feng-Xia Liang, Janet Iwasa, Damian C. Ekiert‡, Gira Bhabha‡. 3D reconstructions of parasite development and the intracellular niche of the microsporidian pathogen E. intestinalis. bioRxiv 2023.07.02.547383; doi: https://doi.org/10.1101/2023.07.02.547383. Nat Commun 14, 7662 (2023). https://doi.org/10.1038/s41467-023-43215-0.
Timothy F. Huddy, Yang Hsia, Ryan D. Kibler, Jinwei Xu, Neville Bethel, Deepesh Nagarajan, Rachel Redler, Philip J. Y. Leung, Alexis Courbet, Erin C. Yang, Asim K. Bera, Nicolas Coudray, S. John Calise, Fatima A. Davila-Hernandez, Connor Weidle, Hannah L. Han, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S. Dickinson, Brian Coventry, TJ Brunette, Yulai Liu, Justas Dauparas, Andrew J. Borst, Damian Ekiert, Justin M. Kollman, Gira Bhabha, David Baker‡. Blueprinting expandable nanomaterials with standardized protein building blocks. bioRxiv. 2023 Jun 9:2023.06.09.544258. doi: 10.1101/2023.06.09.544258. PMID: 37333359; PMCID: PMC10274926.
Nathan Ennist‡, Shunzhi Wang, Madison Kennedy, Mariano Curti, George Sutherland, Cvetelin Vasilev, Rachel Redler, Valentin Maffeis, Saeed Shareef, Anthony Sica, Ash Hua, Arundhati Deshmukh, Adam Moyer, Derrick Hicks, Avi Swartz, Ralph Cacho, Nathan Novy, Asim Bera, Alex Kang, Banumathi Sankaran, Matthew Johnson, Mike Reppert, Damian Ekiert, Gira Bhabha, Lance Stewart, Justin Caram, Barry Stoddard, Elisabet Romero, C. Neil Hunter, and David Baker‡. De novo design of energy transfer proteins housing excitonically coupled chlorophyll special pairs. Res Sq [Preprint]. 2023 Apr 21:rs.3.rs-2736786. doi: 10.21203/rs.3.rs-2736786/v1. PMID: 37131790; PMCID: PMC10153362.
Natasha I Edman, Rachel L Redler, Ashish Phal, Thomas Schlichthaerle, Sanjay R Srivatsan, Ali Etemadi, Seong J An, Andrew Favor, Devon Ehnes, Zhe Li, Florian Praetorius, Max Gordon, Wei Yang, Brian Coventry, Derrick R. Hicks, Longxing Cao, Neville Bethel, Piper Heine, Analisa Murray, Stacey Gerben, Lauren Carter, Marcos Miranda, Babak Negahdari, Sangwon Lee, Cole Trapnell, Lance Stewart, Damian C. Ekiert, Joseph Schlessinger, Jay Shendure, Gira Bhabha, Hannele Ruohola-Baker, David Baker‡. (2023). Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies. bioRxiv 2023.03.14.532666. https://doi.org/10.1101/2023.03.14.532666
Ray Chang, Ari Davydov, Pattana Jaroenlak, Breane Budaitis, Damian C. Ekiert, Gira Bhabha‡, Manu Prakash‡. Energetics of the Microsporidian Polar Tube Invasion Machinery. bioRxiv 2023.01.17.524456; doi: https://doi.org/10.1101/2023.01.17.524456. eLife 12:RP86638 https://doi.org/10.7554/eLife.86638.2.
James Chen, Alice Fruhauf, Catherine Fan, Jackeline Ponce, Beatrix Ueberheide, Gira Bhabha‡, Damian C. Ekiert‡. Structure of an endogenous mycobacterial MCE lipid transporter. bioRxiv 2022.12.08.519548; doi: https://doi.org/10.1101/2022.12.08.519548. Nature 620, 445–452 (2023). https://doi.org/10.1038/s41586-023-06366-0.
2022
Mark R. MacRae*, Dhenesh Puvanendran*, Max A. B. Haase, Nicolas Coudray, Ljuvica Kolich, Cherry Lam, Minkyung Baek, Gira Bhabha‡, Damian C. Ekiert‡. Protein-protein interactions in the Mla lipid transport system probed by computational structure prediction and deep mutational scanning. J Biol Chem. 2023 Apr 25;299(6):104744. doi: 10.1016/j.jbc.2023.104744. Epub ahead of print. PMID: 37100290. bioRxiv 2022.12.09.519820; doi: https://doi.org/10.1101/2022.12.09.519820.
Sherry Bermeo*, Andrew Favor*, Ya-Ting Chang*, Andrew Norris, Scott E. Boyken, Yang Hsia, Hugh K. Haddox, Chunfu Xu, T. J. Brunette, Vicki H. Wysocki, Gira Bhabha, Damian C. Ekiert & David Baker‡. De novo design of obligate ABC-type heterotrimeric proteins. Nat Struct Mol Biol 29, 1266–1276 (2022). https://doi.org/10.1038/s41594-022-00879-4.
Kejia Wu, Hua Bai, Ya-Ting Chang, Rachel Redler, Kerrie E. McNally, William Sheffler, TJ Brunette, Derrick R. Hicks, Tomos E Morgan, Tim J Stevens, Adam Broerman, InnaGoreshnik, Michelle DeWitt, Cameron M. Chow, Yihang Shen, Lance Stewart, Emmanuel Derivery, Daniel Adriano Silva, Gira Bhabha, Damian Ekiert, David Baker‡. De novo design of modular peptide binding proteins by superhelical matching. bioRxiv 2022.11.14.514089; doi: https://doi.org/10.1101/2022.11.14.514089. Nature. 616, 581–589 (2023). https://doi.org/10.1038/s41586-023-05909-9
Ekiert DC‡, Coudray N, Bhabha G. Structure and mechanism of the bacterial lipid ABC transporter, MlaFEDB. Curr Opin Struct Biol. 2022 Oct;76:102429. doi: 10.1016/j.sbi.2022.102429. Epub 2022 Aug 15. PMID: 35981415
Giacometti SI*, MacRae MR*, Dancel-Manning K, Bhabha G‡, Ekiert DC‡. Lipid Transport Across Bacterial Membranes. Annu Rev Cell Dev Biol. 2022 Oct 6;38:125-153. doi: 10.1146/annurev-cellbio-120420-022914. Epub 2022 Jul 18. PMID: 35850151.
Jaroenlak P*, Usmani M*, Ekiert DC‡, Bhabha G‡. Mechanics of Microsporidian Polar Tube Firing. Exp Suppl. 2022;114:215-245. doi: 10.1007/978-3-030-93306-7_9. PMID: 35544005.
Gang SS, Grover M, Reddy KC, Raman D, Chang YT, Ekiert DC, Barkoulas M, Troemel ER‡. A pals-25 gain-of-function allele triggers systemic resistance against natural pathogens of C. elegans. bioRxiv 2022.06.28.497889; doi: https://doi.org/10.1101/2022.06.28.497889. PLoS Genet. 2022 Oct 3;18(10):e1010314. doi: 10.1371/journal.pgen.1010314. PMID: 36191002
Lažetić V, Wu F, Cohen LB, Reddy KC, Chang YT, Gang SS, Bhabha G, Troemel ER‡. The transcription factor ZIP-1 promotes resistance to intracellular infection in Caenorhabditis elegans. Nat Commun. 2022 Jan 10;13(1):17. doi: 10.1038/s41467-021-27621-w. PMID: 35013162
2021
Murareanu BM, Antao NV, Zhao W, Dubuffet A, El Alaoui H, Knox J, Ekiert DC, Bhabha G, Roy PJ, Reinke AW‡. High-throughput small molecule screen identifies inhibitors of microsporidia invasion and proliferation in C. elegans. bioRxiv 2021.09.06.459184; doi: https://doi.org/10.1101/2021.09.06.459184. Nat Commun. 2022 Sep 26;13(1):5653. doi: 10.1038/s41467-022-33400-y. PMID: 36163337
Casey Vieni, Nicolas Coudray, Georgia L. Isom, Gira Bhabha‡, Damian C. Ekiert‡. Role of Ring6 in the function of the E. coli MCE protein LetB bioRxiv 2021.09.30.462657; doi: https://doi.org/10.1101/2021.09.30.462657. J Mol Biol. 2022 Apr 15;434(7):167463. doi: 10.1016/j.jmb.2022.167463. Epub 2022 Jan 22.
PMID: 35077766
Perelman SS, James DBA, Boguslawski KM, Nelson CW, Ilmain JK, Zwack EE, Prescott RA, Mohamed A, Tam K, Chan R, Narechania A, Pawline MB, Vozhilla N, Moustafa AM, Kim SY, Dittmann M, Ekiert DC, Bhabha G, Shopsin B, Planet PJ, Koralov SB, Torres VJ‡. Genetic variation of staphylococcal LukAB toxin determines receptor tropism. Nature Microbiology. 2021 Apr 19. PMID: 33875847
Grossman-Haham I, Coudray N, Yu Z, Wang F, Zhang N, Bhabha G, Vale RD‡. Structure of the radial spoke head and insights into its role in mechanoregulation of ciliary beating. Nature Structural & Molecular Biology. 2021 Jan;28(1):20-28. PMID:33318704
2020
Kelley K, Raczkowski AM, Klykov O, Jaroenlak P, Bobe D, Kopylov M, Eng ET, Bhabha G, Potter CS, Carragher B‡, Noble AJ‡. Waffle method: A general and flexible approach for improving throughput in FIB-milling. BioRxiv. doi.org/10.1101/2020.10.28.359372. Nat Commun. 2022 Apr 6;13(1):1857. doi: 10.1038/s41467-022-29501-3. PMID: 35387991 Free PMC article.
Santarossa CC, Mickolajczyk KJ, Steinman JB, Urnavicius L, Chen N, Hirata Y, Fukase Y, Coudray N, Ekiert DC, Bhabha G‡, Kapoor TM‡. Targeting Allostery in the Dynein Motor Domain with Small Molecule Inhibitors. BioRxiv. doi.org/10.1101/2020.09.22.308700. Cell Chem Biol. 2021 Oct 21;28(10):1460-1473.e15. PMID: 34015309
Hsia Y, Mout R, Sheffler W, Edman NI, Vulovic I, Park YJ, Redler RL, Bick MJ, Bera AK, Courbet A, Kang A, Brunette TJ, Nattermann U, Tsai E, Saleem A, Chow CM, Ekiert D, Bhabha G, Veesler D, Baker D‡. Hierarchical design of multi-scale protein complexes by combinatorial assembly of oligomeric helical bundle and repeat protein building blocks. Pre-print posted on BioRxiv July 28, 2020: doi.org/10.1101/2020.07.27.221333. Nature Communications. 2021 Apr 16;12(1):2294. PMID: 33863889
Daniloski Z, Jordan TX, Ilmain J, Guo X, Bhabha G, tenOever BR, Sanjana NE‡. The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types. Pre-print posted on BioRxiv July 17, 2020: doi.org/10.1101/2020.06.14.151357. Elife. 2021 Feb 11;10:e65365. PMID: 33570490
Thawani A, Rale MJ, Coudray N, Bhabha G, Stone HA, Shaevitz JW, Petry S‡. The transition state and regulation of γ-TuRC-mediated microtubule nucleation revealed by single molecule microscopy. Elife. 2020 Jun 15;9:e54253. PMID: 32538784
Coudray N*, Isom GL*, MacRae MR*, Saiduddin MN, Bhabha G‡, Ekiert DC‡. 2020. Structure of MlaFEDB lipid transporter reveals an ABC exporter fold and two bound phospholipids. Pre-print posted on BioRxiv August 28, 2020: doi.org/10.1101/2020.06.02.129247. Elife. 2020 Nov 25;9:e62518. PMID: 33236984
Kolich LR*, Chang Y*, Coudray N*, Giacometti SI, MacRae MR, Isom GL, Teran EM, Bhabha G, Ekiert DC‡. 2020. Structure of MlaFB uncovers novel mechanisms of ABC transporter regulation. Pre-print posted on BioRxiv April 28, 2020: doi.org/10.1101/2020.04.27.064196. Elife. 2020 Jun 30;9:e60030. PMID: 32602838
Jaroenlak P, Cammer M, Davydov A, Sall J, Usmani M, Liang F, Ekiert DC‡, Bhabha G‡. 2020. 3-Dimensional organization and dynamics of the microsporidian polar tube invasion machinery. Pre-print posted on BioRxiv April 4, 2020: doi.org/10.1101/2020.04.03.024240. PLoS Pathogens. 2020 Sep 18;16(9):e1008738. PMID: 32946515
Fichtner ML*, Vieni C*, Redler RL, Kolich LR, Jiang R, Takata K, Stathopoulos P, Suarez P, Nowak RJ, Burden SJ, Ekiert DC‡, O’Connor KC‡. 2020. Self-antigen driven affinity maturation is required for pathogenic monovalent IgG4 autoantibody development. Pre-print posted on BioRxiv March 15, 2020: doi.org/10.1101/2020.03.14.988758. J. Experimental Medicine. 2020 Dec 7;217(12):e20200513. PMID: 32820331
2019
Isom GL*, Coudray N*, MacRae MR, McManus CT, Ekiert DC‡, Bhabha G‡. LetB Structure Reveals a Tunnel for Lipid Transport across the Bacterial Envelope. Pre-print posted on BioRxiv August 28, 2019: doi.org/10.1101/748145. Cell. 2020 Apr 30;181(3):653-664.e19. PMID: 32359438
Niekamp S, Sung J, Huynh W, Bhabha G, Vale RD‡, Stuurman N‡. Nanometer-accuracy distance measurements between fluorophores at the single-molecule level. PNAS. 2019 Feb 15. 116(10):4275-84. PMID: 30770448
2018
Niekamp S, Coudray N, Zhang N, Vale RD, Bhabha G‡. Coupling of ATPase activity, microtubule binding, and mechanics in the dynein motor domain. Pre-print posted on BioRxiv April 27, 2018: doi.org/10.1101/309179. EMBO J. 2019 May 31. e101414. PMID: 31268607
Pre-2018
Ekiert DC*‡, Bhabha G*, Isom GL, Greenan G, Ovchinnikov S, Henderson IR, Cox JS, Vale RD. Architectures of Lipid Transport Systems for the Bacterial Outer Membrane. Pre-print posted on BioRxiv October 1, 2016: doi.org/10.1101/064360. Cell. 2017 Apr 6;169(2):273-285.e17. PMID: 28388411
Bhabha G, Johnson GT, Schroeder CM, Vale RD‡. How Dynein Moves Along Microtubules. Trends Biochem Sci. 2016 Jan;41(1):94-105. PMID: 26678005
Brunette TJ, Parmeggiani F, Huang PS, Bhabha G, Ekiert DC, Tsutakawa SE, Hura GL, Tainer JA, Baker D‡. Exploring the repeat protein universe through computational protein design. Nature. 2015 Dec 24;528(7583):580-4. PMID: 26675729
Bhabha G, Biel JT, Fraser JS‡. Keep on moving: discovering and perturbing the conformational dynamics of enzymes. Acc Chem Res. 2015 Feb 17;48(2):423-30. PMID: 25539415
Ekiert DC‡, Cox JS. Structure of a PE-PPE-EspG complex from Mycobacterium tuberculosis reveals molecular specificity of ESX protein secretion. PNAS. 2014 Oct 14;111(41):14758-63. PMID: 25275011
Bhabha G, Cheng HC, Zhang N, Moeller A, Liao M, Speir JA, Cheng Y, Vale RD‡. Allosteric communication in the dynein motor domain. Cell. 2014 Nov 6;159(4):857-68. PMID: 25417161
Liu Y, Zhang X, Tan YL, Bhabha G, Ekiert DC, Kipnis Y, Bjelic S, Baker D, Kelly JW‡. De novo-designed enzymes as small-molecule-regulated fluorescence imaging tags and fluorescent reporters. J Am Chem Soc. 2014 Sep 24;136(38):13102-5. PMID: 25209927
McKenney RJ, Huynh W, Tanenbaum ME, Bhabha G, Vale RD‡. Activation of cytoplasmic dynein motility by dynactin-cargo adapter complexes. Science. 2014 Jul 18;345(6194):337-41. PMID: 25035494
Liu Y, Tan YL, Zhang X, Bhabha G, Ekiert DC, Genereux JC, Cho Y, Kipnis Y, Bjelic S, Baker D, Kelly JW‡. Small molecule probes to quantify the functional fraction of a specific protein in a cell with minimal folding equilibrium shifts. PNAS. 2014 Mar 25;111(12):4449-54. PMID: 24591605
Friesen RH, Lee PS, Stoop EJ, Hoffman RM, Ekiert DC, Bhabha G, Yu W, Juraszek J, Koudstaal W, Jongeneelen M, Korse HJ, Ophorst C, Brinkman-van der Linden EC, Throsby M, Kwakkenbos MJ, Bakker AQ, Beaumont T, Spits H, Kwaks T, Vogels R, Ward AB, Goudsmit J, Wilson IA‡. A common solution to group 2 influenza virus neutralization. PNAS. 2014 Jan 7;111(1):445-50. PMID: 24335589
Bhabha G, Ekiert DC, Jennewein M, Zmasek CM, Tuttle LM, Kroon G, Dyson HJ, Godzik A, Wilson IA, Wright PE‡. Divergent evolution of protein conformational dynamics in dihydrofolate reductase. Nat Struct Mol Biol. 2013 Nov;20(11):1243-9. PMID: 24077226
van den Bedem H, Bhabha G, Yang K, Wright PE, Fraser JS‡. Automated identification of functional dynamic contact networks from X-ray crystallography. Nat Methods. 2013 Sep;10(9):896-902. PMID: 23913260
Wang F, Ekiert DC, Ahmad I, Yu W, Zhang Y, Bazirgan O, Torkamani A, Raudsepp T, Mwangi W, Criscitiello MF, Wilson IA, Schultz PG, Smider VV. Reshaping antibody diversity. Cell. 2013 Jun 6;153(6):1379-93. PMID: 23746848
Dreyfus C, Ekiert DC, Wilson IA. Structure of a classical broadly neutralizing stem antibody in complex with a pandemic H2 influenza virus hemagglutinin. J Virol. 2013 Jun;87(12):7149-54. PMID: 23552413
Tsibane T, Ekiert DC, Krause JC, Martinez O, Crowe JE Jr, Wilson IA, Basler CF. Influenza human monoclonal antibody 1F1 interacts with three major antigenic sites and residues mediating human receptor specificity in H1N1 viruses. PLoS Pathog. 2012;8(12):e1003067. PMID: 23236279
Schneemann A, Speir JA, Tan GS, Khayat R, Ekiert DC, Matsuoka Y, Wilson IA. A virus-like particle that elicits cross-reactive antibodies to the conserved stem of influenza virus hemagglutinin. J Virol. 2012 Nov;86(21):11686-97. PMID: 22896619
Lee PS, Yoshida R, Ekiert DC, Sakai N, Suzuki Y, Takada A, Wilson IA. Heterosubtypic antibody recognition of the influenza virus hemagglutinin receptor binding site enhanced by avidity. PNAS. 2012 Oct 16;109(42):17040-5. PMID: 23027945
Dreyfus C, Laursen NS, Kwaks T, Zuijdgeest D, Khayat R, Ekiert DC, Lee JH, Metlagel Z, Bujny MV, Jongeneelen M, van der Vlugt R, Lamrani M, Korse HJ, Geelen E, Sahin Ö, Sieuwerts M, Brakenhoff JP, Vogels R, Li OT, Poon LL, Peiris M, Koudstaal W, Ward AB, Wilson IA, Goudsmit J, Friesen RH. Highly conserved protective epitopes on influenza B viruses. Science. 2012 Sep 14;337(6100):1343-8. PMID: 22878502
Ekiert DC, Kashyap AK, Steel J, Rubrum A, Bhabha G, Khayat R, Lee JH, Dillon MA, O'Neil RE, Faynboym AM, Horowitz M, Horowitz L, Ward AB, Palese P, Webby R, Lerner RA, Bhatt RR, Wilson IA. Cross-neutralization of influenza A viruses mediated by a single antibody loop. Nature. 2012 Sep 27;489(7417):526-32. PMID: 22982990
Buck-Koehntop BA, Stanfield RL, Ekiert DC, Martinez-Yamout MA, Dyson HJ, Wilson IA, Wright PE. Molecular basis for recognition of methylated and specific DNA sequences by the zinc finger protein Kaiso. PNAS. 2012 Sep 18;109(38):15229-34. PMID: 22949637
Nycholat CM, McBride R, Ekiert DC, Xu R, Rangarajan J, Peng W, Razi N, Gilbert M, Wakarchuk W, Wilson IA, Paulson JC. Recognition of sialylated poly-N-acetyllactosamine chains on N- and O-linked glycans by human and avian influenza A virus hemagglutinins. Angew Chem Int Ed Engl. 2012 May 14;51(20):4860-3. PMID: 22505324
Ekiert DC, Wilson IA. Broadly neutralizing antibodies against influenza virus and prospects for universal therapies. Curr Opin Virol. 2012 Apr;2(2):134-41. PMID: 22482710
Bhabha G, Tuttle L, Martinez-Yamout MA, Wright PE. Identification of endogenous ligands bound to bacterially expressed human and E. coli dihydrofolate reductase by 2D NMR. FEBS Lett. 2011 Nov 16;585(22):3528-32. PMID: 22024482
Ekiert DC, Friesen RH, Bhabha G, Kwaks T, Jongeneelen M, Yu W, Ophorst C, Cox F, Korse HJ, Brandenburg B, Vogels R, Brakenhoff JP, Kompier R, Koldijk MH, Cornelissen LA, Poon LL, Peiris M, Koudstaal W, Wilson IA, Goudsmit J. A highly conserved neutralizing epitope on group 2 influenza A viruses. Science. 2011 Aug 12;333(6044):843-50. PMID: 21737702
Fleishman SJ, Whitehead TA, Ekiert DC, Dreyfus C, Corn JE, Strauch EM, Wilson IA, Baker D. Computational design of proteins targeting the conserved stem region of influenza hemagglutinin. Science. 2011 May 13;332(6031):816-21. PMID: 21566186
Bhabha G, Lee J, Ekiert DC, Gam J, Wilson IA, Dyson HJ, Benkovic SJ, Wright PE. A dynamic knockout reveals that conformational fluctuations influence the chemical step of enzyme catalysis. Science. 2011 Apr 8;332(6026):234-8. PMID: 21474759
Krause JC, Ekiert DC, Tumpey TM, Smith PB, Wilson IA, Crowe JE Jr. An insertion mutation that distorts antibody binding site architecture enhances function of a human antibody. MBio. 2011 Feb 8;2(1):e00345-10. PMID: 21304166
Wang TT, Tan GS, Hai R, Pica N, Ngai L, Ekiert DC, Wilson IA, García-Sastre A, Moran TM, Palese P. Vaccination with a synthetic peptide from the influenza virus hemagglutinin provides protection against distinct viral subtypes. PNAS. 2010 Nov 2;107(44):18979-84. PMID: 20956293
Xu R, Ekiert DC, Krause JC, Hai R, Crowe JE Jr, Wilson IA. Structural basis of preexisting immunity to the 2009 H1N1 pandemic influenza virus. Science. 2010 Apr 16;328(5976):357-60. PMID: 20339031
Fuller AA, Du D, Liu F, Davoren JE, Bhabha G, Kroon G, Case DA, Dyson HJ, Powers ET, Wipf P, Gruebele M, Kelly JW. Evaluating beta-turn mimics as beta-sheet folding nucleators. PNAS. 2009 Jul 7;106(27):11067-72. PMID: 9541614
Ekiert DC, Bhabha G, Elsliger MA, Friesen RH, Jongeneelen M, Throsby M, Goudsmit J, Wilson IA. Antibody recognition of a highly conserved influenza virus epitope. Science. 2009 Apr 10;324(5924):246-51. PMID: 19251591
Yao Y, Bhabha G, Kroon G, Landes M, Dyson HJ. Structure discrimination for the C-terminal domain of Escherichia coli trigger factor in solution. J Biomol NMR. 2008 Jan;40(1):23-30. PMID: 18043871
Allikian MJ, Bhabha G, Dospoy P, Heydemann A, Ryder P, Earley JU, Wolf MJ, Rockman HA, McNally EM. Reduced life span with heart and muscle dysfunction in Drosophila sarcoglycan mutants. Hum Mol Genet. 2007 Dec 1;16(23):2933-43. PMID: 17855453