Raphael Trenker, PhD

Title(s)Employee of Contracting Firm, Biochemistry and Biophysics
SchoolSchool of Medicine
Address555 Mission Bay Blvd South, #482
San Francisco CA 94158
Phone--
ORCID ORCID Icon0000-0003-1748-0517 Additional info
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Structural dynamics of the active HER4 and HER2/HER4 complexes is finely tuned by different growth factors and glycosylation. Elife. 2024 Mar 18; 12. Trenker R, Diwanji D, Bingham T, Verba KA, Jura N. PMID: 38498590; PMCID: PMC10948148.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    2. Structural dynamics of the active HER4 and HER2/HER4 complexes is finely tuned by different growth factors and glycosylation. eLife. 2024 Mar 18; 12. Trenker TR, Diwanji DD, Bingham BT, Verba VK, Jura JN. .
      View in: Publisher Site   Mentions:
    3. Structural dynamics of the active HER4 and HER2/HER4 complexes is finely tuned by different growth factors and glycosylation. bioRxiv. 2024 Jan 04. Trenker R, Diwanji D, Bingham T, Verba KA, Jura N. PMID: 38260342; PMCID: PMC10802258.
      View in: PubMed   Mentions:
    4. De novo-designed transmembrane domains tune engineered receptor functions. Elife. 2022 05 04; 11. Elazar A, Chandler NJ, Davey AS, Weinstein JY, Nguyen JV, Trenker R, Cross RS, Jenkins MR, Call MJ, Call ME, Fleishman SJ. PMID: 35506657; PMCID: PMC9068223.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    5. An effective strategy for ligand-mediated pulldown of the HER2/HER3/NRG1β heterocomplex and cryo-EM structure determination at low sample concentrations. Methods Enzymol. 2022; 667:633-662. Trenker R, Diwanji D, Verba KA, Jura N. PMID: 35525557; PMCID: PMC9288110.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    6. Efficient expression, purification, and visualization by cryo-EM of unliganded near full-length HER3. Methods Enzymol. 2022; 667:611-632. Diwanji D, Trenker R, Jura N, Verba KA. PMID: 35525556; PMCID: PMC9288109.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    7. Cryo-EM structures of the near full-length HER2/HER3 heterodimer reveal a novel allosteric mechanism of activation. Biophysical Journal. 2022 Feb 1; 121(3):84a. Diwanji DD, Trenker TR, Thaker TT, Wang WF, Agard AD, Verba VK, Jura JN. .
      View in: Publisher Site   Mentions:
    8. Author Correction: Structures of the HER2-HER3-NRG1β complex reveal a dynamic dimer interface. Nature. 2022 Feb; 602(7898):E26. Diwanji D, Trenker R, Thaker TM, Wang F, Agard DA, Verba KA, Jura N. PMID: 35132240.
      View in: PubMed   Mentions:    Fields:    
    9. Structures of the HER2-HER3-NRG1β complex reveal a dynamic dimer interface. Nature. 2021 12; 600(7888):339-343. Diwanji D, Trenker R, Thaker TM, Wang F, Agard DA, Verba KA, Jura N. PMID: 34759323; PMCID: PMC9298180.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansCells
    10. Mutant HER2 needs mutant HER3 to be an effective oncogene. Cell Rep Med. 2021 08 17; 2(8):100361. Trenker R, Diwanji D, Jura N. PMID: 34467245; PMCID: PMC8385292.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    11. Human and viral membrane-associated E3 ubiquitin ligases MARCH1 and MIR2 recognize different features of CD86 to downregulate surface expression. J Biol Chem. 2021 07; 297(1):100900. Trenker R, Wu X, Nguyen JV, Wilcox S, Rubin AF, Call ME, Call MJ. PMID: 34157285; PMCID: PMC8319528.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    12. CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes. Res Sq. 2021 May 19. Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, Owens TW, Peters JK, Rizo AN, Schulze-Gahmen U, Smith AM, Young ID, Yu Z, Asarnow D, Billesbølle C, Campbell MG, Chen J, Chen KH, Chio US, Dickinson MS, Doan L, Jin M, Kim K, Li J, Li YL, Linossi E, Liu Y, Lo M, Lopez J, Lopez KE, Mancino A, Moss FR, Paul MD, Pawar KI, Pelin A, Pospiech TH, Puchades C, Remesh SG, Safari M, Schaefer K, Sun M, Tabios MC, Thwin AC, Titus EW, Trenker R, Tse E, Tsui TKM, Wang F, Zhang K, Zhang Y, Zhao J, Zhou F, Zhou Y, Zuliani-Alvarez L, QCRG Structural Biology Consortium, Agard DA, Cheng Y, Fraser JS, Jura N, Kortemme T, Manglik A, Southworth DR, Stroud RM, Swaney DL, Krogan NJ, Frost A, Rosenberg OS, Verba KA. PMID: 34031651; PMCID: PMC8142659.
      View in: PubMed   Mentions: 1  
    13. CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes. bioRxiv. 2021 May 11. Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, Owens TW, Peters JK, Rizo AN, Schulze-Gahmen U, Smith AM, Young ID, Yu Z, Asarnow D, Billesbølle C, Campbell MG, Chen J, Chen KH, Chio US, Dickinson MS, Doan L, Jin M, Kim K, Li J, Li YL, Linossi E, Liu Y, Lo M, Lopez J, Lopez KE, Mancino A, Moss FR, Paul MD, Pawar KI, Pelin A, Pospiech TH, Puchades C, Remesh SG, Safari M, Schaefer K, Sun M, Tabios MC, Thwin AC, Titus EW, Trenker R, Tse E, Tsui TKM, Wang F, Zhang K, Zhang Y, Zhao J, Zhou F, Zhou Y, Zuliani-Alvarez L, QCRG Structural Biology Consortium, Agard DA, Cheng Y, Fraser JS, Jura N, Kortemme T, Manglik A, Southworth DR, Stroud RM, Swaney DL, Krogan NJ, Frost A, Rosenberg OS, Verba KA. PMID: 34013269; PMCID: PMC8132225.
      View in: PubMed   Mentions: 3  
    14. An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike. Science. 2020 12 18; 370(6523):1473-1479. Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbølle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, García-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A. PMID: 33154106; PMCID: PMC7857409.
      View in: PubMed   Mentions: 209     Fields:    Translation:HumansAnimalsCells
    15. Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. Science. 2020 12 04; 370(6521). Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, Titus EW, Cakir M, Soucheray M, McGregor M, Cakir Z, Jang G, O'Meara MJ, Tummino TA, Zhang Z, Foussard H, Rojc A, Zhou Y, Kuchenov D, Hüttenhain R, Xu J, Eckhardt M, Swaney DL, Fabius JM, Ummadi M, Tutuncuoglu B, Rathore U, Modak M, Haas P, Haas KM, Naing ZZC, Pulido EH, Shi Y, Barrio-Hernandez I, Memon D, Petsalaki E, Dunham A, Marrero MC, Burke D, Koh C, Vallet T, Silvas JA, Azumaya CM, Billesbølle C, Brilot AF, Campbell MG, Diallo A, Dickinson MS, Diwanji D, Herrera N, Hoppe N, Kratochvil HT, Liu Y, Merz GE, Moritz M, Nguyen HC, Nowotny C, Puchades C, Rizo AN, Schulze-Gahmen U, Smith AM, Sun M, Young ID, Zhao J, Asarnow D, Biel J, Bowen A, Braxton JR, Chen J, Chio CM, Chio US, Deshpande I, Doan L, Faust B, Flores S, Jin M, Kim K, Lam VL, Li F, Li J, Li YL, Li Y, Liu X, Lo M, Lopez KE, Melo AA, Moss FR, Nguyen P, Paulino J, Pawar KI, Peters JK, Pospiech TH, Safari M, Sangwan S, Schaefer K, Thomas PV, Thwin AC, Trenker R, Tse E, Tsui TKM, Wang F, Whitis N, Yu Z, Zhang K, Zhang Y, Zhou F, Saltzberg D, QCRG Structural Biology Consortium, Hodder AJ, Shun-Shion AS, Williams DM, White KM, Rosales R, Kehrer T, Miorin L, Moreno E, Patel AH, Rihn S, Khalid MM, Vallejo-Gracia A, Fozouni P, Simoneau CR, Roth TL, Wu D, Karim MA, Ghoussaini M, Dunham I, Berardi F, Weigang S, Chazal M, Park J, Logue J, McGrath M, Weston S, Haupt R, Hastie CJ, Elliott M, Brown F, Burness KA, Reid E, Dorward M, Johnson C, Wilkinson SG, Geyer A, Giesel DM, Baillie C, Raggett S, Leech H, Toth R, Goodman N, Keough KC, Lind AL, Zoonomia Consortium, Klesh RJ, Hemphill KR, Carlson-Stevermer J, Oki J, Holden K, Maures T, Pollard KS, Sali A, Agard DA, Cheng Y, Fraser JS, Frost A, Jura N, Kortemme T, Manglik A, Southworth DR, Stroud RM, Alessi DR, Davies P, Frieman MB, Ideker T, Abate C, Jouvenet N, Kochs G, Shoichet B, et al. PMID: 33060197; PMCID: PMC7808408.
      View in: PubMed   Mentions: 338     Fields:    Translation:HumansCells
    16. An ultra-potent synthetic nanobody neutralizes SARS-CoV-2 by locking Spike into an inactive conformation. bioRxiv. 2020 Aug 17. Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbølle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, García-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A. PMID: 32817938; PMCID: PMC7430568.
      View in: PubMed   Mentions: 5  
    17. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. 2020 07; 583(7816):459-468. Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Meyer B, Roesch F, Vallet T, Mac Kain A, Miorin L, Moreno E, Naing ZZC, Zhou Y, Peng S, Shi Y, Zhang Z, Shen W, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Lyu J, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Rakesh R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Huang XP, Liu Y, Wankowicz SA, Bohn M, Safari M, Ugur FS, Koh C, Savar NS, Tran QD, Shengjuler D, Fletcher SJ, O'Neal MC, Cai Y, Chang JCJ, Broadhurst DJ, Klippsten S, Sharp PP, Wenzell NA, Kuzuoglu-Ozturk D, Wang HY, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Stroud RM, Frankel AD, Rosenberg OS, Verba KA, Agard DA, Ott M, Emerman M, Jura N, von Zastrow M, Verdin E, Ashworth A, Schwartz O, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor SN, Fraser JS, Gross JD, Sali A, Roth BL, Ruggero D, Taunton J, Kortemme T, Beltrao P, Vignuzzi M, García-Sastre A, Shokat KM, Shoichet BK, Krogan NJ. PMID: 32353859; PMCID: PMC7431030.
      View in: PubMed   Mentions: 2284     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    18. A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. bioRxiv. 2020 Mar 22. Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Naing ZZC, Zhou Y, Peng S, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Shen W, Shi Y, Zhang Z, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Ramachandran R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Lin Y, Wankowicz SA, Bohn M, Trenker R, Young JM, Cavero D, Hiatt J, Roth T, Rathore U, Subramanian A, Noack J, Hubert M, Roesch F, Vallet T, Meyer B, White KM, Miorin L, Agard D, Emerman M, Ruggero D, García-Sastre A, Jura N, von Zastrow M, Taunton J, Schwartz O, Vignuzzi M, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor S, Fraser JS, Gross J, Sali A, Kortemme T, Beltrao P, Shokat K, Shoichet BK, Krogan NJ. PMID: 32511329; PMCID: PMC7239059.
      View in: PubMed   Mentions: 28  
    19. Receptor tyrosine kinase activation: From the ligand perspective. Curr Opin Cell Biol. 2020 04; 63:174-185. Trenker R, Jura N. PMID: 32114309; PMCID: PMC7813211.
      View in: PubMed   Mentions: 60     Fields:    Translation:HumansAnimalsCells
    20. The serial millisecond crystallography instrument at the Australian Synchrotron incorporating the "Lipidico" injector. Rev Sci Instrum. 2019 Aug; 90(8):085110. Berntsen P, Hadian Jazi M, Kusel M, Martin AV, Ericsson T, Call MJ, Trenker R, Roque FG, Darmanin C, Abbey B. PMID: 31472610.
      View in: PubMed   Mentions: 9     Fields:    
    21. Protein-Eye View of the in Meso Crystallization Mechanism. Langmuir. 2019 06 25; 35(25):8344-8356. van T Hag L, de Campo L, Tran N, Sokolova A, Trenker R, Call ME, Call MJ, Garvey CJ, Leung AE, Darwish TA, Krause-Heuer A, Knott R, Meikle TG, Drummond CJ, Mezzenga R, Conn CE. PMID: 31122018.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    22. Functional role of PGAM5 multimeric assemblies and their polymerization into filaments. Nat Commun. 2019 01 31; 10(1):531. Ruiz K, Thaker TM, Agnew C, Miller-Vedam L, Trenker R, Herrera C, Ingaramo M, Toso D, Frost A, Jura N. PMID: 30705304; PMCID: PMC6355839.
      View in: PubMed   Mentions: 10     Fields:    Translation:AnimalsCells
    23. Lipidic Cubic Phase-Induced Membrane Protein Crystallization: Interplay Between Lipid Molecular Structure, Mesophase Structure and Properties, and Crystallogenesis. Crystal Growth & Design. 2017 Nov 1; 17(11):5667-5674. Zabara ZA, Meikle MT, Trenker TR, Yao YS, Newman NJ, Peat PT, Separovic SF, Conn CC, Call CM, Call CM, Landau LE, Drummond DC. .
      View in: Publisher Site   Mentions:
    24. Structural analysis of P. falciparum KAHRP and PfEMP1 complexes with host erythrocyte spectrin suggests a model for cytoadherent knob protrusions. PLoS Pathog. 2017 Aug; 13(8):e1006552. Cutts EE, Laasch N, Reiter DM, Trenker R, Slater LM, Stansfeld PJ, Vakonakis I. PMID: 28806784; PMCID: PMC5570508.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    25. Progress and prospects for structural studies of transmembrane interactions in single-spanning receptors. Curr Opin Struct Biol. 2016 08; 39:115-123. Trenker R, Call MJ, Call ME. PMID: 27423296.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    26. Cell-free synthesis of isotopically labelled peptide ligands for the functional characterization of G protein-coupled receptors. FEBS Open Bio. 2016 Jan; 6(1):90-102. Joedicke L, Trenker R, Langer JD, Michel H, Preu J. PMID: 27047736; PMCID: PMC4794788.
      View in: PubMed   Mentions: 1     Fields:    
    27. Crystal Structure of the Glycophorin A Transmembrane Dimer in Lipidic Cubic Phase. J Am Chem Soc. 2015 Dec 23; 137(50):15676-9. Trenker R, Call ME, Call MJ. PMID: 26642914.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
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