Selected Publications

• Structural insights into Ubr1-mediated N-degron polyubiquitination.

  Pan M*, Zheng Q*, Wang T*, Liang L*, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y^†, Liu L^†, Zhao M^†.
  Nature. (2021). 600(7888):334-338.

• Mechanistic insight into substrate processing and allosteric inhibition of human p97.

  Pan M*, Yu Y*, Ai H, Zheng Q, Xie Y, Liu L^†, Zhao M^†.
  Nat Struct Mol Biol. (2021). 28(7):614-625.

• K29-linked ubiquitin signaling regulates proteotoxic stress response and cell cycle.

  Yu Y*, Zheng Q*, Erramilli SK*, Pan M*, Park S, Xie Y, Li J, Fei J, Kossiakoff AA^†, Liu L^†, Zhao M^†.
  Nat Chem Biol. (2021). 17(8):896-905.

• Seesaw conformations of Npl4 in the human p97 complex and the inhibitory mechanism of a disulfiram derivative.

  Pan M, Zheng Q, Yu Y, Ai H, Xie Y, Zeng X, Wang C, Liu L^†, Zhao M^†.
  Nat Commun. (2021). 12(1):121.

• Mechanistic insights into the recycling machine of the SNARE complex.

  Zhao M*, Wu S*, Zhou Q, Vivona S, Cipriano DJ, Cheng Y, Brunger AT.
  Nature. (2015). 518(7537):61-7.

* equal contribution
^† co-correspondence

All Publications

1. An engineered hypercompact CRISPR-Cas12f system with boosted gene-editing activity.

   Wu T*, Liu C*, Zou S*, Lyu R, Yang B, Yan H, Zhao M^†, Tang W^†.
   Nat Chem Biol. (2023).

2. CAND1 orchestrates CRLs through rock and roll.

   Xie Y, Zhao M.
   Cell. (2023). 186(9):1817-1818.

3. Fast and automated protein-DNA/RNA macromolecular complex modeling from cryo-EM maps.

   Nakamura A, Meng H, Zhao M, Wang F, Hou J, Cao R, Si D.
   Brief Bioinform. (2023). 24(2).

4. Structural basis for lipid and copper regulation of the ABC transporter MsbA.

   Lyu J, Liu C, Zhang T, Schrecke S, Elam NP, Packianathan C, Hochberg GKA, Russell D, Zhao M, Laganowsky A.
   Nat Commun. (2022). 13(1):7291.

5. A novel membrane complex is required for docking and regulated exocytosis of lysosome-related organelles in Tetrahymena thermophila.

   Kuppannan A, Jiang Y, Maier W, Liu C, Lang C, Cheng C, Field M, Zhao M, Zoltner M, Turkewitz A.
   PLOS Genetics. (2022). 18(5):e1010194.

6. Structural basis for the mechanisms of human presequence protease conformational switch and substrate recognition.

   Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ.
   Nat Commun. (2022). 13(1):1833.

7. Structural insights into Ubr1-mediated N-degron polyubiquitination.

   Pan M*, Zheng Q*, Wang T*, Liang L*, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y^†, Liu L^†, Zhao M^†.
   Nature. (2021). 600(7888):334-338.

8. Mechanistic insight into substrate processing and allosteric inhibition of human p97.

   Pan M*, Yu Y*, Ai H, Zheng Q, Xie Y, Liu L^†, Zhao M^†.
   Nat Struct Mol Biol. (2021). 28(7):614-625.

9. K29-linked ubiquitin signaling regulates proteotoxic stress response and cell cycle.

   Yu Y*, Zheng Q*, Erramilli SK*, Pan M*, Park S, Xie Y, Li J, Fei J, Kossiakoff AA^†, Liu L^†, Zhao M^†.
   Nat Chem Biol. (2021). 17(8):896-905.

10. Artificial intelligence advances for de novo molecular structure modeling in cryo-electron microscopy.

    Si D, Nakamura A, Tang R, Guan H, Hou J, Firozi A, Cao R, Hippe K, Zhao M.
    WIREs Computational Molecular Science. (2021). e1542.

11. Molecular assemblies of the catalytic domain of SOS with KRas and oncogenic mutants.

    Moghadamchargari Z, Shirzadeh M, Liu C, Schrecke S, Packianathan C, Russell DH, Zhao M, Laganowsky A.
    Proc Natl Acad Sci U S A. (2021). 118(12).

12. Seesaw conformations of Npl4 in the human p97 complex and the inhibitory mechanism of a disulfiram derivative.

    Pan M, Zheng Q, Yu Y, Ai H, Xie Y, Zeng X, Wang C, Liu L^†, Zhao M^†.
    Nat Commun. (2021). 12(1):121.

13. Selective regulation of human TRAAK channels by biologically active phospholipids.

    Schrecke S, Zhu Y, McCabe JW, Bartz M, Packianathan C, Zhao M, Zhou M, Russell D, Laganowsky A.
    Nat Chem Biol. (2021). 17(1):89-95.

14. Structural analysis of Mycobacterium tuberculosis M13 metalloprotease Zmp1 open states.

    Liang WG*, Mancl JM*, Zhao M^†, Tang WJ^†.
    Structure. (2020).

15. Alternative splicing controls teneurin-latrophilin interaction and synapse specificity by a shape-shifting mechanism.

    Li Ji*, Xie Y*, Cornelius S, Jiang X, Sando R, Kordon SP, Pan M, Leon K, Südhof TC, Zhao M^†, Araç D^†.
    Nat Commun. (2020). 11(1):2140.

16. Structural basis for adhesion G protein-coupled receptor Gpr126 function.

    Leon K, Cunningham RL, Riback JA, Feldman E, Li J, Sosnick TR, Zhao M, Monk KR, Araç D.
    Nat Commun. (2020). 11(1):194.

17. Structural basis for reversible amyloids of hnRNPA1 elucidates their role in stress granule assembly.

    Gui X, Luo F, Li Y, Zhou H, Qin Z, Liu Z, Gu J, Xie M, Zhao K, Dai B, Shin WS, He J, He L, Jiang L, Zhao M, Sun B, Li X, Liu C, Li D.
    Nat Commun. (2019). 10(1):2006.

18. Structural principles of SNARE complex recognition by the AAA+ protein NSF.

    White KI, Zhao M, Choi UB, Pfuetzner RA, Brunger AT.
    Elife. (2018). 7:e38888.

19. Stem cell heterogeneity drives the parasitic life cycle of Schistosoma mansoni.

    Wang B, Lee J, Li P, Saberi A, Yang H, Liu C, Zhao M, Newmark PA.
    Elife. (2018). 7:e35449.

20. NSF-mediated disassembly of on- and off-pathway SNARE complexes and inhibition by complexin.

    Choi UB, Zhao M, White KI, Pfuetzner RA, Esquivies L, Zhou Q, Brunger AT.
    Elife. (2018). 7:e36497.

21. Atomic structures of FUS LC domain segments reveal bases for reversible amyloid fibril formation.

    Luo F, Gui X, Zhou H, Gu J, Li Y, Liu X, Zhao M, Li D, Li X, Liu C.
    Nat Struct Mol Biol. (2018). 25(4):341-6.

22. The primed SNARE-complexin-synaptotagmin complex for neuronal exocytosis.

    Zhou Q*, Zhou P*, Wang AL, Wu D, Zhao M, Südhof TC, Brunger AT.
    Nature. (2017). 548(7668):420-5.

23. Molecular mechanisms of synaptic vesicle priming by Munc13 and Munc18.

    Lai Y, Choi UB, Leitz J, Rhee HJ, Lee C, Altas B, Zhao M, Pfuetzner RA, Wang AL, Brose N, Rhee J, Brunger AT.
    Neuron. (2017). 95:591-607.

24. Advances in X-ray free electron laser (XFEL) diffraction data processing applied to the crystal structure of the synaptotagmin-1 / SNARE complex.

    Lyubimov AY, Uervirojnangkoorn M, Zeldin OB, Zhou Q, Zhao M, Brewster AS, Michels-Clark T, Holton JM, Sauter NK, Weis WI, Brunger AT.
    Elife. (2016). 5:e18740.

25. N-terminal domain of complexin independently activates calcium-triggered fusion.

    Lai Y, Choi UB, Zhang Y, Zhao M, Pfuetzner RA, Wang AL, Diao J, Brunger AT.
    Proc Natl Acad Sci U S A. (2016). 113(32):E4698-707.

26. Complexin induces a conformational change at the membrane-proximal C-terminal end of the SNARE complex.

    Choi UB, Zhao M, Zhang Y, Lai Y, Brunger AT.
    Elife. (2016). 5:e16886.

27. Ketones block amyloid entry and improve cognition in an Alzheimer's model.

    Yin JX, Maalouf M, Han P, Zhao M, Gao M, Dharshaun T, Ryan C, Whitelegge J, Wu J, Eisenberg D, Reiman EM, Schweizer FE, Shi J.
    Neurobiol Aging. (2016). 39:25-37.

28. Recent advances in deciphering the structure and molecular mechanism of the AAA+ ATPase N-ethylmaleimide Sensitive Factor (NSF).

    Zhao M, Brunger AT.
    J Mol Biol. (2016). 428(9 Pt B):1912-26.

29. Architecture of the synaptotagmin-SNARE machinery for neuronal exocytosis.

    Zhou Q, Lai Y*, Bacaj T*, Zhao M*, Lyubimov AY, Uervirojnangkoorn M, Zeldin OB, Brewster AS, Sauter NK, Cohen AE, Soltis SM, Alonso-Mori R, Chollet M, Lemke HT, Pfuetzner RA, Choi UB, Weis WI, Diao J, Südhof TC, Brunger AT.
    Nature. (2015). 525(7567):62-7.

30. ATG14 promotes membrane tethering and fusion of autophagosomes to endolysosomes.

    Diao J, Liu R, Rong Y, Zhao M, Zhang J, Lai Y, Zhou Q, Wilz LM, Li J, Vivona S, Pfuetzner RA, Brunger AT, Zhong Q.
    Nature. (2015). 520(7548):563-6.

31. Data Exploration Toolkit for serial diffraction experiments.

    Zeldin OB, Brewster AS, Hattne J, Uervirojnangkoorn M, Lyubimov AY, Zhou Q, Zhao M, Weis WI, Sauter NK, Brunger AT.
    Acta Crystallogr D Biol Crystallogr. (2015). 71(Pt 2):352-6.

32. Mechanistic insights into the recycling machine of the SNARE complex.

    Zhao M*, Wu S*, Zhou Q, Vivona S, Cipriano DJ, Cheng Y, Brunger AT.
    Nature. (2015). 518(7537):61-7.

33. Complexin-1 Enhances the On-Rate of Vesicle Docking via Simultaneous SNARE and Membrane Interactions.

    Diao J, Cipriano DJ, Zhao M, Zhang Y, Shah S, Padolina MS, Pfuetzner RA, Brunger AT.
    J Am Chem Soc. (2013). 135(41):15274-7.

34. Studying protein-reconstituted proteoliposome fusion with content indicators in vitro.

    Diao J, Zhao M, Zhang Y, Kyoung M, Brunger AT.
    Bioessays. (2013). 35(7):658-65.

35. Structure-based discovery of fiber-binding compounds that reduce the cytotoxicity of amyloid beta.

    Jiang L, Liu C, Leibly D, Landau M, Zhao M, Hughes MP, Eisenberg DS.
    Elife. (2013). 2:e00857.

36. Amyloid beta-sheet mimics that antagonize protein aggregation and reduce amyloid toxicity.

    Cheng PN, Liu C, Zhao M, Eisenberg D, Nowick JS.
    Nat Chem. (2012). 4(11):927-33.

37. Direct visualization of the interaction between pilin and exopolysaccharides of Myxococcus xanthus with eGFP-fused PilA protein.

    Hu W, Yang Z, Lux R, Zhao M, Wang J, He X, Shi W.
    FEMS Microbiol Lett. (2012). 326(1):23-30.

38. Atomic view of a toxic amyloid small oligomer.

    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.
    Science. (2012). 335(6073):1228-31.

39. Out-of-register beta-sheets suggest a pathway to toxic amyloid aggregates.

    Liu C*, Zhao M*, Jiang L*, Cheng PN, Park J, Sawaya MR, Pensalfini A, Gou D, Berk AJ, Glabe CG, Nowick J, Eisenberg D.
    Proc Natl Acad Sci U S A. (2012). 109(51):20913-8.

40. Molecular basis for amyloid-beta polymorphism.

    Colletier JP*, Laganowsky A*, Landau M*, Zhao M*, Soriaga AB*, Goldschmidt L, Flot D, Cascio D, Sawaya MR, Eisenberg D.
    Proc Natl Acad Sci U S A. (2011). 108(41):16938-43.

41. An approach to crystallizing proteins by metal-mediated synthetic symmetrization.

    Laganowsky A*, Zhao M*, Soriaga AB*, Sawaya MR, Cascio D, Yeates TO.
    Protein Sci. (2011). 20(11):1876-90.

42. Structures of segments of alpha-synuclein fused to maltose-binding protein suggest intermediate states during amyloid formation.

    Zhao M, Cascio D, Sawaya MR, Eisenberg D.
    Protein Sci. (2011). 20(6):996-1004.

43. High-resolution functional profiling of a gammaherpesvirus RTA locus in the context of the viral genome.

    Arumugaswami V, Sitapara R, Hwang S, Song MJ, Ho TN, Su NQ, Sue EY, Kanagavel V, Xing F, Zhang X, Zhao M, Deng H, Wu TT, Kanagavel S, Zhang L, Dandekar S, Papp J, Sun R.
    J Virol. (2009). 83(4):1811-22.

44. The activation of lytic replication of Epstein-Barr virus by baculovirus-mediated gene transduction.

    Wang L, Shan L, Yin J, Zhao M, Su D, Zhong J.
    Arch Virol. (2006). 151(10):2047-53.

* equal contribution
^† co-correspondence