Publications

  1. Shao, Y. and Li, H. (2013) Recognition and Cleavage of Non-structured CRISPR RNA by Cas6. Structure. 21(3):385-393. [doi:10.1016/j.str.2013.01.010][PMID: 23454186]
  2. Shao, Y. Cocozaki AI, Ramia NF, Terns RM, Terns MP, Li H. (2013) Structure of the Cmr2-Cmr3 subcomplex of the CRISPR-CAS RNA silencing complex. Structure. 21(3):376-384. [doi:10.1016/j.str.2013.01.002][PMID: 23395183]
  3. Cocozaki AI, Ramia NF, Shao Y, Hale CR, Terns RM, Terns MP, Li H. (2012) Structure of the Cmr2 Subunit of the CRISPR-Cas RNA Silencing Complex. Structure 20(3):545-553. [doi:10.1016/j.str.2012.01.018][PMID: 22405013]
  4. Wang R, Zheng H, Preamplume G, Shao Y, Li H. (2012) The Impact of CRISPR Repeat Sequence on Structures of a Cas6 Protein-RNA Complex. Protein Sci. 21(3):405-417. [doi:10.1002/pro.2028][PMID: 22238224]
  5. Wang, R. and Li, H. (review) (2012) The mysterious RAMP proteins and their roles in small RNA-based immunity Protein Sci. 21(4):463-470. [doi:10.1002/pro.2044][PMID: 22323284]
  6. Wang, R., Preamplume, G., Terns, M. P., Terns, R. M. & Li, H. (2011) Interaction of the Cas6 riboendonuclease with CRISPR RNAs: recognition and cleavage. Structure 19(2):257 [doi:10.1016/j.str.2010.11.014][PMID: 21300293]
  7. Zhou J, Liang B, Li H. (2011) Structural and Functional Evidence of High Specificity of Cbf5 for ACA Trinucleotide. RNA 17(2):244-250. [doi:10.1261/rna.2415811][PMID: 21149572]
  8. Xue S, Wang R, Yang F, Terns RM, Terns MP, Zhang X, Maxwell ES, Li H. (2010) Structural basis for substrate placement by an archaeal box C/D ribonucleoprotein particle. Molecular Cell 39(6):939-49. [doi:10.1016/j.molcel.2010.08.022][PMID: 20864039]
  9. Liang, B., & Li, H. (review) Structural basis of RNA modification. (2010) Quarterly Reviews of Biophysics 1-28.
  10. Zhou J, Liang B, Li H. (2010) Functional and structural impact of target uridine substitutions on the H/ACA ribonucleoprotein particle pseudouridine synthase. Biochemistry 49(29):6276-81. [doi:10.1021/bi1006699][PMID: 20575532]
  11. Zhou J, Lv C, Liang B, Chen M, Yang W, Li H. (2010) Glycosidic bond conformation preference plays a pivotal role in catalysis of RNA pseudouridylation: a combined simulation and structural study. Journal of Molecular Biology 401(5):690-5. [doi:10.1016/j.jmb.2010.06.061][PMID: 20615421]
  12. Mitchell, M., Xue, S., Erdman, R., Randau, L., Söll, D., and Li, H. (2009) Crystal structure and assembly of the functional Nanoarchaeum equitans tRNA splicing endonuclease. Nucleic Acids Research 37(17):5793-5802. [doi:10.1093/nar/gkp537][PMID: 19578064]
  13. Liang, B., Zhou, J., Kahen, E., Terns, R.M., Terns, M. P., & Li, H. (2009) Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA. Nature Structural & Molecular Biology 16(7):740-746. [doi:10.1038/nsmb.1624][PMID: 19478803]
  14. Carte, J., Wang, R., Li, H., Terns, R. M. & Terns, M. P. (2008) Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes. Genes & Development 22:3489-3496. [doi:10.1101/gad.1742908][PMID: 19141480]
  15. Calvin, K., Xue, S., Ellis, C., Mitchell, M., and Li, H. (2008) Probing the catalytic triad of an archaeal RNA splicing endonuclease. Biochemistry 47(51):13659-13665. [doi:10.1021/bi801141q][PMID: 19053288]
  16. Liang, B., Kahen, E.J., Calvin, K., Zhou, J., Blanco, M., and Li, H. (2008) Long distance placement of substrate RNA by H/ACA proteins. RNA 14(10):2086-2094. [doi:10.1261/rna.1109808][PMID: 18755842]
  17. Baker, D., Seyfreid, N., Li, H., Orlando, R., Terns, R.M., Terns. M.P. (2008) Determination of protein-RNA interaction sites in the CBF5-H/ACA guide RNA complex by mass spectrometric protein footprinting. Biochemistry 47(6):1500-1510. [doi:10.1021/bi701606m][PMID: 18205399]
  18. Mitchell, M. H., and Li, H. (2008) Chapter 28 “Molecular Basis of tRNA Processing Reactions” in DNA and RNA Modification Enzymes, Comparative Structure, Mechanism, Functions, Cellular Interactions and Evolution. Edited by Henri Grosjean.
  19. Li, H. (2008) Chapter 7 “RNA-protein interactions” in Protein-Nucleic Acid Interactions: Structural Biology published by Royal Society of Chemistry, Edited by Phoebe Rice and Carl Correll.
  20. Li, H. (review) Unveiling substrate RNA binding to H/ACA RNPs: one side fits all (2008) Current Opinion in Structural Biology 18(1):78-85. [doi:10.1016/j.sbi.2007.11.004][PMID: 18178425]
  21. Calvin, K. and Li, H. (review) RNA splicing endonucleases (2008) Cellular and Molecular Life Sciences 65(7-8):1176-85. [doi:10.1007/s00018-008-7393-y][PMID: 18217203]
  22. Li, H. (review) tRNA and complexes (2007) Current Opinion in Structural Biology 17(3):293-301. [doi:10.1016/j.sbi.2007.05.002][PMID: 17580114]
  23. Liang, B., Xue, S., Terns, M.P., Terns, R.M., Li, H. (2007) Substrate RNA Positioning in the Archaeal H/ACA Ribonucleoprotein Complex. Nature Structure & Molecular Biology 14, 1189 – 1195. [doi:10.1038/nsmb1336][PMID: 18059286]
  24. Oruganti, S., Zhang, Y., Terns, R. P., Terns, M. P., Li, H., Yang, W., and Li, H. (2007) Alternative conformations of the archaeal Nop56/58-fibrillarin complex imply flexibility in box C/D RNPs. Journal of Molecular Biology 371(5):1141-1150. [doi:10.1016/j.jmb.2007.06.029][PMID: 17617422]
  25. Min, D., Xue, S., and Li, H. Yang, W. (2007) ‘In-line attack’ conformational effect plays a modest role in an enzyme-catalyzed RNA cleavage: a free energy simulation study. Nucleic Acids Research 35(12):4001-4006. [doi:10.1093/nar/gkm394][PMID: 17553832]
  26. Phipps, KR., and Li, H. (2007) Protein-RNA contacts at crystal packing surfaces. Proteins: Structure, Function, and Bioinformatics 67(1):121-127. [doi:10.1002/prot.21230][PMID: 17211891]
  27. Calvin, K. and Li, H. (2007) Achieving specific RNA cleavage activity by an inactive splicing endonuclease subunit through engineered oligomerization. Journal of Molecular Biology 366(2):642-649. [doi:10.1016/j.jmb.2006.11.054][PMID: 17174977]
  28. Xue, S. Calvin, K. and Li, H. (2006) RNA recognition and cleavage by a splicing endonuclease. Science 312(5775): 906-910. [doi:10.1126/science.1126629][Science (link)][PMID: 16690865]
  29. Trotta, C.R., Paushkin, S.V., Patel, M., Li., H. and Peltz, S.W. (2006) Cleavage of pre-tRNAs by the splicing endonuclease requires a composite active site. Nature 441(7091): 375-377. [doi:10.1038/nature04741][Nature (link)][PMID: 16710424]
  30. Rashid, R., Liang, B., Baker, D.L., Youssef, O.A., He, Y., Phipps, K., Terns, R. M., Terns, M., and Li, H. (2006) Crystal Structure of a Cbf5-Nop10-Gar1 complex and implications in RNA-guided pseudouridylation and dykeratosis congenita. Molecular Cell 21(2):249-260. [doi:10.1016/j.molcel.2005.11.017][PMID: 16427014]
  31. Randau, L., Calvin, K., Hall, M., Yuan, J., Podar, M., Li, H., and Soll, D. (2005) The heteromeric Nanoarchaeum equitans splicing endonuclease cleaves noncanonical bulge-helix-bulge motifs of joined tRNA halves. Proceedings of the National Academy of Sciences U S A 102(50):17934-17939. [doi:10.1073/pnas.0509197102][Proc. Natl. Acad. Sci. U.S.A. (link)][PMID: 16330750]
  32. Calvin, K. Hall, M. Xu, F. and Xue, S., and Li, H. (2005) Structural characterization of the catalytic subunit of a novel RNA splicing endonuclease. Journal of Molecular Biology 353(5):952-960. [doi:10.1016/j.jmb.2005.09.035][PMID: 16219321]
  33. Oruganti, S., Zhang, Y., and Li, H. (2005) Structural Comparison of Yeast snoRNP and Spliceosomal Protein Snu13p with Its Homologs. Biochemical and Biophysical Research Communication 333 (2): 550-554. [doi:10.1016/j.bbrc.2005.05.141][PMID: 15963469]
  34. Aittaleb, M., Visone, T., Fenley, M. O., and Li, H. (2004) Structural and Thermodynamic Evidence for a Stabilizing Role of Nop5p in S-adenosyl-L-methionine Binding to Fibrillarin. Journal of Biological Chemistry 279 (40): 41822-41829. [doi:10.1074/jbc.M406209200][PMID: 15286083]
  35. Zhang, Y. and Li, H. (2004) Structure Determination of a Truncated Dimeric RNA Splicing Endonuclease in Pseudo-centered Space Group P21212. Acta Crystallographica Section D: Biological Crystallography D60, 447-452. [doi:10.1107/S0907444903029482][PMID: 14993668]
  36. Moore, T., Zhang, Y., Fenley, M. O., and Li, H. (2004) Molecular Basis of Box C/D RNA-protein Interactions: Co-crystal Structure of the Archaeal sRNP Initiation Complex Structure 12(5): 807-18. [doi:10.1016/j.str.2004.02.033][PMID: 15130473]
  37. Aittaleb, M., Rashid, R., Chen, Q., Palmer, J. R., Daniels, C. J., and Li, H. (2003) Structure and function of archaeal box C/D sRNP core proteins Nature Structure Biology 10, 256-63. [PMID: 12598892]
  38. Rashid, R., Aittaleb, M., Chen, Q., Spiegel, K., Demeler, B., and Li, H. (2003) Functional requirement for symmetric assembly of archaeal box C/D small ribonucleoprotein particles Journal of Molecular Biology 333, 295-306. [J. Mol. Biol. (link)][PMID: 14529617]
  39. Lima, S., Hildenbrand, J., Korostelev, A., Hattman, S., and Li, H. (2002) Crystal structure of an RNA helix recognized by a zinc-finger protein: an 18-bp duplex at 1.6 Å resolution RNA 8, 924-32. [RNA (link)][PMID: 12166647]
  40. Story, R. M., Li, H., and Abelson, J. N. (2001) Crystal structure of a DEAD box protein from the hyperthermophile Methanococcus jannaschii Proceedings of the National Academy of Sciences U S A 98, 1465-70. [Proc. Natl. Acad. Sci. U.S.A. (link)][PMID: 11171974]
  41. Li, H., and Abelson, J. (2000) Crystal structure of a dimeric archaeal splicing endonuclease Journal of Molecular Biology 302, 639-48. [doi:10.1006/jmbi.2000.3941][PMID: 10986124]
  42. Abelson, J., Trotta, C. R., and Li, H. (1998) tRNA splicing (minireview) Journal of Biological Chemistry 273, 12685-12688. [J. Biol. Chem. (link)][PMID: 9582290]
  43. Li, H., Trotta, C. R., and Abelson, J. (1998) Crystal structure and evolution of a transfer RNA splicing enzyme Science 280, 279-284. [Science (link)][PMID: 9535656]
  44. Li, H., Dunn, J. J., Luft, B. J., and Lawson, C. L. (1997) Crystal structure of Lyme disease antigen outer surface protein A complexed with an Fab Proceedings of the National Academy of Sciences U S A 94, 3584-3589. [Proc. Natl. Acad. Sci. U.S.A. (link)][PMID: 9108020]
  45. Li, H., and Lawson, C. L. (1995) Crystallization and preliminary X-ray analysis of Borrelia burgdorferi outer surface protein A (OspA) complexed with a murine monoclonal antibody Fab fragment Journal of Structural Biology 115, 335-337. [doi:10.1006/jsbi.1995.1058][PMID: 8573475]
  46. Li, H., Hallows, W. H., Punzi, J. S., Pankiewicz, K. W., Watanabe, K. A., and Goldstein, B. M. (1994) Crystallographic studies of isosteric NAD analogues bound to alcohol dehydrogenase: specificity and substrate binding in two ternary complexes Biochemistry 33, 11734-11744. [PMID: 7918390]
  47. Goldstein BM, Li H, Jones JP, Bell JE, Zeidler J, Pankiewicz KW, Watanabe KA. (1994) CNAD: a potent and specific inhibitor of alcohol dehydrogenase. Journal of Medicinal Chemistry 37, 392-399. [PMID: 8308865]
  48. Goldstein, B. M., Li, H., Hallows, W. H., Langs, D. A., Franchetti, P., Cappellacci, L., and Grifantini, M. (1994) C-glycosyl bond conformation in oxazofurin: crystallographic and computational studies of the oxazole analogue of tiazofurin Journal of Medicinal Chemistry 37, 1684-1688. [PMID: 8201602]
  49. Li, H., Hallows, W. H., Punzi, J. S., Marquez, V. E., Carrell, H. L., Pankiewicz, K. W., Watanabe, K. A., and Goldstein, B. M. (1994) Crystallographic studies of two alcohol dehydrogenase-bound analogues of thiazole-4-carboxamide adenine dinucleotide (TAD), the active anabolite of the antitumor agent tiazofurin Biochemistry 33, 23-32. [PMID: 8286346]
  50. Li, H., Kennedy, S. D., and Goldstein, B. M. (1993) Solid-state and solution conformations of isotiazofurin: crystallographic, computational and 1H NMR studies Acta Crystallogrography B49, 729-738. [PMID: 8397981]
  51. Li, H., and Goldstein, B. M. (1992) Carboxamide group conformation in the nicotinamide and thiazole-4-carboxamide rings: implications for enzyme binding Journal of Medicinal Chemistry 35, 3560-3567. [PMID: 1357174]