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Darrell R. Davis - Publications

Affiliations: 
University of Utah, Salt Lake City, UT 
Area:
Biochemistry
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40 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Galindo-Murillo R, Davis DR, Cheatham TE. Probing the influence of hypermodified residues within the tRNA3(Lys) anticodon stem loop interacting with the A-loop primer sequence from HIV-1. Biochimica Et Biophysica Acta. 1860: 607-17. PMID 26655694 DOI: 10.1016/J.Bbagen.2015.11.009  0.49
2014 Henriksen NM, Hayatshahi HS, Davis DR, Cheatham TE. Structural and energetic analysis of 2-aminobenzimidazole inhibitors in complex with the hepatitis C virus IRES RNA using molecular dynamics simulations. Journal of Chemical Information and Modeling. 54: 1758-72. PMID 24835734 DOI: 10.1021/Ci500132C  0.459
2012 Henriksen NM, Davis DR, Cheatham TE. Molecular dynamics re-refinement of two different small RNA loop structures using the original NMR data suggest a common structure. Journal of Biomolecular Nmr. 53: 321-39. PMID 22714631 DOI: 10.1007/S10858-012-9642-5  0.411
2011 Davis DR, Seth PP. Therapeutic targeting of HCV internal ribosomal entry site RNA. Antiviral Chemistry & Chemotherapy. 21: 117-28. PMID 21233533 DOI: 10.3851/Imp1693  0.495
2011 Liu S, Nelson CA, Xiao L, Lu L, Seth PP, Davis DR, Hagedorn CH. Measuring antiviral activity of benzimidazole molecules that alter IRES RNA structure with an infectious hepatitis C virus chimera expressing Renilla luciferase. Antiviral Research. 89: 54-63. PMID 21075143 DOI: 10.1016/J.Antiviral.2010.11.004  0.371
2010 Paulsen RB, Seth PP, Swayze EE, Griffey RH, Skalicky JJ, Cheatham TE, Davis DR. Inhibitor-induced structural change in the HCV IRES domain IIa RNA. Proceedings of the National Academy of Sciences of the United States of America. 107: 7263-8. PMID 20360559 DOI: 10.1073/Pnas.0911896107  0.698
2008 Walewska A, Skalicky JJ, Davis DR, Zhang MM, Lopez-Vera E, Watkins M, Han TS, Yoshikami D, Olivera BM, Bulaj G. NMR-based mapping of disulfide bridges in cysteine-rich peptides: application to the mu-conotoxin SxIIIA. Journal of the American Chemical Society. 130: 14280-6. PMID 18831583 DOI: 10.1021/Ja804303P  0.313
2007 Klaiman D, Amitsur M, Blanga-Kanfi S, Chai M, Davis DR, Kaufmann G. Parallel dimerization of a PrrC-anticodon nuclease region implicated in tRNALys recognition. Nucleic Acids Research. 35: 4704-14. PMID 17604307 DOI: 10.1093/Nar/Gkm494  0.397
2005 Durant PC, Bajji AC, Sundaram M, Kumar RK, Davis DR. Structural effects of hypermodified nucleosides in the Escherichia coli and human tRNALys anticodon loop: the effect of nucleosides s2U, mcm5U, mcm5s2U, mnm5s2U, t6A, and ms2t6A. Biochemistry. 44: 8078-89. PMID 15924427 DOI: 10.1021/Bi050343F  0.63
2005 Davis DR, Bajji AC. Introduction of hypermodified nucleotides in RNA. Methods in Molecular Biology (Clifton, N.J.). 288: 187-204. PMID 15333904 DOI: 10.1385/1-59259-823-4:187  0.522
2004 Alam SL, Sun J, Payne M, Welch BD, Blake BK, Davis DR, Meyer HH, Emr SD, Sundquist WI. Ubiquitin interactions of NZF zinc fingers. The Embo Journal. 23: 1411-21. PMID 15029239 DOI: 10.1038/Sj.Emboj.7600114  0.357
2003 Wang B, Alam SL, Meyer HH, Payne M, Stemmler TL, Davis DR, Sundquist WI. Structure and ubiquitin interactions of the conserved zinc finger domain of Npl4. The Journal of Biological Chemistry. 278: 20225-34. PMID 12644454 DOI: 10.1074/Jbc.M300459200  0.379
2002 Bajji AC, Sundaram M, Myszka DG, Davis DR. An RNA complex of the HIV-1 A-loop and tRNA(Lys,3) is stabilized by nucleoside modifications. Journal of the American Chemical Society. 124: 14302-3. PMID 12452693 DOI: 10.1021/Ja028015F  0.682
2002 Pornillos O, Alam SL, Davis DR, Sundquist WI. Structure of the Tsg101 UEV domain in complex with the PTAP motif of the HIV-1 p6 protein. Nature Structural Biology. 9: 812-7. PMID 12379843 DOI: 10.1038/Nsb856  0.381
2002 Bajji AC, Davis DR. Synthesis of the tRNA(Lys,3) anticodon stem-loop domain containing the hypermodified ms2t6A nucleoside. The Journal of Organic Chemistry. 67: 5352-8. PMID 12126427 DOI: 10.1021/Jo025826T  0.55
2002 Pornillos O, Alam SL, Rich RL, Myszka DG, Davis DR, Sundquist WI. Structure and functional interactions of the Tsg101 UEV domain. The Embo Journal. 21: 2397-406. PMID 12006492 DOI: 10.1093/Emboj/21.10.2397  0.406
2002 Jiang Y, Blanga S, Amitsur M, Meidler R, Krivosheyev E, Sundaram M, Bajji AC, Davis DR, Kaufmann G. Structural features of tRNALys favored by anticodon nuclease as inferred from reactivities of anticodon stem and loop substrate analogs. The Journal of Biological Chemistry. 277: 3836-41. PMID 11723135 DOI: 10.1074/Jbc.M110072200  0.68
2001 Grahn E, Moss T, Helgstrand C, Fridborg K, Sundaram M, Tars K, Lago H, Stonehouse NJ, Davis DR, Stockley PG, Liljas L. Structural basis of pyrimidine specificity in the MS2 RNA hairpin-coat-protein complex. Rna (New York, N.Y.). 7: 1616-27. PMID 11720290 DOI: 10.2210/Pdb2C4Q/Pdb  0.65
2001 Hou YM, Zhang X, Holland JA, Davis DR. An important 2'-OH group for an RNA-protein interaction. Nucleic Acids Research. 29: 976-85. PMID 11160931 DOI: 10.1093/Nar/29.4.976  0.455
2001 Bajji AC, Davis DR. Synthesis and biophysical characterization of tRNA(Lys,3) anticodon stem-loop RNAs containing the mcm(5)s(2)U nucleoside. Organic Letters. 2: 3865-8. PMID 11101439 DOI: 10.1021/Ol006605H  0.518
2000 Sundaram M, Durant PC, Davis DR. Hypermodified nucleosides in the anticodon of tRNA(Lys) stabilize a canonical U-turn structure Biochemistry. 39: 15652. PMID 11112554  0.607
2000 Sundaram M, Durant PC, Davis DR. Hypermodified nucleosides in the anticodon of tRNALys stabilize a canonical U-turn structure. Biochemistry. 39: 12575-84. PMID 11027137 DOI: 10.1021/Bi0014655  0.674
2000 Sundaram M, Crain PF, Davis DR. Synthesis and characterization of the native anticodon domain of E. coli TRNA(Lys): simultaneous incorporation of modified nucleosides mnm(5)s(2)U, t(6)A, and pseudouridine using phosphoramidite chemistry. The Journal of Organic Chemistry. 65: 5609-14. PMID 10970299 DOI: 10.1021/Jo000338B  0.679
2000 Hou YM, Sundaram M, Zhang X, Holland JA, Davis DR. Recognition of functional groups in an RNA helix by a class I tRNA synthetase. Rna (New York, N.Y.). 6: 922-7. PMID 10917589 DOI: 10.1017/S1355838200000455  0.634
2000 Nair TM, Myszka DG, Davis DR. Surface plasmon resonance kinetic studies of the HIV TAR RNA kissing hairpin complex and its stabilization by 2-thiouridine modification. Nucleic Acids Research. 28: 1935-40. PMID 10756194 DOI: 10.1093/Nar/28.9.1935  0.451
1999 Davis DR, Durant PC. Nucleoside modifications affect the structure and stability of the anticodon of tRNA(Lys,3). Nucleosides & Nucleotides. 18: 1579-81. PMID 10474235 DOI: 10.1080/07328319908044790  0.525
1999 Durant PC, Davis DR. Stabilization of the anticodon stem-loop of tRNALys,3 by an A+-C base-pair and by pseudouridine. Journal of Molecular Biology. 285: 115-31. PMID 9878393 DOI: 10.1006/Jmbi.1998.2297  0.492
1998 Davis DR, Veltri CA, Nielsen L. An RNA model system for investigation of pseudouridine stabilization of the codon-anticodon interaction in tRNALys, tRNAHis and tRNATyr. Journal of Biomolecular Structure & Dynamics. 15: 1121-32. PMID 9669557 DOI: 10.1080/07391102.1998.10509006  0.515
1998 von Schwedler UK, Stemmler TL, Klishko VY, Li S, Albertine KH, Davis DR, Sundquist WI. Proteolytic refolding of the HIV-1 capsid protein amino-terminus facilitates viral core assembly. The Embo Journal. 17: 1555-68. PMID 9501077 DOI: 10.1093/Emboj/17.6.1555  0.313
1998 Mitchell SS, Shon KJ, Foster MP, Davis DR, Olivera BM, Ireland CM. Three-dimensional solution structure of conotoxin psi-PIIIE, an acetylcholine gated ion channel antagonist. Biochemistry. 37: 1215-20. PMID 9477946 DOI: 10.1021/Bi972186T  0.345
1997 Kumar RK, Davis DR. Synthesis and studies on the effect of 2-thiouridine and 4-thiouridine on sugar conformation and RNA duplex stability. Nucleic Acids Research. 25: 1272-80. PMID 9092639 DOI: 10.1093/Nar/25.6.1272  0.47
1997 Davis DR, Stillman DJ. Altered structure of the DNA duplex recognized by yeast transcription factor Reb1p Nucleic Acids Research. 25: 668-674. PMID 9016611 DOI: 10.1093/Nar/25.3.668  0.378
1997 Kumar RK, Davis DR. Structural Studies of 2-Thiouridine in RNA Nucleosides and Nucleotides. 16: 1469-1472. DOI: 10.1080/07328319708006208  0.505
1996 Dalluge JJ, Hashizume T, Sopchik AE, McCloskey JA, Davis DR. Conformational flexibility in RNA: the role of dihydrouridine. Nucleic Acids Research. 24: 1073-9. PMID 8604341 DOI: 10.1093/Nar/24.6.1073  0.412
1995 Davis DR. Stabilization of RNA stacking by pseudouridine Nucleic Acids Research. 23: 5020-5026. PMID 8559660 DOI: 10.1093/Nar/23.24.5020  0.461
1995 Mohan V, Griffey RH, Davis DR. Structure and dynamics of MMI linked nucleotides Tetrahedron. 51: 6855-6868. DOI: 10.1016/0040-4020(95)00333-4  0.333
1994 Kosa JL, Michelsen JW, Louis HA, Olsen JI, Davis DR, Beckerle MC, Winge DR. Common metal ion coordination in LIM domain proteins. Biochemistry. 33: 468-77. PMID 8286377 DOI: 10.1021/Bi00168A011  0.354
1991 Davis DR, Poulter CD. 1H-15N NMR studies of Escherichia coli tRNA(Phe) from hisT mutants: a structural role for pseudouridine. Biochemistry. 30: 4223-31. PMID 2021615 DOI: 10.1021/Bi00231A017  0.387
1991 Davis DR. Application of the 2D TOCSY-NOESY experiment to DNA assignment Journal of Magnetic Resonance (1969). 94: 401-404. DOI: 10.1016/0022-2364(91)90118-D  0.322
1989 Davis DR, Yamaizumi Z, Nishimura S, Poulter CD. 15N-labeled 5S RNA. Identification of uridine base pairs in Escherichia coli 5S RNA by 1H-15N multiple quantum NMR Biochemistry. 28: 4105-4108. PMID 2752012 DOI: 10.1021/Bi00435A072  0.356
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