Stephen Harvey, Professor and Georgia Research Alliance Eminent Scholar in Structural Biology
Ph.D., Biophysics, Dartmouth College, 1971
Phone: 404-385-4498
Fax: (404) 894-0519
Office: (Cherry Emerson) 315
Lab: (Cherry Emerson) 324
Publications
Petrov AS, Locker CR, Harvey SC. Characterization of DNA conformation inside bacterial viruses. Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Aug;80(2 Pt 1):021914. Epub 2009 Aug 14.
Harvey SC, Barker GL, Shorto A, Viney ME. Natural variation in gene expression in the early development of dauer larvae of Caenorhabditis elegans. BMC Genomics. 2009 Jul 18;10:325.
Devkota B, Petrov AS, Lemieux S, Boz MB, Tang L, Schneemann A, Johnson JE, Harvey SC. Structural and electrostatic characterization of pariacoto virus: implications for viral assembly. Biopolymers. 2009 Jul;91(7):530-8.
Harvey SC. Non-dauer larval dispersal in Caenorhabditis elegans. J Exp Zool B Mol Dev Evol. 2009 May 15;312B(3):224-30.
Campos-Ramos R, Harvey SC, Penman DJ. Sex-specific differences in the synaptonemal complex in the genus Oreochromis (Cichlidae). Genetica. 2009 Apr;135(3):325-32. Epub 2008 Jun 8.
Hogan KA, Harvey SC, Conway WF, DeRosimo JF, Gross RH. Superior vena cava compression during posterior spinal fusion for idiopathic scoliosis. A case report. J Bone Joint Surg Am. 2009 Mar 1;91(3):696-700. No abstract available.
Sarkar T, Petrov AS, Vitko JR, Santai CT, Harvey SC, Mukerji I, Hud NV. Integration host factor (IHF) dictates the structure of polyamine-DNA condensates: implications for the role of IHF in the compaction of bacterial chromatin. Biochemistry. 2009 Feb 3;48(4):667-75.
Tan RK, Devkota B, Harvey SC. YUP.SCX: coaxing atomic models into medium resolution electron density maps. J Struct Biol. 2008 Aug;163(2):163-74. Epub 2008 May 16.
Petrov AS, Harvey SC. Packaging double-helical DNA into viral capsids: structures, forces, and energetics. Biophys J. 2008 Jul;95(2):497-502. Epub 2008 May 16. Review.PMID: 18487310
Rollins GC, Petrov AS, Harvey SC. The role of DNA twist in the packaging of viral genomes. Biophys J. 2008 Mar 1;94(5):L38-40. Epub 2008 Jan 11.
Harvey SC, Shorto A, Viney ME. Quantitative genetic analysis of life-history traits of Caenorhabditis elegans in stressful environments. BMC Evol Biol. 2008 Jan 22;8:15. Erratum in: BMC Evol Biol. 2009;9:96.
Petrov AS, Boz MB, Harvey SC. The conformation of double-stranded DNA inside bacteriophages depends on capsid size and shape. J Struct Biol. 2007 Nov;160(2):241-8. Epub 2007 Aug 29.
Locker CR, Fuller SD, Harvey SC. DNA organization and thermodynamics during viral packing. Biophys J. 2007 Oct 15;93(8):2861-9. Epub 2007 Jun 15.
Harvey SC, Viney ME. Thermal variation reveals natural variation between isolates of Caenorhabditis elegans. J Exp Zool B Mol Dev Evol. 2007 Jul 15;308(4):409-16.
Petrov AS, Lim-Hing K, Harvey SC. Packaging of DNA by bacteriophage epsilon15: structure, forces, and thermodynamics. Structure. 2007 Jul;15(7):807-12.
Petrov AS, Harvey SC. Structural and thermodynamic principles of viral packaging. Structure. 2007 Jan;15(1):21-7.
Datta B, Schuster GB, McCook A, Harvey SC, Zakrzewska K. DNA-directed assembly of polyanilines: modified cytosine nucleotides transfer sequence programmability to a conjoined polymer. J Am Chem Soc. 2006 Nov 15;128(45):14428-9.
Catte A, Patterson JC, Jones MK, Jerome WG, Bashtovyy D, Su Z, Gu F, Chen J, Aliste MP, Harvey SC, Li L, Weinstein G, Segrest JP. Novel changes in discoidal high density lipoprotein morphology: a molecular dynamics study. Biophys J. 2006 Jun 15;90(12):4345-60. Epub 2006 Mar 31.
Mears JA, Sharma MR, Gutell RR, McCook AS, Richardson PE, Caulfield TR, Agrawal RK, Harvey SC. A structural model for the large subunit of the mammalian mitochondrial ribosome. J Mol Biol. 2006 Apr 21;358(1):193-212. Epub 2006 Feb 10.
Stagg SM, Harvey SC. Exploring the flexibility of ribosome recycling factor using molecular dynamics. Biophys J. 2005 Oct;89(4):2659-66. Epub 2005 Jul 29.
Richardson PE, Manchekar M, Dashti N, Jones MK, Beigneux A, Young SG, Harvey SC, Segrest JP. Assembly of lipoprotein particles containing apolipoprotein-B: structural model for the nascent lipoprotein particle. Biophys J. 2005 Apr;88(4):2789-800. Epub 2005 Jan 14.
Li L, Chen J, Mishra VK, Kurtz JA, Cao D, Klon AE, Harvey SC, Anantharamaiah GM, Segrest JP. Double belt structure of discoidal high density lipoproteins: molecular basis for size heterogeneity. J Mol Biol. 2004 Nov 5;343(5):1293-311.
LaMarque JC, Le TV, Harvey SC. Packaging double-helical DNA into viral capsids. Biopolymers. 2004 Feb 15;73(3):348-55.
Dupuy LC, Kelly NJ, Elgavish TE, Harvey SC, Morrow CD. Probing the importance of tRNA anticodon: human immunodeficiency virus type 1 (HIV-1) RNA genome complementarity with an HIV-1 that selects tRNA(Glu) for replication. J Virol. 2003 Aug;77(16):8756-64.
Stagg SM, Mears JA, Harvey SC. A structural model for the assembly of the 30S subunit of the ribosome. J Mol Biol. 2003 Apr 18;328(1):49-61.
Sheldahl C, Xing J, Dong WJ, Harvey SC, Cheung HC. The calcium-saturated cTnI/cTnC complex: structure of the inhibitory region of cTnI. Biophys J. 2003 Feb;84(2 Pt 1):1057-64.
Harvey SC, Wang C, Teletchea S, Lavery R. Motifs in nucleic acids: molecular mechanics restraints for base pairing and base stacking. J Comput Chem. 2003 Jan 15;24(1):1-9.
Klon AE, Segrest JP, Harvey SC. Comparative models for human apolipoprotein A-I bound to lipid in discoidal high-density lipoprotein particles. Biochemistry. 2002 Sep 10;41(36):10895-905.
Mears JA, Cannone JJ, Stagg SM, Gutell RR, Agrawal RK, Harvey SC. Modeling a minimal ribosome based on comparative sequence analysis. J Mol Biol. 2002 Aug 9;321(2):215-34.
Elgavish T, Cannone JJ, Lee JC, Harvey SC, Gutell RR. AA.AG@helix.ends: A:A and A:G base-pairs at the ends of 16 S and 23 S rRNA helices. J Mol Biol. 2001 Jul 20;310(4):735-53.
Stagg SM, Frazer-Abel AA, Hagerman PJ, Harvey SC. Structural studies of the tRNA domain of tmRNA. J Mol Biol. 2001 Jun 8;309(3):727-35.
Segrest JP, Harvey SC, Zannis V. Detailed molecular model of apolipoprotein A-I on the surface of high-density lipoproteins and its functional implications. Trends Cardiovasc Med. 2000 Aug;10(6):246-52.
VanLoock MS, Agrawal RK, Gabashvili IS, Qi L, Frank J, Harvey SC. Movement of the decoding region of the 16 S ribosomal RNA accompanies tRNA translocation. J Mol Biol. 2000 Dec 8;304(4):507-15.
Klon AE, Jones MK, Segrest JP, Harvey SC. Molecular belt models for the apolipoprotein A-I Paris and Milano mutations. Biophys J. 2000 Sep;79(3):1679-85.
Segrest JP, Li L, Anantharamaiah GM, Harvey SC, Liadaki KN, Zannis V. Structure and function of apolipoprotein A-I and high-density lipoprotein. Curr Opin Lipidol. 2000 Apr;11(2):105-15.
Segrest JP, Jones MK, Klon AE, Sheldahl CJ, Hellinger M, De Loof H, Harvey SC. A detailed molecular belt model for apolipoprotein A-I in discoidal high density lipoprotein. J Biol Chem. 1999 Nov 5;274(45):31755-8.
VanLoock MS, Harris BA, Harvey SC. To knot or not to knot? Examination of 16S ribosomal RNA models. J Biomol Struct Dyn. 1998 Dec;16(3):709-13.
Sheldahl C, Harvey SC. Molecular dynamics on a model for nascent high-density lipoprotein: role of salt bridges. Biophys J. 1999 Mar;76(3):1190-8.
VanLoock MS, Easterwood TR, Harvey SC. Major groove binding of the tRNA/mRNA complex to the 16 S ribosomal RNA decoding site. J Mol Biol. 1999 Feb 5;285(5):2069-78.
Elgavish T, VanLoock MS, Harvey SC. Exploring three-dimensional structures of the HIV-1 RNA/tRNALys3 initiation complex. J Mol Biol. 1999 Jan 15;285(2):449-53.
Easterwood TR, Harvey SC. Ribonuclease P RNA: models of the 15/16 bulge from Escherichia coli and the P15 stem loop of Bacillus subtilis. RNA. 1997 Jun;3(6):577-85.
Harvey SC. Slipped structures in DNA triplet repeat sequences: entropic contributions to genetic instabilities. Biochemistry. 1997 Mar 18;36(11):3047-9.
VanLoock MS, Easterwood TR, Harvey SC. tRNA/mRNA/rRNA interactions in the Escherichia coli ribosomal decoding site with and without bound aminoglycoside. Nucleic Acids Symp Ser. 1997;(36):68.
Tan RK, Sprous D, Harvey SC. Molecular dynamics simulations of small DNA plasmids: effects of sequence and supercoiling on intramolecular motions. Biopolymers. 1996 Aug;39(2):259-78.
Sprous D, Tan RK, Harvey SC. Molecular modeling of closed circular DNA thermodynamic ensembles. Biopolymers. 1996 Aug;39(2):243-58.
Sprous D, Harvey SC. Action at a distance in supercoiled DNA: effects of sequence on slither, branching, and intramolecular concentration. Biophys J. 1996 Apr;70(4):1893-908.
Tan RK, Harvey SC, Di Mauro E, Camilloni G, Venditti P. DNA topological context affects access to eukaryotic DNA topoisomerase I. J Biomol Struct Dyn. 1996 Apr;13(5):855-72.
Easterwood TR, Harvey SC. Modeling the structure of the ribosome. Biochem Cell Biol. 1995 Nov-Dec;73(11-12):751-6.
Harvey SC, Dlakic M, Griffith J, Harrington R, Park K, Sprous D, Zacharias W. What is the basis of sequence-directed curvature in DNAs containing A tracts? J Biomol Struct Dyn. 1995 Oct;13(2):301-7.
Sprous D, Zacharias W, Wood ZA, Harvey SC. Dehydrating agents sharply reduce curvature in DNAs containing A tracts. Nucleic Acids Res. 1995 May 25;23(10):1816-21.
Hao MH, Harvey SC. Active transport of ions across membranes: energetic role of electrostatics and binding site asymmetry. Biochim Biophys Acta. 1995 Mar 8;1234(1):5-14.
Easterwood TR, Major F, Malhotra A, Harvey SC. Orientations of transfer RNA in the ribosomal A and P sites. Nucleic Acids Res. 1994 Sep 11;22(18):3779-86.
Konstant PH, Pearce LL, Harvey SC. Langevin dynamics of the choline head group in a membrane environment. Biophys J. 1994 Aug;67(2):713-9.
Malhotra A, Harvey SC. A quantitative model of the Escherichia coli 16 S RNA in the 30 S ribosomal subunit. J Mol Biol. 1994 Jul 22;240(4):308-40.
Biophys J. 1994 Jun;66(6):1777-95. Modeling large RNAs and ribonucleoprotein particles using molecular mechanics techniques. Biophys J. 1994 Jun;66(6):1777-95.
Pearce LL, Harvey SC. Langevin dynamics studies of unsaturated phospholipids in a membrane environment. Biophys J. 1993 Sep;65(3):1084-92.
Harvey SC, Gabb HA. Conformational transitions using molecular dynamics with minimum biasing. Biopolymers. 1993 Aug;33(8):1167-72.
Harvey SC. Zippier zaps: faster electrostatics calculations. Biophys J. 1993 Jul;65(1):19-20.
Harvey SC, Tan RK. Teaching macromolecular modeling. Biophys J. 1992 Dec;63(6):1683-8.
Hao MH, Harvey SC. Analyzing the normal mode dynamics of macromolecules by the component synthesis method. Biopolymers. 1992 Oct;32(10):1393-405.
Gabb HA, Harris ME, Pandey NB, Marzluff WF, Harvey SC. Molecular modeling to predict the structural and biological effects of mutations in a highly conserved histone mRNA loop sequence. J Biomol Struct Dyn. 1992 Jun;9(6):1119-30.
Sprous D, Harvey SC. A three-dimensional model for nodule DNA. J Biol Chem. 1992 Mar 15;267(8):5502.
De Loof H, Harvey SC, Segrest JP, Pastor RW. Mean field stochastic boundary molecular dynamics simulation of a phospholipid in a membrane. Biochemistry. 1991 Feb 26;30(8):2099-113.
Krishna NR, Choe BY, Prabhakaran M, Ekborg GC, Rod?Šn L, Harvey SC. Nuclear magnetic resonance and molecular modeling studies on O-beta-D-galactopyranosyl-(1----4)-O-beta-D-xylopyranosyl-(1----0)-L-se rine, a carbohydrate-protein linkage region fragment from connective tissue proteoglycans. J Biol Chem. 1990 Oct 25;265(30):18256-62.
Malhotra A, Tan RK, Harvey SC. Prediction of the three-dimensional structure of Escherichia coli 30S ribosomal subunit: a molecular mechanics approach. Proc Natl Acad Sci U S A. 1990 Mar;87(5):1950-4.
Prabahakaran M, Harvey SC. Models for two tRNAs bound to successive codons on mRNA on the ribosome. J Biomol Struct Dyn. 1989 Aug;7(1):167-79.
Tan RK, Harvey SC. Molecular mechanics model of supercoiled DNA. J Mol Biol. 1989 Feb 5;205(3):573-91.
Harvey SC, Luo J, Lavery R. DNA stem-loop structures in oligopurine-oligopyrimidine triplexes. Nucleic Acids Res. 1988 Dec 23;16(24):11795-809.
Tan RK, Harvey SC. A comparison of six DNA bending models. J Biomol Struct Dyn. 1987 Dec;5(3):497-512.
Harvey SC, Cheung HC. Fluorescence studies of 1,N6-ethenoadenosine triphosphate bound to G-actin: the nucleotide base is inaccessible to water. Biochem Biophys Res Commun. 1976 Dec 20;73(4):865-8.
Harvey SC, Cheung HC. Computer Simulation of Fluorescence Depolarization Due to Brownian Motion. Proc Natl Acad Sci U S A. 1972 Dec;69(12):3670-3672.