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Mol Cell Biol. 1986 May; 6(5): 1663–1670.
PMCID: PMC367693

Domain structure of the simian virus 40 core origin of replication.

Abstract

The simian virus 40 core origin of replication consists of nucleotides 5211 through 31. These 64 base pairs contain three functional domains with strict sequence requirements and two spacer regions with relaxed sequence specificity but precise positional constraints. The early domain extends for 10 contiguous base pairs between nucleotides 5211 and 5220. A 9-base pair spacer from sequences 5221 through 5229 separates the early domain from the 23-base pair central palindrome that directs the binding of T antigen. The late end of the core between nucleotides 12 and 31 also contains spacer and sequence-specific functions that are not yet completely mapped. We propose that the sequence-specific domains are interaction sites for viral and cellular proteins, determinants of DNA conformation, or both. The spacers would position these signals at required distances and rotations relative to one another.

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Selected References

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  • Abarzúa P, Marians KJ. Enzymatic techniques for the isolation of random single-base substitutions in vitro at high frequency. Proc Natl Acad Sci U S A. 1984 Apr;81(7):2030–2034. [PubMed]
  • Bergsma DJ, Olive DM, Hartzell SW, Subramanian KN. Territorial limits and functional anatomy of the simian virus 40 replication origin. Proc Natl Acad Sci U S A. 1982 Jan;79(2):381–385. [PubMed]
  • Birnboim HC, Doly J. A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res. 1979 Nov 24;7(6):1513–1523. [PMC free article] [PubMed]
  • Cereghini S, Yaniv M. Assembly of transfected DNA into chromatin: structural changes in the origin-promoter-enhancer region upon replication. EMBO J. 1984 Jun;3(6):1243–1253. [PubMed]
  • Cohen GL, Wright PJ, DeLucia AL, Lewton BA, Anderson ME, Tegtmeyer P. Critical spatial requirement within the origin of simian virus 40 DNA replication. J Virol. 1984 Jul;51(1):91–96. [PMC free article] [PubMed]
  • Cunningham TP, Pipas JM. Simian agent 12 is a BK virus-like papovavirus which replicates in monkey cells. J Virol. 1985 May;54(2):483–492. [PMC free article] [PubMed]
  • DeLucia AL, Deb S, Partin K, Tegtmeyer P. Functional interactions of the simian virus 40 core origin of replication with flanking regulatory sequences. J Virol. 1986 Jan;57(1):138–144. [PMC free article] [PubMed]
  • DeLucia AL, Lewton BA, Tjian R, Tegtmeyer P. Topography of simian virus 40 A protein-DNA complexes: arrangement of pentanucleotide interaction sites at the origin of replication. J Virol. 1983 Apr;46(1):143–150. [PMC free article] [PubMed]
  • DiMaio D, Nathans D. Cold-sensitive regulatory mutants of simian virus 40. J Mol Biol. 1980 Jun 15;140(1):129–142. [PubMed]
  • DiMaio D, Nathans D. Regulatory mutants of simian virus 40. Effect of mutations at a T antigen binding site on DNA replication and expression of viral genes. J Mol Biol. 1982 Apr 15;156(3):531–548. [PubMed]
  • Frisque RJ, Bream GL, Cannella MT. Human polyomavirus JC virus genome. J Virol. 1984 Aug;51(2):458–469. [PMC free article] [PubMed]
  • Fromm M, Berg P. Deletion mapping of DNA regions required for SV40 early region promoter function in vivo. J Mol Appl Genet. 1982;1(5):457–481. [PubMed]
  • Gerard RD, Montelone BA, Walter CF, Innis JW, Scott WA. Role of specific simian virus 40 sequences in the nuclease-sensitive structure in viral chromatin. Mol Cell Biol. 1985 Jan;5(1):52–58. [PMC free article] [PubMed]
  • Gluzman Y, Frisque RJ, Sambrook J. Origin-defective mutants of SV40. Cold Spring Harb Symp Quant Biol. 1980;44(Pt 1):293–300. [PubMed]
  • Hay RT, DePamphilis ML. Initiation of SV40 DNA replication in vivo: location and structure of 5' ends of DNA synthesized in the ori region. Cell. 1982 Apr;28(4):767–779. [PubMed]
  • Innis JW, Scott WA. DNA replication and chromatin structure of simian virus 40 insertion mutants. Mol Cell Biol. 1984 Aug;4(8):1499–1507. [PMC free article] [PubMed]
  • Jones KA, Myers RM, Tjian R. Mutational analysis of simian virus 40 large T antigen DNA binding sites. EMBO J. 1984 Dec 20;3(13):3247–3255. [PubMed]
  • Jongstra J, Reudelhuber TL, Oudet P, Benoist C, Chae CB, Jeltsch JM, Mathis DJ, Chambon P. Induction of altered chromatin structures by simian virus 40 enhancer and promoter elements. Nature. 1984 Feb 23;307(5953):708–714. [PubMed]
  • Kalderon D, Richardson WD, Markham AF, Smith AE. Sequence requirements for nuclear location of simian virus 40 large-T antigen. Nature. 1984 Sep 6;311(5981):33–38. [PubMed]
  • Li JJ, Kelly TJ. Simian virus 40 DNA replication in vitro: specificity of initiation and evidence for bidirectional replication. Mol Cell Biol. 1985 Jun;5(6):1238–1246. [PMC free article] [PubMed]
  • Myers RM, Tjian R. Construction and analysis of simian virus 40 origins defective in tumor antigen binding and DNA replication. Proc Natl Acad Sci U S A. 1980 Nov;77(11):6491–6495. [PubMed]
  • Ryder K, Silver S, DeLucia AL, Fanning E, Tegtmeyer P. An altered DNA conformation in origin region I is a determinant for the binding of SV40 large T antigen. Cell. 1986 Mar 14;44(5):719–725. [PubMed]
  • Ryder K, Vakalopoulou E, Mertz R, Mastrangelo I, Hough P, Tegtmeyer P, Fanning E. Seventeen base pairs of region I encode a novel tripartite binding signal for SV40 T antigen. Cell. 1985 Sep;42(2):539–548. [PubMed]
  • Shortle D, Nathans D. Local mutagenesis: a method for generating viral mutants with base substitutions in preselected regions of the viral genome. Proc Natl Acad Sci U S A. 1978 May;75(5):2170–2174. [PubMed]
  • Shortle DR, Margolskee RF, Nathans D. Mutational analysis of the simian virus 40 replicon: pseudorevertants of mutants with a defective replication origin. Proc Natl Acad Sci U S A. 1979 Dec;76(12):6128–6131. [PubMed]
  • Stillman B, Gerard RD, Guggenheimer RA, Gluzman Y. T antigen and template requirements for SV40 DNA replication in vitro. EMBO J. 1985 Nov;4(11):2933–2939. [PubMed]
  • Stillman BW, Gluzman Y. Replication and supercoiling of simian virus 40 DNA in cell extracts from human cells. Mol Cell Biol. 1985 Aug;5(8):2051–2060. [PMC free article] [PubMed]
  • Subramanian KN, Shenk T. Definition of the boundaries of the origin of DNA replication in simian virus 40. Nucleic Acids Res. 1978 Oct;5(10):3635–3642. [PMC free article] [PubMed]
  • Tegtmeyer P. Simian virus 40 deoxyribonucleic acid synthesis: the viral replicon. J Virol. 1972 Oct;10(4):591–598. [PMC free article] [PubMed]
  • Tegtmeyer P, Lewton BA, DeLucia AL, Wilson VG, Ryder K. Topography of simian virus 40 A protein-DNA complexes: arrangement of protein bound to the origin of replication. J Virol. 1983 Apr;46(1):151–161. [PMC free article] [PubMed]
  • Wallace RB, Johnson MJ, Suggs SV, Miyoshi K, Bhatt R, Itakura K. A set of synthetic oligodeoxyribonucleotide primers for DNA sequencing in the plasmid vector pBR322. Gene. 1981 Dec;16(1-3):21–26. [PubMed]
  • Wilson VG, Tevethia MJ, Lewton BA, Tegtmeyer P. DNA binding properties of simian virus 40 temperature-sensitive A proteins. J Virol. 1982 Nov;44(2):458–466. [PMC free article] [PubMed]
  • Wobbe CR, Dean F, Weissbach L, Hurwitz J. In vitro replication of duplex circular DNA containing the simian virus 40 DNA origin site. Proc Natl Acad Sci U S A. 1985 Sep;82(17):5710–5714. [PubMed]
  • Yamaguchi M, Hendrickson EA, DePamphilis ML. DNA primase-DNA polymerase alpha from simian cells: sequence specificity of initiation sites on simian virus 40 DNA. Mol Cell Biol. 1985 May;5(5):1170–1183. [PMC free article] [PubMed]

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