Non-Commensurate Polypurine/Polypyrimidine DNA Structures
10.1007/978-3-642-83384-7_2
Crossref book-chapter
Springer Berlin Heidelberg
Nucleic Acids and Molecular Biology (297)
Bibliography

Pulleyblank, D. E. (1988). Non-Commensurate Polypurine/Polypyrimidine DNA Structures. Nucleic Acids and Molecular Biology, 31–48.

Authors 1
  1. D. E. Pulleyblank (first)
References 53 Referenced 3
  1. Birnboim HC, Mitchel REJ, Straus NA (1973) Analysis of long pyrimidine polynucleotides in HeLa cell nuclear DNA: absence of polydeoxythymidylate. Proc Natl Acad Sci USA 70:2189–2192 (10.1073/pnas.70.8.2189) / Proc Natl Acad Sci USA by HC Birnboim (1973)
  2. Cantor CR, Efstradiatis A (1984) Possible structures of homopurine-homopyrimidine S1-hypersensitive sites. Nucl Acids Res 21:8059–8071 (10.1093/nar/12.21.8059) / Nucl Acids Res by CR Cantor (1984)
  3. Courey AJ, Wang JC (1983) Cruciform formation in a negatively supercoiled DNA may be kinetically forbidden under physiological conditions. Cell 33:817–829 (10.1016/0092-8674(83)90024-7) / Cell by AJ Courey (1983)
  4. Courtois Y, Fromageot P, Guschlbauer W (1968) Protonated polynucleotide structures 3. An optical rotatory dispersion study of the protonation of DNA. Eur J Biochem 6:493–501 (10.1111/j.1432-1033.1968.tb00472.x) / Eur J Biochem by Y Courtois (1968)
  5. Dodd JD, Straus NA (1982) Repeated sequences in L-cell m-RNA complementary to long deoxypolypyrimidines. Biochim Biophys Acta 698:140–148 (10.1016/0167-4781(82)90129-4) / Biochim Biophys Acta by JD Dodd (1982)
  6. Elgin SCR (1984) Anatomy of hypersensitive sites. Nature 309:213–214 (10.1038/309213a0) / Nature by SR Elgin (1984)
  7. Evans T, Efstradiatis A (1986) Sequence dependent S1 nuclease hypersensitivity of a heteronymous DNA duplex. J Biol Chem 261:14771–14680 (10.1016/S0021-9258(18)66939-X) / J Biol Chem by T Evans (1986)
  8. Evans T, Schon E, Cora-Maslak G, Patterson J, Efstradiatis A (1984) S1 hypersensitive sites in eukaryotic promotor regions. Nucl Acids Res 12:8043–8058 (10.1093/nar/12.21.8043) / Nucl Acids Res by T Evans (1984)
  9. Geliert M, O’Dea MG, Mizuuchi K (1983) Slow cruciform transitions in palindromic DNA. Proc Natl Acad Sci USA 80:5545–5549 (10.1073/pnas.80.18.5545) / Proc Natl Acad Sci USA by M Geliert (1983)
  10. Glover M, Farah C, Haniford DB, Pulleyblank DE (1987) Strain dependent protonation of random sequence DNA at anomalously high pH (submitted for publication)
  11. Gray DM, Vaughan M (1980) Circular dichroism spectra show that repeating dinucleotide DNAs may form helices in which every other base is looped out. Nucl Acids Res 8:3695–3706 (10.1093/nar/8.16.3695) / Nucl Acids Res by DM Gray (1980)
  12. Greaves DR, Patient RK, Lilley DMJ (1985) Facile cruciform formation by an (A-T)34 sequence from a Xenopus globin gene. J Mol Biol 185:461–478 (10.1016/0022-2836(85)90064-6) / J Mol Biol by DR Greaves (1985)
  13. Haniford DB (1986) Sequence dependent DNA polymorphisms. PhD Thesis University of Toronto
  14. Haniford DB, Pulleyblank DE (1983) Facile transitions of poly [d(TG) •d(GA)] into a left-handed helix in physiological conditions. Nature 302:632–634 (10.1038/302632a0) / Nature by DB Haniford (1983)
  15. Haniford DB, Pulleyblank DE (1985) Transition of a cloned d(AT)n •d(AT)n tract to a cruciform in-vivo. Nucl Acids Res 13:4343–4363 (10.1093/nar/13.12.4343) / Nucl Acids Res by DB Haniford (1985)
  16. Hartmann KA, Rich A (1965) The tautomeric form of helical polycytidylic acid. J Am Chem Soc 87:2033–2038 (10.1021/ja01087a031) / J Am Chem Soc by KA Hartmann (1965)
  17. Hentschell CC (1982) Homocopolymer sequences in the spacer of a sea urchin histone repeat are sensitive to S1 nuclease. Nature 295:714–716 (10.1038/295714a0) / Nature by CC Hentschell (1982)
  18. Howard FB, Frazier J, Lipsett MN, Miles HT (1964) Infrared demonstration of two and three strand helix formation between polyC and guanoS1ne mononucleotides and oligonucleotides. Biochim Biophys Res Commun 91:627–635 / Biochim Biophys Res Commun by FB Howard (1964)
  19. Hsieh T-S, Wang JC (1975) Thermodynamics of superhelical DNAs. Biochemistry 14:527–535 (10.1021/bi00674a011) / Biochemistry by TS Hsieh (1975)
  20. Htun H, Dahlberg JE (1987) Nuclease S1 sensitivity of (dT-dC):(dG-dA)n copolymeric sequences correlates with acid-promoted structural rearrangement(s) to triple-stranded structures. 5th conversation in biomolecular stereodynamics. State University of New York at Albany, Abstract 080 / 5th conversation in biomolecular stereodynamics by H Htun (1987)
  21. Htun H, Lund E, Dahlberg J (1984) Human U1 genes contain an unusually sensitive nuclease S1-cleavage site within the conserved 3 flanking region. Proc Natl Acad Sci USA 81:7288–7292 (10.1073/pnas.81.23.7288) / Proc Natl Acad Sci USA by H Htun (1984)
  22. Htun H, Lund E, Westin G, Pettersen U, Dahlberg JE (1985) Nuclease S1 sensitive sites in multigene families: Human U2 small nuclear RNA species. EMBO J 4:1839–1845 (10.1002/j.1460-2075.1985.tb03858.x) / EMBO J by H Htun (1985)
  23. Johnson BH (1987) The S1-sensitive conformation of d(C-T)18 •d(A-G)18 is hyperreactive to several chemical probes. 5th conversation in biomolecular stereodynamics. State University of New York at Albany, Abstract 077 / 5th conversation in biomolecular stereodynamics by BH Johnson (1987)
  24. Johnson DA, Morgan AR (1978) Unique structures formed by pyrimidine-purine DNAs which may be four stranded. Proc Natl Acad Sci 75:1637–1641 (10.1073/pnas.75.4.1637) / Proc Natl Acad Sci by DA Johnson (1978)
  25. Larsen A, Weintraub H (1982) An altered DNA conformation detected by S1 nuclease occurs at specific regions in active chick globin chromatin. Cell 29:609–662 (10.1016/0092-8674(82)90177-5) / Cell by A Larsen (1982)
  26. Lee JS, Johnson DA, Morgan AR ( 1979) Complexes formed by (pyrimidine)n •(purine)n on lowering the pH are three stranded. Nucl Acids Res 6:3073–3092 (10.1093/nar/6.9.3073) / Nucl Acids Res by JS Lee (1979)
  27. Lee JS, Evans DH, Morgan AR (1980) Polypurine DNAs and RNAs form secondary structures which may be tetra-stranded. Nucl Acids Res 8:4305–4320 (10.1093/nar/8.18.4305) / Nucl Acids Res by JS Lee (1980)
  28. Lee JS, Woodsworth ML, Latimer LJP, Morgan AR (1984) Poly(pyrimidine)• poly-(purine) synthetic DNAs containig 5 methyl-cytosine form stable triplexes at neutral pH. Nucl Acids Res 12:6603–6614 (10.1093/nar/12.16.6603) / Nucl Acids Res by JS Lee (1984)
  29. Lyamichev VI, Mirkin SM, Frank-Kamanetskii MD (1985) A pH-dependent structural tranS1tion in the homopurine-homopyrimidine tract in superhelical DNA. J Biol Struct Dyn 3:327–338 (10.1080/07391102.1985.10508420) / J Biol Struct Dyn by VI Lyamichev (1985)
  30. Lyamichev VI, Mirkin SM, Frank-Kamanetskii MD (1986) Structures of homopurine-homopyrimidine tract in superhelical DNA. J Biol Struct Dyn 3:667–669 (10.1080/07391102.1986.10508454) / J Biol Struct Dyn by VI Lyamichev (1986)
  31. Mace HAF, Pelham HRB, Travers AA (1983) Association of an S1 nuclease-sensitive structure with short direct repeats 5′ of Drosophila heat shock genes. Nature 304:555–557 (10.1038/304555a0) / Nature by HF Mace (1983)
  32. Mizuuchi K, Mizuuchi M, Geliert M (1982) Cruciform structures in plaindromic DNA are favoured by DNA supercoiling. J Mol Biol 156:229–243 (10.1016/0022-2836(82)90325-4) / J Mol Biol by K Mizuuchi (1982)
  33. Morgan AR, Wells RD (1968) Specificity of the three stranded complex formation between double-stranded DNA and single-stranded RNA containing repeated nucleotide sequences. J Mol Biol 37:63–80 (10.1016/0022-2836(68)90073-9) / J Mol Biol by AR Morgan (1968)
  34. Panyutin I, Klishko V, Lyamichev VI (1984) Kinetics of cruciform formation and stability of cruciform structure in supercoiled DNA. J Biomol Struct Dyn 1:1311–1324 (10.1080/07391102.1984.10507522) / J Biomol Struct Dyn by I Panyutin (1984)
  35. Peck LJ, Wang JC (1983) Energetics of B to Z tranS1tion in DNA. Proc Natl Acad Sci USA 80:6206–6210 (10.1073/pnas.80.20.6206) / Proc Natl Acad Sci USA by LJ Peck (1983)
  36. Pohl FM, Jovin TM (1972) Salt induced cooperative conformational change of a synthetic DNA: equilibrium and kinetic studies with poly(dG-dC). J Mol Biol 57:375–396 (10.1016/0022-2836(72)90457-3) / J Mol Biol by FM Pohl (1972)
  37. Pulleyblank DE, Shure M, Tang D, Vinograd J, Vosberg H-P (1975) Action of nicking-closing enzyme on supercoiled and non-supercoiled closed circular DNA: formation of a Boltzmann distribution of topological isomers. Proc Natl Acad Sci USA 72:4280–4284 (10.1073/pnas.72.11.4280) / Proc Natl Acad Sci USA by DE Pulleyblank (1975)
  38. Pulleyblank DE, Haniford DB, Morgan AR (1985) A structural basis for si hypersen-sitivity in double stranded DNA. Cell 42:271–280 (10.1016/S0092-8674(85)80122-7) / Cell by DE Pulleyblank (1985)
  39. Pulleyblank DE, Glover M, Farah C, Haniford DB (1987) The specificity of “single strand specific endonucleases”: probes of phosphodiester conformation in double stranded nucleic acids. Left-handed polypurine/polypyrimidine structures. Long range transmission of conformational information in DNA. In: Wells RD, Harvey SC (eds) Unusual DNA structures. Springer, Berlin Heidelberg New York (in press) / Unusual DNA structures by DE Pulleyblank (1987)
  40. Ruiz-Carillo A (1984) The histone H5 gene is flanked by si hypersensitive structures. Nucl Acids Res 12:6473–6492 (10.1093/nar/12.16.6473) / Nucl Acids Res by A Ruiz-Carillo (1984)
  41. Schon E, Evans T, Welsch J, Efstradiatis A (1983) Conformation of promotor DNA: fine mapping of si-hypersensitive sites. Cell 35:837–848 (10.1016/0092-8674(83)90116-2) / Cell by E Schon (1983)
  42. Selleck SB, Elgin SCR, Cartwright IL (1984) Supercoil dependent features of DNA structure at Drosophila locus 67B1. J Mol Biol 178:17–33 (10.1016/0022-2836(84)90228-6) / J Mol Biol by SB Selleck (1984)
  43. singleton CK, Klysik J, Stirdivant SM, Wells RD (1983) Conformational flexibility of junctions between contiguous B and ZODNA in supercoiled plasmids. Proc Natl Acad Sci USA 80:2447–2451 (10.1073/pnas.80.9.2447) / Proc Natl Acad Sci USA by CK singleton (1983)
  44. Straus NA, Birnboim HC (1976) Polypyrimidine sequences found in eukaryotic DNA have been conserved during evolution. Biochim Biophys Acta 454:419–428 (10.1016/0005-2787(76)90268-9) / Biochim Biophys Acta by NA Straus (1976)
  45. Suggs JW, Wagner RW (1987) Perturbation of the dinucleotide repeat conformation in alternating poly d(AT) • d(AT). 5th Conversation in biomolecular stereodynamics. State University of New York at Albany, Abstract 095 / 5th Conversation in biomolecular stereodynamics by JW Suggs (1987)
  46. Sullivan KM, Lilley DMJ (1987) Influence of cation size and charge on the extrusion of a Dalt-dependent cruciform. J Mol Biol 193:397–404 (10.1016/0022-2836(87)90227-0) / J Mol Biol by KM Sullivan (1987)
  47. Sures I, Lowry J, Kedes LH (1978) The DNA sequence of sea urchin (S. purpuratus) H2A, H2B and H3 histone coding and spacer regions. Cell 15:1033–1044 (10.1016/0092-8674(78)90287-8) / Cell by I Sures (1978)
  48. Thiele D, Guschlbauer W (1971) Protonated polynucleotide structures IX: disproportionation of poly(G) • poly(C) in acid medium. Biopolymers 10:143–157 (10.1002/bip.360100111) / Biopolymers by D Thiele (1971)
  49. Uesugi S, Lee BL, Ikehara M, Kobayashi Y, Kyogoku Y (1985) Hybrid oligomer of cyclonucleosides and deoxynucleosides: a high anti left handed DNA structure. J Biomol Struct Dyn 3:339–347 (10.1080/07391102.1985.10508421) / J Biomol Struct Dyn by S Uesugi (1985)
  50. Uesugi S, Lee BL, Yoshida T, Ikehara M, Fujii S, Tomita K (1987) Deoxyribotetra nucleotide segment can adopt a high anti left-handed double helical structure. 5th Conversation in biomolecular stereodynamics. State University of New York at Albany, Abstract 031 / 5th Conversation in biomolecular stereodynamics by S Uesugi (1987)
  51. Umeck RM, Kowalski D (1987) Yeast regulatory sequences preferentially adopt a non-B conformation in supercoiled DNA. Nucl Acids Res 15:4467–4480 (10.1093/nar/15.11.4467) / Nucl Acids Res by RM Umeck (1987)
  52. Wang AH-J, Quigley GJ, Kolpack FJ, Crawford JL, Boom JH, Marel G van der, Rich A (1979) Molecular structure of a left handed double helical DNA fragment at atomic resolution. Nature 282:680–686 (10.1038/282680a0) / Nature by AJ Wang (1979)
  53. Wohlrab F, McLean MJ, Wells RD (1987) The segment inversion site of herpes simplex virus type 1 adopts a novel DNA structure. J Biol Sci USA 262:6407–6416 / J Biol Sci USA by F Wohlrab (1987)
Dates
Type When
Created 13 years, 8 months ago (Dec. 22, 2011, 5:45 a.m.)
Deposited 2 years, 7 months ago (Jan. 23, 2023, 5:56 p.m.)
Indexed 5 months ago (March 25, 2025, 3:16 p.m.)
Issued 37 years, 7 months ago (Jan. 1, 1988)
Published 37 years, 7 months ago (Jan. 1, 1988)
Published Print 37 years, 7 months ago (Jan. 1, 1988)
Funders 0

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@inbook{Pulleyblank_1988, title={Non-Commensurate Polypurine/Polypyrimidine DNA Structures}, ISBN={9783642833847}, ISSN={1869-2486}, url={http://dx.doi.org/10.1007/978-3-642-83384-7_2}, DOI={10.1007/978-3-642-83384-7_2}, booktitle={Nucleic Acids and Molecular Biology}, publisher={Springer Berlin Heidelberg}, author={Pulleyblank, D. E.}, year={1988}, pages={31–48} }