Three-dimensional structures of bulge-containing DNA fragments.
暂无分享,去创建一个
J L Sussman | E. Appella | L. Joshua-Tor | J. Sussman | D. Rabinovich | F. Frolow | H. Hope | F Frolow | E Appella | L Joshua-Tor | H Hope | D Rabinovich | H. Hope
[1] T. Cech. Self-splicing of group I introns. , 1990, Annual review of biochemistry.
[2] D. Crothers,et al. Conformation of a bulge‐containing oligomer from a hot‐spot sequence by NMR and energy minimization , 1989, Biopolymers.
[3] T. Kunkel. Misalignment-mediated DNA synthesis errors. , 1990, Biochemistry.
[4] A. Klug,et al. The structure of an oligo(dA)·oligo(dT) tract and its biological implications , 1987, Nature.
[5] A. Leslie,et al. Left-handed DNA helices , 1980, Nature.
[6] W. Hunter,et al. Oligonucleotide structure: a decade of results from single crystal X-ray diffraction studies , 1989, Quarterly Reviews of Biophysics.
[7] J. R. Fresco,et al. Structural and energetic consequences of noncomplementary base oppositions in nucleic acid helices. , 1975, Progress in nucleic acid research and molecular biology.
[8] D. Rabinovich,et al. The effect of the base sequence on the fine structure of the DNA double helix. , 1986, Progress in biophysics and molecular biology.
[9] George M. Church,et al. A structure-factor least-squares refinement procedure for macromolecular structures using constrained and restrained parameters , 1977 .
[10] M. Sundaralingam,et al. Nonintercalative binding of proflavin to Z-DNA: structure of a complex between d(5BrC-G-5BrC-G) and proflavin. , 1988, Biochemistry.
[11] L. Lerman. The structure of the DNA-acridine complex. , 1963, Proceedings of the National Academy of Sciences of the United States of America.
[12] Three-center (bifurcated) hydrogen bonding in the crystal structures of amino acids , 1984 .
[13] J. Sussman,et al. A kinked model for the solution structure of DNA tridecamers with inserted adenosines: energy minimization and molecular dynamics. , 1988, Journal of biomolecular structure & dynamics.
[14] G J Williams,et al. The Protein Data Bank: a computer-based archival file for macromolecular structures. , 1977, Journal of molecular biology.
[15] D. Crothers,et al. Free energy of imperfect nucleic acid helices. I. The bulge defect. , 1973, Journal of molecular biology.
[16] D. Crothers,et al. Local effects of partial adenine‐N1‐oxidation on poly A · poly U and poly A · 2 poly U helix conformations , 1972, Biopolymers.
[17] O. Uhlenbeck,et al. Determination of RNA-protein contacts using thiophosphate substitutions. , 1989, Biochemistry.
[18] D. Crothers,et al. Preferential location of bulged guanosine internal to a G.C tract by 1H NMR. , 1988, Biochemistry.
[19] K. Umesono,et al. Comparative and functional anatomy of group II catalytic introns--a review. , 1989, Gene.
[20] D. Draper,et al. Single base bulges in small RNA hairpins enhance ethidium binding and promote an allosteric transition. , 1987, Nucleic acids research.
[21] D. Patel,et al. Extrahelical adenosine stacks into right-handed DNA: solution conformation of the d(C-G-C-A-G-A-G-C-T-C-G-C-G) duplex deduced from distance geometry analysis of nuclear Overhauser effect spectra. , 1986, Biochemistry.
[22] C. Bugg,et al. Conformational flexibility in single-stranded oligonucleotides: crystal structure of a hydrated calcium salt of adenylyl-(3'--5')-adenosine. , 1981, Biochemistry.
[23] D. Suck,et al. Structure refined to 2Å of a nicked DNA octanucleotide complex with DNase I , 1988, Nature.
[24] H R Drew,et al. Structure of a B-DNA dodecamer. III. Geometry of hydration. , 1981, Journal of molecular biology.
[25] U. Heinemann,et al. The conformation of a B‐DNA decamer is mainly determined by its sequence and not by crystal environment. , 1991, The EMBO journal.
[26] J. Sussman,et al. Characterization of crystals of genetically engineered human manganese superoxide dismutase. , 1989, Journal of molecular biology.
[27] S. A. Salisbury,et al. DNA double helical fragment at atomic resolution , 1978, Nature.
[28] J M Rosenberg,et al. Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing. , 1990, Science.
[29] D. Patel,et al. Conformational transitions in thymidine bulge-containing deoxytridecanucleotide duplexes. Role of flanking sequence and temperature in modulating the equilibrium between looped out and stacked thymidine bulge states. , 1990, The Journal of biological chemistry.
[30] D. Gray,et al. A circular dichroism study of poly dG, poly dC, and poly dG:dC , 1974 .
[31] Barry C. Finzel,et al. The use of an imaging proportional counter in macromolecular crystallography , 1987 .
[32] H R Drew,et al. Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG. , 1982, The Journal of biological chemistry.
[33] M. Karplus,et al. Crystallographic R Factor Refinement by Molecular Dynamics , 1987, Science.
[34] Sung-Hou Kim,et al. π Turn is a conformational pattern in RNA loops and bends , 1976, Nature.
[35] I. Tinoco,et al. Ethidium ion binds more strongly to a DNA double helix with a bulged cytosine than to a regular double helix. , 1985, Biochemistry.
[36] D. Crothers,et al. Binding of 9-aminoacridine to bulged-base DNA oligomers from a frame-shift hot spot. , 1988, Biochemistry.
[37] O. Uhlenbeck,et al. Role of a bulged A residue in a specific RNA-protein interaction. , 1987, Biochemistry.
[38] J. Griffith,et al. Deletions of bases in one strand of duplex DNA, in contrast to single-base mismatches, produce highly kinked molecules: possible relevance to the folding of single-stranded nucleic acids. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[39] F. Crick,et al. The theory of mutagenesis , 1961 .
[40] J. R. Fresco,et al. Polynucleotides. XIV. Photochemical evidence for an extrahelical, solvent-accessible environment of non-complementary residues in polynucleotide helices. , 1973, Journal of molecular biology.
[41] D. Suck,et al. X-ray study of helix, loop and base pair stacking in trinucleoside diphosphate ApApA. , 1973, Nature: New biology.
[42] D. Patel,et al. Extra adenosine stacks into the self-complementary d(CGCAGAATTCGCG) duplex in solution. , 1982, Biochemistry.
[43] J. A. Subirana,et al. Crystal and molecular structure of the sodium salt of the dinucleotide duplex d(CpG). , 1987, Journal of biomolecular structure & dynamics.
[44] D. Gray,et al. Circular dichroism spectra show that repeating dinucleotide DNAs may form helices in which every other base is looped out. , 1980, Nucleic acids research.
[45] D. Evans,et al. Characterization of imperfect DNA duplexes containing unpaired bases and non-Watson-Crick base pairs. , 1986, Nucleic acids research.
[46] I. Tinoco,et al. Conformation studies of 13 trinucleoside diphosphates by 360 MHz PMR spectroscopy. A bulged base conformation. I. Base protons and H1' protons. , 1980, Biophysical chemistry.
[47] E. Appella,et al. The three-dimensional structure of a DNA duplex containing looped-out bases , 1988, Nature.
[48] D. Crothers,et al. Structural model for an oligonucleotide containing a bulged guanosine by NMR and energy minimization. , 1988, Biochemistry.
[49] E. Appella,et al. Conformational perturbation due to an extra adenosine in a self‐complementary oligodeoxynucleotide duplex , 1987, Biopolymers.
[50] D. Gorenstein,et al. NMR structural refinement of an extrahelical adenosine tridecamer d(CGCAGAATTCGCG)2 via a hybrid relaxation matrix procedure. , 1990, Biochemistry.
[51] D. Evans,et al. Extrahelical bases in duplex DNA. , 1982, Journal of molecular biology.
[52] E. Appella,et al. Crystallization of a DNA tridecamer d(C-G-C-A-G-A-A-T-T-C-G-C-G). , 1986, Journal of molecular biology.
[53] R. Dickerson,et al. Structure of the B-DNA decamer C-C-A-A-C-G-T-T-G-G and comparison with isomorphous decamers C-C-A-A-G-A-T-T-G-G and C-C-A-G-G-C-C-T-G-G. , 1991, Journal of molecular biology.
[54] Christine Guthrie,et al. Recognition of the TACTAAC box during mRNA splicing in yeast involves base pairing to the U2-like snRNA , 1987, Cell.
[55] F. Jurnak,et al. Biological Macromolecules and Assemblies , 1987 .
[56] T. Kunkel,et al. Mutagenesis by transient misalignment. , 1988, The Journal of biological chemistry.
[57] J. Griffith,et al. Effects of bulge composition and flanking sequence on the kinking of DNA by bulged bases. , 1991, Biochemistry.
[58] C. Guthrie. Messenger RNA splicing in yeast: clues to why the spliceosome is a ribonucleoprotein. , 1991, Science.
[59] T. A. Jones,et al. A graphics model building and refinement system for macromolecules , 1978 .
[60] C. E. Longfellow,et al. Thermodynamic and spectroscopic study of bulge loops in oligoribonucleotides. , 1990, Biochemistry.
[61] D A LeBlanc,et al. Thermodynamic characterization of deoxyribooligonucleotide duplexes containing bulges. , 1991, Biochemistry.
[62] R. Dickerson,et al. Definitions and nomenclature of nucleic acid structure components. , 1989, Nucleic acids research.
[63] D. Gorenstein,et al. Two-dimensional 1H and 31P NMR spectra and restrained molecular dynamics structure of an extrahelical adenosine tridecamer oligodeoxyribonucleotide duplex. , 1989, Biochemistry.
[64] H. L. Carrell,et al. Molecular and crystal structure of an intercalation complex: Proflavine–cytidylyl‐(3′,5′)‐guanosine , 1979 .
[65] A. Rich,et al. A bifurcated hydrogen-bonded conformation in the d(A.T) base pairs of the DNA dodecamer d(CGCAAATTTGCG) and its complex with distamycin. , 1987, Proceedings of the National Academy of Sciences of the United States of America.
[66] N. Seeman,et al. Crystal structure of a naturally occurring dinucleoside phoaphate: uridylyl 3',5'-adenosine phosphate model for RNA chain folding. , 1972, Journal of molecular biology.
[67] E Westhof,et al. Crystallographic refinement of yeast aspartic acid transfer RNA. , 1985, Journal of molecular biology.
[68] T. Steitz,et al. Crystal lattice packing is important in determining the bend of a DNA dodecamer containing an adenine tract. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[69] D. Crothers,et al. DNA bending by the bulge defect. , 1989, Biochemistry.
[70] D. Lilley,et al. The contrasting structures of mismatched DNA sequences containing looped-out bases (bulges) and multiple mismatches (bubbles). , 1989, Nucleic acids research.
[71] S. A. Salisbury,et al. Chiral phosphorothioate analogues of B-DNA. The crystal structure of Rp-d[Gp(S)CpGp(S)CpGp(S)C]. , 1986, Journal of molecular biology.
[72] D. Patel,et al. Conformation of adenosine bulge-containing deoxytridecanucleotide duplexes in solution. Extra adenosine stacks into duplex independent of flanking sequence and temperature. , 1989, The Journal of biological chemistry.
[73] H. Elst,et al. Extra thymidine stacks into the d(CTGGTGCGG).d(CCGCCCAG) duplex. An NMR and model-building study. , 1988, Nucleic acids research.
[74] A. Camerman,et al. Molecular structure of a deoxyribose-dinucleotide, sodium thymidylyl-(5′→3′)-thymidylate-(5′) hydrate (pTpT), and a possible structural model for polythymidylate , 1976 .
[75] M. Inouye,et al. Frameshift mutations and the genetic code. This paper is dedicated to Professor Theodosius Dobzhansky on the occasion of his 66th birthday. , 1966, Cold Spring Harbor symposia on quantitative biology.
[76] U Heinemann,et al. Helix geometry, hydration, and G.A mismatch in a B-DNA decamer. , 1987, Science.
[77] O. Uhlenbeck,et al. Specific RNA binding by Q beta coat protein. , 1989, Biochemistry.
[78] R. Dickerson,et al. Analysis of local helix geometry in three B-DNA decamers and eight dodecamers. , 1991, Journal of molecular biology.
[79] L. S. Ripley,et al. Frameshift mutation: determinants of specificity. , 1990, Annual review of genetics.
[80] Fritz Eckstein,et al. Chiral phosphorothioate analogues of B-DNA: The crystal structure of Rp-d¦Gp(S)CpGp(S)CpGp(S)C¦☆ , 1993 .
[81] H R Drew,et al. Structure of a B-DNA dodecamer. II. Influence of base sequence on helix structure. , 1981, Journal of molecular biology.
[82] G. A. van der Marel,et al. Bulge-out structures in the single-stranded trimer AUA and in the duplex (CUGGUGCGG).(CCGCCCAG). A model-building and NMR study. , 1988, Nucleic acids research.
[83] Ignacio Tinoco,et al. Unpaired cytosine in the deoxyoligonucleotide duplex dCA3CA3G.cntdot.dCT6G is outside of the helix , 1983 .
[84] D. Patel,et al. Conformational transitions in cytidine bulge-containing deoxytridecanucleotide duplexes: extra cytidine equilibrates between looped out (low temperature) and stacked (elevated temperature) conformations in solution. , 1989, Biochemistry.
[85] R. Ratliff,et al. Circular dkhroism measurements show that C·C+ base pairs can coexist with A·T base pairs between antiparallel strands of an oligodeoxynudeotide double-helix , 1984 .
[86] H. Hope. Cryocrystallography of biological macromolecules: a generally applicable method. , 1988, Acta crystallographica. Section B, Structural science.
[87] D. Rabinovich,et al. A new approach to structure determination of large molecules by multi-dimensional search methods , 1984 .
[88] H. R. Wilson,et al. Structure of thymidylyl-3′, 5′-deoxyadenosine , 1976, Nature.