-
1
-
-
0032883842
-
Crystal structure of a DNA Holliday junction
-
Ortiz-Lombardia,M., Gonzales,A., Eitja,R., Aymami,J., Azorin,F. and Coll,M. (1999) Crystal structure of a DNA Holliday junction. Nature Struct. Biol., 6, 913-917.
-
(1999)
Nature Struct. Biol.
, vol.6
, pp. 913-917
-
-
Ortiz-Lombardia, M.1
Gonzales, A.2
Eitja, R.3
Aymami, J.4
Azorin, F.5
Coll, M.6
-
2
-
-
0034635961
-
The Holliday junction in an inverted repeat DNA sequence: Sequence effects on the structure of four-way junctions
-
Eichman,B.F., Vargason,J.M., Mooers,B.H.M. and Ho,P.S. (2000) The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions. Proc. Natl Acad. Sci. USA, 97, 3971-3976.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 3971-3976
-
-
Eichman, B.F.1
Vargason, J.M.2
Mooers, B.H.M.3
Ho, P.S.4
-
3
-
-
0035366324
-
The crystal structures of DNA Holliday junctions
-
Ho,P.S. and Eichman,B.F. (2001) The crystal structures of DNA Holliday junctions. Curr. Opin. Struct. Biol., 11, 302-308.
-
(2001)
Curr. Opin. Struct. Biol.
, vol.11
, pp. 302-308
-
-
Ho, P.S.1
Eichman, B.F.2
-
4
-
-
0037036394
-
The effect of cytosine methylation on the structure and geometry of the Holliday junction-the structure of d(CCGGTACm(5)CGG) at 1.5 angstrom resolution
-
Vargason,J.M. and Ho,P.S. (2002) The effect of cytosine methylation on the structure and geometry of the Holliday junction-the structure of d(CCGGTACm(5)CGG) at 1.5 angstrom resolution. J. Biol. Chem., 277, 21041-21049.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 21041-21049
-
-
Vargason, J.M.1
Ho, P.S.2
-
6
-
-
0035917317
-
The crystal structures of psoralen cross-linked DNAs: Drug-dependent formation of Holliday junctions
-
Eichman,B.F., Mooers,B.H.M., Alberti,M., Hearst,J.E. and Ho,P.S. (2001) The crystal structures of psoralen cross-linked DNAs: drug-dependent formation of Holliday junctions. J. Mol. Biol., 308, 15-26.
-
(2001)
J. Mol. Biol.
, vol.308
, pp. 15-26
-
-
Eichman, B.F.1
Mooers, B.H.M.2
Alberti, M.3
Hearst, J.E.4
Ho, P.S.5
-
7
-
-
0033636685
-
Structures of helical junctions in nucleic acids
-
Lilley,D.M.J. (2000) Structures of helical junctions in nucleic acids. Q. Rev. Biophys., 33, 109-159.
-
(2000)
Q. Rev. Biophys.
, vol.33
, pp. 109-159
-
-
Lilley, D.M.J.1
-
8
-
-
0342419507
-
Three-way and four-way junctions in DNA: A conformational viewpoint
-
Altona,C., Pikkemaat,J.A. and Overmars,F.J.J. (1996) Three-way and four-way junctions in DNA: a conformational viewpoint. Curr. Opin. Struct. Biol., 6, 305-316.
-
(1996)
Curr. Opin. Struct. Biol.
, vol.6
, pp. 305-316
-
-
Altona, C.1
Pikkemaat, J.A.2
Overmars, F.J.J.3
-
9
-
-
0030815232
-
Global structure of three-way DNA junctions with and without additional unpaired bases: A fluorescence resonance energy transfer analysis
-
Stuhmeier,F., Welch,J.B., Murchie,A.I., Lilley,D.M. and Clegg,R.M. (1997) Global structure of three-way DNA junctions with and without additional unpaired bases: a fluorescence resonance energy transfer analysis. Biochemistry, 36, 13530-13538.
-
(1997)
Biochemistry
, vol.36
, pp. 13530-13538
-
-
Stuhmeier, F.1
Welch, J.B.2
Murchie, A.I.3
Lilley, D.M.4
Clegg, R.M.5
-
10
-
-
0042330729
-
Effect of additional unpaired bases on the stability of three-way DNA junctions studied by fluorescence techniques
-
Stuhmeier,F., Lilley,D.M. and Clegg,R.M. (1997) Effect of additional unpaired bases on the stability of three-way DNA junctions studied by fluorescence techniques. Biochemistry, 36, 13539-13551.
-
(1997)
Biochemistry
, vol.36
, pp. 13539-13551
-
-
Stuhmeier, F.1
Lilley, D.M.2
Clegg, R.M.3
-
11
-
-
0026032501
-
Stability and structure of three-way DNA junctions containing unpaired nucleotides
-
Leontis,N.B., Kwok,W. and Newman,J.S. (1991) Stability and structure of three-way DNA junctions containing unpaired nucleotides. Nucleic Acids Res., 19, 759-766.
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 759-766
-
-
Leontis, N.B.1
Kwok, W.2
Newman, J.S.3
-
12
-
-
0027428042
-
Structures of bulged three-way DNA junctions
-
Welch,J.B., Duckett,D.R. and Lilley,D.M.J. (1993) Structures of bulged three-way DNA junctions. Nucleic Acids Res., 21, 4548-4555.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 4548-4555
-
-
Welch, J.B.1
Duckett, D.R.2
Lilley, D.M.J.3
-
13
-
-
0029088191
-
Two inequivalent folding isomers of the three-way DNA junction with unpaired bases: Sequence-dependence of the folded conformation
-
Welch,J.B., Walter,F. and Lilley,D.M.J. (1995) Two inequivalent folding isomers of the three-way DNA junction with unpaired bases: sequence-dependence of the folded conformation. J. Mol. Biol., 251, 507-519.
-
(1995)
J. Mol. Biol.
, vol.251
, pp. 507-519
-
-
Welch, J.B.1
Walter, F.2
Lilley, D.M.J.3
-
14
-
-
0030788419
-
Crossover isomer bias is the primary sequence-dependent property of immobilized Holliday junctions
-
Miick,S., Fee,R., Millar,D. and Chazin,W. (1997) Crossover isomer bias is the primary sequence-dependent property of immobilized Holliday junctions. Proc. Natl Acad. Sci. USA, 94, 9080-9084.
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 9080-9084
-
-
Miick, S.1
Fee, R.2
Millar, D.3
Chazin, W.4
-
15
-
-
0003918621
-
Conformational aspects of branched DNA
-
PhD Thesis, University of Leiden, The Netherlands
-
Overmars,F.J. (1997) Conformational aspects of branched DNA. PhD Thesis, University of Leiden, The Netherlands.
-
(1997)
-
-
Overmars, F.J.1
-
16
-
-
0029962991
-
NMR studies of DNA three-way junctions containing two unpaired thymidine bases: The influence of the sequence at the junction on the stability of the stacking conformers
-
Overmars,F.J., Pikkemaat,J.A., van den Elst,H., van Boom,J.H. and Altona,C. (1996) NMR studies of DNA three-way junctions containing two unpaired thymidine bases: the influence of the sequence at the junction on the stability of the stacking conformers. J. Mol. Biol., 255, 702-713.
-
(1996)
J. Mol. Biol.
, vol.255
, pp. 702-713
-
-
Overmars, F.J.1
Pikkemaat, J.A.2
van den Elst, H.3
van Boom, J.H.4
Altona, C.5
-
17
-
-
0030575840
-
Classification of nucleic acid junctions
-
Altona,C. (1996) Classification of nucleic acid junctions. J. Mol. Biol., 263, 568-581.
-
(1996)
J. Mol. Biol.
, vol.263
, pp. 568-581
-
-
Altona, C.1
-
18
-
-
0025695960
-
Asymmetric structure of a three-arm DNA junctions
-
Guo,Q., Lu,M., Churchill,M., Tullius,T. and Kallenbach,N. (1990) Asymmetric structure of a three-arm DNA junctions. Biochemistry, 29, 10927-10934.
-
(1990)
Biochemistry
, vol.29
, pp. 10927-10934
-
-
Guo, Q.1
Lu, M.2
Churchill, M.3
Tullius, T.4
Kallenbach, N.5
-
19
-
-
0025862101
-
Effect of sequence on the structure of three-arm DNA junctions
-
Lu,M., Guo,Q. and Kallenbach,N. (1991) Effect of sequence on the structure of three-arm DNA junctions. Biochemistry, 30, 5815-5820.
-
(1991)
Biochemistry
, vol.30
, pp. 5815-5820
-
-
Lu, M.1
Guo, Q.2
Kallenbach, N.3
-
20
-
-
0028206007
-
Effect of unpaired bases on the conformation and stability of three-arm DNA junctions
-
Zhong,M., Rashes,M., Leontis,N. and Kallenbach,N. (1994) Effect of unpaired bases on the conformation and stability of three-arm DNA junctions. Biochemistry, 33, 3660-3667.
-
(1994)
Biochemistry
, vol.33
, pp. 3660-3667
-
-
Zhong, M.1
Rashes, M.2
Leontis, N.3
Kallenbach, N.4
-
21
-
-
0035104690
-
The electrophoretic mobility of DNA three-way junctions is affected by the sequence of overhanging single-stranded ends
-
Assenberg,R. and Fox,K.R. (2001) The electrophoretic mobility of DNA three-way junctions is affected by the sequence of overhanging single-stranded ends. Electrophoresis, 22, 413-417.
-
(2001)
Electrophoresis
, vol.22
, pp. 413-417
-
-
Assenberg, R.1
Fox, K.R.2
-
22
-
-
0027284217
-
Structural features of a three-stranded DNA junction containing a C-C junctional bulge
-
Rosen,M.A. and Patel,D.J. (1993) Structural features of a three-stranded DNA junction containing a C-C junctional bulge. Biochemistry, 32, 6576-6587.
-
(1993)
Biochemistry
, vol.32
, pp. 6576-6587
-
-
Rosen, M.A.1
Patel, D.J.2
-
23
-
-
0028815259
-
Helical stacking in DNA three-way junctions containing two unpaired pyrimidines: Proton NMR studies
-
Leontis,N.B., Hills,M.T., Piotto,M., Ouporov,I.V., Malhotra,A. and Gorenstein,D.G. (1995) Helical stacking in DNA three-way junctions containing two unpaired pyrimidines: proton NMR studies. Biophys. J., 68, 251-265.
-
(1995)
Biophys. J.
, vol.68
, pp. 251-265
-
-
Leontis, N.B.1
Hills, M.T.2
Piotto, M.3
Ouporov, I.V.4
Malhotra, A.5
Gorenstein, D.G.6
-
24
-
-
0032819496
-
Hybrid-hybrid matrix structural refinement of a DNA three-way junction from 3D NOESY-NOESY
-
Thiviyanathan,V., Luxon,B.A., Leontis,N.B., Illangasekare,N., Donne,D.G. and Gorenstein,D.G. (1999) Hybrid-hybrid matrix structural refinement of a DNA three-way junction from 3D NOESY-NOESY. J. Biomol. NMR, 14, 209-221.
-
(1999)
J. Biomol. NMR
, vol.14
, pp. 209-221
-
-
Thiviyanathan, V.1
Luxon, B.A.2
Leontis, N.B.3
Illangasekare, N.4
Donne, D.G.5
Gorenstein, D.G.6
-
25
-
-
0034388126
-
Solution structure of a DNA three-way junction containing two unpaired thymidine bases. Identification of sequence features that decide conformer selection
-
Van Buuren,B.N.M., Overmars,F.J.J., Ippel,J.H., Altona,C. and Wijmenga,S.S. (2000) Solution structure of a DNA three-way junction containing two unpaired thymidine bases. Identification of sequence features that decide conformer selection. J. Mol. Biol., 304, 371-383.
-
(2000)
J. Mol. Biol.
, vol.304
, pp. 371-383
-
-
Van Buuren, B.N.M.1
Overmars, F.J.J.2
Ippel, J.H.3
Altona, C.4
Wijmenga, S.S.5
-
26
-
-
0023551842
-
Gel electrophoretic analysis of the geometry of a DNA four-way junction
-
Cooper,J.P. and Hagerman,P.J. (1987) Gel electrophoretic analysis of the geometry of a DNA four-way junction. J. Mol. Biol., 198, 711-719.
-
(1987)
J. Mol. Biol.
, vol.198
, pp. 711-719
-
-
Cooper, J.P.1
Hagerman, P.J.2
-
27
-
-
0027227406
-
Conformational differences between bulged pyrimidines (C-C) and purines (A-A, I-I) at the branch point of three-stranded DNA junctions
-
Rosen,M.A. and Patel,D.J. (1993) Conformational differences between bulged pyrimidines (C-C) and purines (A-A, I-I) at the branch point of three-stranded DNA junctions. Biochemistry, 32, 6563-6575.
-
(1993)
Biochemistry
, vol.32
, pp. 6563-6575
-
-
Rosen, M.A.1
Patel, D.J.2
-
28
-
-
0037079686
-
Brownian-dynamics simulations of metal-ion binding to four-way junctions
-
Van Buuren,B.N.M., Hermann,T., Wijmenga,S.S. and Westhof, E. (2002) Brownian-dynamics simulations of metal-ion binding to four-way junctions. Nucleic Acids Res., 30, 507-514.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 507-514
-
-
Van Buuren, B.N.M.1
Hermann, T.2
Wijmenga, S.S.3
Westhof, E.4
-
29
-
-
0025248057
-
The three-way DNA junction is a Y-shaped molecule in which there is no helix-helix stacking
-
Duckett,D.R. and Lilley,D.M. (1990) The three-way DNA junction is a Y-shaped molecule in which there is no helix-helix stacking. EMBO J., 9, 1659-1664.
-
(1990)
EMBO J.
, vol.9
, pp. 1659-1664
-
-
Duckett, D.R.1
Lilley, D.M.2
-
30
-
-
0035826822
-
Dissection of the ion-induced folding of the hammerhead ribozyme using 19F NMR
-
Hammann,C., Norman,D.G. and Lilley,D.M.J. (2001) Dissection of the ion-induced folding of the hammerhead ribozyme using 19F NMR. Proc. Natl Acad. Sci. USA, 98, 5503-5508.
-
(2001)
Proc. Natl Acad. Sci. USA
, vol.98
, pp. 5503-5508
-
-
Hammann, C.1
Norman, D.G.2
Lilley, D.M.J.3
-
31
-
-
0032530335
-
A pseudosquare knot structure of DNA in solution
-
Ulyanov,N.B., Ivanov,V.I., Minyat,E.E., Khomyakova,E.B., Petrova,M.V., Lesiak,K. and James,T.L. (1998) A pseudosquare knot structure of DNA in solution. Biochemistry, 37, 12715-12726.
-
(1998)
Biochemistry
, vol.37
, pp. 12715-12726
-
-
Ulyanov, N.B.1
Ivanov, V.I.2
Minyat, E.E.3
Khomyakova, E.B.4
Petrova, M.V.5
Lesiak, K.6
James, T.L.7
-
32
-
-
0030950350
-
The isomeric preference of Holliday junctions influences resolution bias by λ integrase
-
Azaro,M.A. and Landy,A. (1997) The isomeric preference of Holliday junctions influences resolution bias by λ integrase. EMBO J., 16, 3744-3755.
-
(1997)
EMBO J.
, vol.16
, pp. 3744-3755
-
-
Azaro, M.A.1
Landy, A.2
-
33
-
-
0000347599
-
Helix structure and molecular recognition by B-DNA
-
Neidle,S. (ed.), Oxford University Press, Oxford
-
Dickerson,R. (1999) Helix structure and molecular recognition by B-DNA. In Neidle,S. (ed.), Oxford Handbook of Nucleic Acid Structure. Oxford University Press, Oxford, pp. 145-197.
-
(1999)
Oxford Handbook of Nucleic Acid Structure
, pp. 145-197
-
-
Dickerson, R.1
-
34
-
-
3142518260
-
Conformational characteristics of DNA: Empirical classifications and a hypothesis for the conformational behaviour of dinucleotide steps
-
El Hassan,M.A. and Calladine,C.R. (1997) Conformational characteristics of DNA: empirical classifications and a hypothesis for the conformational behaviour of dinucleotide steps. Philos. Trans. R. Soc. Lond. A, 355, 43-100.
-
(1997)
Philos. Trans. R. Soc. Lond. A
, vol.355
, pp. 43-100
-
-
El Hassan, M.A.1
Calladine, C.R.2
-
35
-
-
0034614483
-
Sequence-dependent DNA structure: Dinucleotide conformational maps
-
Packer,M.J., Dauncey,M.P. and Hunter,C.A. (2000) Sequence-dependent DNA structure: dinucleotide conformational maps. J. Mol. Biol., 295, 71-83.
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 71-83
-
-
Packer, M.J.1
Dauncey, M.P.2
Hunter, C.A.3
-
36
-
-
0020385863
-
Mechanics of sequence-dependent stacking of bases in B-DNA
-
Calladine,C.R. (1982) Mechanics of sequence-dependent stacking of bases in B-DNA. J. Mol. Biol., 161, 343-352.
-
(1982)
J. Mol. Biol.
, vol.161
, pp. 343-352
-
-
Calladine, C.R.1
-
37
-
-
0027318463
-
Sequence-dependent DNA structure: The role of base stacking interactions
-
Hunter,C. (1993) Sequence-dependent DNA structure: the role of base stacking interactions. J. Mol. Biol., 230, 1025-1054.
-
(1993)
J. Mol. Biol.
, vol.230
, pp. 1025-1054
-
-
Hunter, C.1
-
38
-
-
0030003963
-
Propeller-twisting of base-pairs and the conformational mobility of dinucleotide steps in DNA
-
El Hassan,M.A. and Calladine,C.R. (1996) Propeller-twisting of base-pairs and the conformational mobility of dinucleotide steps in DNA. J. Mol. Biol., 259, 95-103.
-
(1996)
J. Mol. Biol.
, vol.259
, pp. 95-103
-
-
El Hassan, M.A.1
Calladine, C.R.2
-
39
-
-
0031556948
-
DNA base-stacking interactions: A comparison of theoretical calculations with oligonucleotide X-ray crystal structures
-
Hunter,C. and Lu,X. (1997) DNA base-stacking interactions: a comparison of theoretical calculations with oligonucleotide X-ray crystal structures. J. Mol. Biol., 265, 603-619.
-
(1997)
J. Mol. Biol.
, vol.265
, pp. 603-619
-
-
Hunter, C.1
Lu, X.2
-
40
-
-
0034614487
-
Sequence-dependent DNA structure: Tetranucleotide conformational maps
-
Packer,M.J., Dauncey,M.P. and Hunter,C.A. (2000) Sequence-dependent DNA structure: tetranucleotide conformational maps. J. Mol. Biol., 295, 85-103.
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 85-103
-
-
Packer, M.J.1
Dauncey, M.P.2
Hunter, C.A.3
-
41
-
-
0025266027
-
The stereochemistry of a four-way DNA junction: A theoretical study
-
Von Kitzing,E., Lilley,D.M.J. and Diekmann,S. (1990) The stereochemistry of a four-way DNA junction: a theoretical study. Nucleic Acids Res., 18, 2671-2683.
-
(1990)
Nucleic Acids Res.
, vol.18
, pp. 2671-2683
-
-
Von Kitzing, E.1
Lilley, D.M.J.2
Diekmann, S.3
-
42
-
-
0026059567
-
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
-
Privé,G.G., Yanagi,K. and Dickerson,R.E. (1991) 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. J. Mol. Biol., 217, 177-199.
-
(1991)
J. Mol. Biol.
, vol.217
, pp. 177-199
-
-
Privé, G.G.1
Yanagi, K.2
Dickerson, R.E.3
-
43
-
-
0035800570
-
NMR evidence for mechanical coupling of phosphate BI-BII transitions with deoxyribose conformational exchange in DNA
-
Isaacs,R.J. and Spielmann,H.P. (2001) NMR evidence for mechanical coupling of phosphate BI-BII transitions with deoxyribose conformational exchange in DNA. J. Mol. Biol., 311, 149-160.
-
(2001)
J. Mol. Biol.
, vol.311
, pp. 149-160
-
-
Isaacs, R.J.1
Spielmann, H.P.2
-
44
-
-
0028304612
-
Structure of 4-way DNA junctions containing a nick in one strand
-
Pöhler,J.R.G., Duckett,D.R. and Lilley,D.M.J. (1994) Structure of 4-way DNA junctions containing a nick in one strand. J. Mol. Biol., 238, 62-74.
-
(1994)
J. Mol. Biol.
, vol.238
, pp. 62-74
-
-
Pöhler, J.R.G.1
Duckett, D.R.2
Lilley, D.M.J.3
-
45
-
-
0031592939
-
NMR study of the exchange rate between two stacked conformers of a model Holliday junction
-
Overmars,F.J. and Altona,C. (1997) NMR study of the exchange rate between two stacked conformers of a model Holliday junction. J. Mol. Biol., 273, 519-524.
-
(1997)
J. Mol. Biol.
, vol.273
, pp. 519-524
-
-
Overmars, F.J.1
Altona, C.2
|