Nucleic Acid Structure

  • United Kingdom

Research Output 1995 2019

2010
7 Citations (Scopus)

The interaction of four-way DNA junctions with resolving enzymes

Lilley, D. M. J., Apr 2010, In : Biochemical Society Transactions. 38, p. 399-403 5 p.

Research output: Contribution to journalArticle

2009
26 Citations (Scopus)

Biochemistry: The evolution of ribozyme chemistry

Wilson, T. J. & Lilley, D. M. J., 13 Mar 2009, In : Science. 323, 5920, p. 1436-1438 3 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Comparative gel electrophoresis analysis of helical junctions in RNA

Lilley, D. M. J., 2009, Biophysical, chemical, and functional probes of RNA structure, interactions and folding : Part B. Herschlag, D. (ed.). San Diego: Academic Press, p. 143-157 15 p. (Methods in Enzymology; vol. 469).

Research output: Chapter in Book/Report/Conference proceedingOther chapter contribution

227 Citations (Scopus)

Coordination of Structure-Specific Nucleases by Human SLX4/BTBD12 Is Required for DNA Repair

Munoz, I. M., Hain, K., Declais, A-C., Gardiner, M., Toh, G. W., Sanchez-Pulido, L., Heuckmann, J. M., Toth, R., Macartney, T., Eppink, B., Kanaar, R., Ponting, C. P., Lilley, D. M. J. & Rouse, J., 10 Jul 2009, In : Molecular Cell. 35, 1, p. 116-127 12 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Formation of an active site in trans by interaction of two complete Varkud Satellite ribozymes

Ouellet, J., Byrne, M. & Lilley, D. M. J., Oct 2009, In : RNA: a Publication of the RNA Society. 15, 10, p. 1822-1826 5 p.

Research output: Contribution to journalArticle

Four-Way Helical Junctions in DNA Molecules

Lilley, D. M. J., 2009, Mathematics of DNA Structure, Function and Interactions. Benham, C. J., Harvey, S., Olson, W. K., Sumners, D. W. & Swigon, D. (eds.). NEW YORK: Springer , Vol. 150. p. 213-224 12 p. (IMA Volumes in Mathematics and its Applications; vol. 150).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

22 Citations (Scopus)

Ion-induced folding of a kink turn that departs from the conventional sequence

Schroeder, K. T. & Lilley, D. M. J., Nov 2009, In : Nucleic Acids Research. 37, 21, p. 7281-7289 9 p.

Research output: Contribution to journalArticle

24 Citations (Scopus)

Long distance PELDOR measurements on the histone core particle

Ward, R., Bowman, A., El-Mkami, H., Owen-Hughes, T. & Norman, D. G., 4 Feb 2009, In : Journal of the American Chemical Society. 131, 4, p. 1348-+ 3 p.

Research output: Contribution to journalArticle

95 Citations (Scopus)
245 Downloads (Pure)

Quantitative analysis of chromatin compaction in living cells using FLIM-FRET

Lleres, D., James, J., Swift, S., Norman, D. G. & Lamond, A. I., 16 Nov 2009, In : Journal of Cell Biology. 187, 4, p. 481-496 16 p.

Research output: Contribution to journalArticle

Open Access
File
23 Citations (Scopus)

Synthesis of Novel C4-Linked C-2-Imidazole Ribonucleoside Phosphoramidite and Its Application to Probing the Catalytic Mechanism of a Ribozyme

Araki, L., Morita, K., Yamaguchi, M., Zhao, Z-Y., Wilson, T. J., Lilley, D. M. J. & Harusawa, S., 20 Mar 2009, In : Journal of Organic Chemistry. 74, 6, p. 2350-2356 7 p.

Research output: Contribution to journalArticle

43 Citations (Scopus)

The Orientation of a Tandem POTRA Domain Pair, of the Beta-Barrel Assembly Protein BamA, Determined by PELDOR Spectroscopy

Ward, R., Zoltner, M., Beer, L., El Mkami, H., Henderson, I. R., Palmer, T. & Norman, D. G., 9 Sep 2009, In : Structure. 17, 9, p. 1187-1194 8 p.

Research output: Contribution to journalArticle

13 Citations (Scopus)

The structure and folding of branched RNA analyzed by fluorescence resonance energy transfer

Lilley, D. M. J., 2009, Biophysical, chemical, and functional probes of RNA structure, interactions and folding : Part B. Herschlag, D. (ed.). San Diego: Academic Press, p. 159-187 29 p. (Methods in Enzymology; vol. 469).

Research output: Chapter in Book/Report/Conference proceedingOther chapter contribution

75 Citations (Scopus)

TRF2 promotes, remodels and protects telomeric Holliday junctions

Poulet, A., Buisson, R., Faivre-Moskalenko, C., Koelblen, M., Amiard, S., Montel, F., Cuesta-Lopez, S., Bornet, O., Guerlesquin, F., Godet, T., Moukhtar, J., Argoul, F., Declais, A-C., Lilley, D. M. J., Ip, S. C. Y., West, S. C., Gilson, E. & Giraud-Panis, M-J., 18 Mar 2009, In : EMBO Journal. 28, 6, p. 641-651 11 p.

Research output: Contribution to journalArticle

2008
20 Citations (Scopus)

Analysis of branched nucleic acid structure using comparative gel electrophoresis

Lilley, D. M. J., Feb 2008, In : Quarterly Reviews of Biophysics. 41, 1, p. 139 39 p.

Research output: Contribution to journalReview article

DNA revisited

Lilley, D. M. J., Dec 2008, In : Nature Chemical Biology. 4, 12, p. 725-726 2 p.

Research output: Contribution to journalComment/debate

61 Citations (Scopus)
228 Citations (Scopus)
62 Citations (Scopus)

The complete VS ribozyme in solution studied by small-angle X-ray scattering

Lipfert, J., Ouellet, J., Norman, D. G., Doniach, S. & Lilley, D. M. J., 10 Sep 2008, In : Structure. 16, 9, p. 1357-1367 11 p.

Research output: Contribution to journalArticle

33 Citations (Scopus)
76 Citations (Scopus)

The structure of cyanine 5 terminally attached to double-stranded DNA: Implications for FRET studies

Iqbal, A., Wang, L., Thompson, K. C., Lilley, D. M. J. & Norman, D. G., 29 Jul 2008, In : Biochemistry. 47, 30, p. 7857-7862 6 p.

Research output: Contribution to journalArticle

2007
11 Citations (Scopus)

A chemo-genetic approach for the study of nucleobase participation in nucleolytic ribozymes

Lilley, D. M. J., Jul 2007, In : Biological Chemistry. 388, 7, p. 699-704 6 p.

Research output: Contribution to journalArticle

Catalytic RNA
Ligation
Catalysis
Acids
Nucleosides
65 Citations (Scopus)

A guanine nucleobase important for catalysis by the VS ribozyme

Wilson, T. J., McLeod, A. C. & Lilley, D. M. J., 16 May 2007, In : EMBO Journal. 26, 10, p. 2489-2500 12 p.

Research output: Contribution to journalArticle

Catalytic RNA
Guanine
Catalysis
Substrates
Acids
30 Citations (Scopus)

Distance determination in heterogeneous DNA model systems by pulsed EPR

Ward, R., Keeble, D. J., El-Mkami, H. & Norman, D. G., Nov 2007, In : ChemBioChem. 8, 16, p. 1957-1964 8 p.

Research output: Contribution to journalArticle

Paramagnetic resonance
Spin Labels
DNA
Electron Spin Resonance Spectroscopy
Deconvolution
26 Citations (Scopus)

Micro-magnetic resonance imaging of avian embryos

Li, X., Liu, J., Davey, M., Duce, S., Jaberi, N., Liu, G., Davidson, G., Tenent, S., Mahood, R., Brown, P., Cunningham, C., Bain, A., Beattie, K., McDonald, L., Schmidt, K., Towers, M., Tickle, C. & Chudek, S., Dec 2007, In : Journal of Anatomy. 211, 6, p. 798-809 12 p.

Research output: Contribution to journalArticle

magnetic resonance imaging
embryo
embryo (animal)
Quail
Embryonic Structures
18 Citations (Scopus)

RNA folding and the origins of catalytic activity in the hairpin ribozyme

Wilson, T. J., Nahas, M., Araki, L., Harusawa, S., Ha, T. & Lilley, D. M. J., 2007, In : Blood Cells, Molecules and Diseases. 38, 1, p. 8-14 7 p.

Research output: Contribution to journalArticle

RNA Folding
Ligation
Catalytic RNA
Catalysis
Ribonucleosides
47 Citations (Scopus)
Hydroxyl Radical
Hydrogen
RNA
Fluorescence Resonance Energy Transfer
Ribose
58 Citations (Scopus)

The structural basis of Holliday junction resolution by T7 endonuclease I.

Hadden, J. M., Déclais, AC., Carr, S. B., Lilley, D. M. J. & Phillips, SE., 16 Sep 2007, In : Nature. 449, 7162, p. 621-624

Research output: Contribution to journalArticle

Cruciform DNA
Deoxyribonuclease I
Enzymes
DNA
Bacteriophage T7
2006
12 Citations (Scopus)

Mechanistic aspects of the DNA junction-resolving enzyme T7 endonuclease I.

Liu, J., Déclais, A-C. & Lilley, D. M. J., Mar 2006, In : Biochemistry. 45, 12, p. 3934-3942

Research output: Contribution to journalArticle

Deoxyribonuclease I
Hydrolysis
Catalytic Domain
DNA
Enzymes
18 Citations (Scopus)

Structural recognition between a four-way DNA junction and a resolving enzyme.

Déclais, A-C., Liu, J., Freeman, A. D. & Lilley, D. . J. M., Jun 2006, In : Journal of Molecular Biology. 359, 5, p. 1261-1276

Research output: Contribution to journalArticle

Deoxyribonuclease I
DNA
Enzymes
Static Electricity
Base Pairing
2005
48 Citations (Scopus)

Nucleobase participation in ribozyme catalysis

Zhao, Z., McLeod, A., Harusawa, S., Araki, L., Yamaguchi, M., Kurihara, T. & Lilley, D. M. J., 2005, In : Journal of the American Chemical Society. 127, 14, p. 5026-5027 2 p.

Research output: Contribution to journalArticle

Catalytic RNA
Catalysis
Adenine
Ligation
imidazole
13 Citations (Scopus)

Stereospecific effects determine the structure of a four-way DNA junction

Liu, J., Déclais, A-C., McKinney, S. A., Ha, T., Norman, D. G. & Lilley, D. M. J., 2005, In : Chemistry & Biology. 12, 2, p. 217-228 12 p.

Research output: Contribution to journalArticle

Organophosphonates
Conformations
Phosphates
Oxygen
Stereochemistry
5 Citations (Scopus)

Synthesis of an IGD peptidomimetic with motogenic activity

Shpiro, N., Ellis, I. R., Dines, T. J., Schor, A. M., Schor, S. L., Norman, D. G. & Marquez, R., 2005, In : Molecular BioSystems. 1, 4, p. 318-320 3 p.

Research output: Contribution to journalArticle

Peptidomimetics
2004
551 Citations (Scopus)
122 Downloads (Pure)

CBS domains form energy-sensing modules whose binding of adenosine ligands is disrupted by disease mutations

Scott, J. W., Hawley, S. A., Green, K. A., Anis, M., Stewart, G., Scullion, G. A., Norman, D. G. & Hardie, D. G., 2004, In : Journal of Clinical Investigation. 113, 2, p. 274-284 11 p.

Research output: Contribution to journalArticle

Open Access
File
AMP-Activated Protein Kinases
IMP Dehydrogenase
Cystathionine
Adenosine
Inborn Genetic Diseases
15 Citations (Scopus)
Organophosphonates
Static Electricity
Phosphates
DNA
Ions
8 Citations (Scopus)

The chirality of a four-way helical junction in RNA

Goody, T. A., Lilley, D. M. J. & Norman, D. G., Mar 2004, In : Journal of the American Chemical Society. 126, 13, p. 4126-4127 2 p.

Research output: Contribution to journalArticle

Catalytic RNA
Chirality
RNA
Functional Laterality
Experiments
2003
9 Citations (Scopus)
Deoxyribonuclease I
Catalytic Domain
Metals
Ions
DNA
235 Citations (Scopus)

Structural dynamics of individual Holliday junctions.

McKinney, S. A., Déclais, A. C., Lilley, D. M. & Ha, T., Feb 2003, In : Nature Structural and Molecular Biology. 10, 2, p. 94-97

Research output: Contribution to journalArticle

Cruciform DNA
Genetic Recombination
Fluorescence
36 Citations (Scopus)

The complex between a four-way DNA junction and T7 endonuclease I.

Déclais, A. C., Fogg, JM., Freeman, A. D., Coste, F., Hadden, J. M., Phillips, S. E. V. & Lilley, D. M., Mar 2003, In : EMBO Journal. 22, 6, p. 1398-1409

Research output: Contribution to journalArticle

Deoxyribonuclease I
DNA
Enzymes
Cruciform DNA
Hydroxyl Radical
2002
49 Citations (Scopus)

Metal ions bound at the active site of the junction-resolving enzyme T7 endonuclease I

Hadden, J. M., Declais, A-C., Phillips, S. E. V. & Lilley, D. M. J., 2002, In : The EMBO Journal. 21, 13, p. 3505-3515 11 p.

Research output: Contribution to journalArticle

Deoxyribonuclease I
Metal ions
Catalytic Domain
Manganese
Metals
73 Citations (Scopus)

The global structure of the VS ribozyme

Lafontaine, D. A., Norman, D. G. & Lilley, D. M. J., 2002, In : EMBO Journal. 21, 10, p. 2461-2471 11 p.

Research output: Contribution to journalArticle

Catalytic RNA
Dihedral angle
Substrates
Electrophoresis
Catalytic Domain
2001
5 Citations (Scopus)

Analyzing reverse gyrase activity.

Duguet, M., Jaxel, C., Déclais, A-C., Confalonieri, F., Marsault, J., Bouthier, C. D. L. T., Nadal, M. & Portemer, C., 2001, DNA Topoisomerase Protocols. Osheroff, N. & Bjornsti, M. A. (eds.). Humana Press, Vol. 95. p. 35-49 (Methods in Molecular Biology; vol. 95).

Research output: Chapter in Book/Report/Conference proceedingChapter

75 Citations (Scopus)

Crystal structure of the Holliday junction resolving enzyme T7 endonuclease I.

Hadden, JM., Convery, MA., Déclais, AC., Lilley, DM. & Phillips, S. E. V., Jan 2001, In : Nature Structural and Molecular Biology. 8, 1, p. 62-67

Research output: Contribution to journalArticle

Cruciform DNA
Deoxyribonuclease I
Enzymes
Catalytic Domain
DNA Restriction Enzymes
61 Citations (Scopus)
dissection
folding
nuclear magnetic resonance
ions
websites
10 Citations (Scopus)

Reverse gyrases from bacteria and archaea.

Déclais, AC., de, L. T. CB. & Duguet, M., 2001, In : Methods in Enzymology. 334, p. 146-162

Research output: Contribution to journalArticle

68 Citations (Scopus)

Structure, folding and activity of the VS ribozyme: importance of the 2-3-6 helical junction

Lafontaine, D. A., Norman, D. G. & Lilley, D. M. J., 2001, In : The EMBO Journal. 20, 6, p. 1415-1424 10 p.

Research output: Contribution to journalArticle

Catalytic RNA
Substrates
Fluorescence Resonance Energy Transfer
Guanine
Conformations
26 Citations (Scopus)

The active site of the junction-resolving enzyme T7 endonuclease I.

Déclais, AC., Hadden, J., Phillips, S. E. V. & Lilley, D. M., Apr 2001, In : Journal of Molecular Biology. 307, 4, p. 1145-1158

Research output: Contribution to journalArticle

Deoxyribonuclease I
Catalytic Domain
Enzymes
Mutagenesis
Type II Site Specific Deoxyribonucleases
2000
43 Citations (Scopus)
2-Aminopurine
Base Pairing
Fluorescence
Potassium Permanganate
Thymine
54 Citations (Scopus)

Reverse gyrase, the two domains intimately cooperate to promote positive supercoiling.

Déclais, AC., Marsault, J., Confalonieri, F., de, L. T. CB. & Duguet, M., Jun 2000, In : Journal of Biological Chemistry. 275, 26, p. 19498-19504

Research output: Contribution to journalArticle

DNA
Type I DNA Topoisomerase
Adenosine Triphosphate
Peptides
Sulfolobus acidocaldarius
36 Citations (Scopus)

Yeast resolving enzyme CCE1 makes sequential cleavages in DNA junctions within the lifetime of the complex.

Fogg, JM., Schofield, MJ., Déclais, AC. & Lilley, DM., Apr 2000, In : Biochemistry. 39, 14, p. 4082-4089

Research output: Contribution to journalArticle

1997
574 Citations (Scopus)

3-Phosphoinositide-dependent protein kinase-1 (PDK1): structural and functional homology with the Drosophila DSTPK61 kinase

Alessi, D. R., Deak, M., Casamayor, A., Caudwell, F. B., Morrice, N., Norman, D. G., Gaffney, P., Reese, C. B., MacDougall, C. N., Harbison, D., Ashworth, A. & Bownes, M., 1997, In : Current Biology. 7, 10, p. 776-789 14 p.

Research output: Contribution to journalArticle

3-Phosphoinositide-Dependent Protein Kinases
protein kinases
Drosophila
phosphotransferases (kinases)
Phosphotransferases