Highly prevalent putative quadruplex sequence motifs in human DNA

被引：808

作者：

Todd, AK ^{[1
]}

Johnston, M ^{[1
]}

Neidle, S ^{[1
]}

机构：

[1] Univ London, Sch Pharm, CRUK Biomol Struct Grp, London WC1N 1AX, England

来源：

NUCLEIC ACIDS RESEARCH | 2005年 / 33卷 / 09期

关键词：

D O I：

10.1093/nar/gki553

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We report here the results of a systematic search for the existence and prevalence of potential intramolecular G-quadruplex forming sequences in the human genome. We have also examined the tendency for particular sequences of 'loop' regions to occur in particular positions with respect to the G-tracts in a quadruplex. Using arithmetic ratio and probability techniques we have discovered frequent and systematic occurrence of certain sequence types, the most prominent being a potential quadruplex containing CCTGT in the first 'loop' position. Being able to highlight types of potential quadruplex sequences in G- rich regions is an important step in searching for biologically relevant sequences and finding their function.

引用

页码：2901 / 2907

页数：7

共 34 条

[1] An overview of ensembl [J].

Birney, E ;

Andrews, TD ;

Bevan, P ;

Caccamo, M ;

Chen, Y ;

Clarke, L ;

Coates, G ;

Cuff, J ;

Curwen, V ;

Cutts, T ;

Down, T ;

Eyras, E ;

Fernandez-Suarez, XM ;

Gane, P ;

Gibbins, B ;

Gilbert, J ;

Hammond, M ;

Hotz, HR ;

Iyer, V ;

Jekosch, K ;

Kahari, A ;

Kasprzyk, A ;

Keefe, D ;

Keenan, S ;

Lehvaslaiho, H ;

McVicker, G ;

Melsopp, C ;

Meidl, P ;

Mongin, E ;

Pettett, R ;

Potter, S ;

Proctor, G ;

Rae, M ;

Searle, S ;

Slater, G ;

Smedley, D ;

Smith, J ;

Spooner, W ;

Stabenau, A ;

Stalker, J ;

Storey, R ;

Ureta-Vidal, A ;

Woodwark, KC ;

Cameron, G ;

Durbin, R ;

Cox, A ;

Hubbard, T ;

Clamp, M .

GENOME RESEARCH, 2004, 14 (05) :925-928

[2] Small change in a G-rich sequence, a dramatic change in topology: New dimeric G-quadruplex folding motif with unique loop orientations [J].

Crnugelj, M ;

Sket, P ;

Plavec, J .

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2003, 125 (26) :7866-7871

[3]

D'Antonio L, 2004, 2004 IEEE COMPUTATIONAL SYSTEMS BIOINFORMATICS CONFERENCE, PROCEEDINGS, P590

[4] Biophysical and biological properties of quadruplex oligodeoxyribonucleotides [J].

Dapic, V ;

Abdomerovic, V ;

Marrington, R ;

Peberdy, J ;

Rodger, A ;

Trent, JO ;

Bates, PJ .

NUCLEIC ACIDS RESEARCH, 2003, 31 (08) :2097-2107

[5] G-quartets 40 years later:: From 5′-GMP to molecular biology and supramolecular chemistry [J].

Davis, JT .

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 2004, 43 (06) :668-698

[6]

Grimmett G., 1986, Probability: An Introduction

[7] Crystal structure of the potassium form of an Oxytricha nova G-quadruplex [J].

Haider, S ;

Parkinson, GN ;

Neidle, S .

JOURNAL OF MOLECULAR BIOLOGY, 2002, 320 (02) :189-200

[8] Loop-length-dependent folding of G-quadruplexes [J].

Hazel, P ;

Huppert, J ;

Balasubramanian, S ;

Neidle, S .

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2004, 126 (50) :16405-16415

[9] Prevalence of quadruplexes in the human genome [J].

Huppert, JL ;

Balasubramanian, S .

NUCLEIC ACIDS RESEARCH, 2005, 33 (09) :2908-2916

[10] G-quadruplex DNA as a target for drug design [J].

Kerwin, SM .

CURRENT PHARMACEUTICAL DESIGN, 2000, 6 (04) :441-471

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