Solution structure of the oxytricha telomeric repeat d[G4(T4G4)3] G-tetraplex Journal Article


Authors: Wang, Y.; Patel, D. J.
Article Title: Solution structure of the oxytricha telomeric repeat d[G4(T4G4)3] G-tetraplex
Abstract: The solution structure ofOxytrichatelomere sequence d[G4(T4G4)3] in 0.1 M Na+containing solution has been determined using a combined NMR-molecular dynamics approach including relaxation matrix refinement. This four G4repeat sequence folds intramolecularly into a right-handed G-tetraplex containing four stacked G-tetrads which are connected by two lateral T4loops and a central diagonal T4loop. The guanine glycosidic bonds adopt asyn-antialternation along the full length of the d[G4(T4G4)3] sequence while the orientation around adjacent G-tetrads switches betweensynsynantiantiandantiantisynsynalignments. Four distinct grooves are formed by the parallel (two of medium width) and anti-parallel (one wide and one narrow width) alignment of adjacent G-G-G-G segments in the G-tetraplex. The T4residues in the diagonal loop are well-defined while the T4residues in both lateral loops are under-defined and sample multiple conformations. The solution structure of the Na+-stabilizedOxytrichad[G4(T4G4)3] G-tetraplex and an earlier solution structure reported from our laboratory on the Na+-stabilized human d[AG3(T2AG3)3] G-tetraplex exhibit a common folding topology defined by the samesyn/antidistribution of guanine residues along individual strands and around individual G-tetrads, as well as a common central diagonal loop which defines the strand directionalities. The well-resolved proton NMR spectra associated with the d[G4(T4G4)3] G-tetraplex opens the opportunity for studies ranging from cation-dependent characterization of G-tetraplex conformation and hydration to ligand and protein recognition of the distinct grooves associated with this folding topology.f2 f2 Abbreviations used: NOE, nuclear Overhauser enhancement, NOESY, NOE spectroscopy; r.m.s.d, rot-mean-square deviation; MMDG, metric matric distance geometry; SA, simulated annealing; MD, molecular dynamics. © 1995 Academic Press Limited.
Keywords: nonhuman; comparative study; chromosome structure; telomere; animal; protein; dna; molecular sequence data; guanine; molecular recognition; magnetic resonance spectroscopy; models, molecular; protons; solutions; nucleic acid conformation; sodium; hydration; nuclear magnetic resonance; repetitive sequences, nucleic acid; glycoside; tandem repeat; sodium ion; inosine; priority journal; article; support, u.s. gov't, p.h.s.; solution structure; oxytricha; g-tetrad alignments; g-tetraplex folding topology; oxytrichatelomeric repeat; syn/antiguanine residues; ciliate
Journal Title: Journal of Molecular Biology
Volume: 251
Issue: 1
ISSN: 0022-2836
Publisher: Academic Press Inc., Elsevier Science  
Date Published: 1995-08-04
Start Page: 76
End Page: 94
Language: English
DOI: 10.1006/jmbi.1995.0417
PUBMED: 7643391
PROVIDER: scopus
DOI/URL:
Notes: Article -- Export Date: 28 August 2018 -- Source: Scopus
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  1. Dinshaw J Patel
    478 Patel