5OGA

Structure of minimal i-motif domain

Summary for 5OGA

• Entry DOI: 10.2210/pdb5oga/pdb
• NMR Information: BMRB: 34162
• Descriptor: DNA (5'-D(*TP*(DCP)P*GP*TP*TP*CP*(DCP)P*GP*TP*TP*TP*TP*TP*CP*GP*TP*TP*CP*CP*GP*T)-3') (1 entity in total)
• Functional Keywords: i-motif, dna non-canonical structure, minor groove tetrad, dna
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 6275.11

Authors

Mir, B.,Serrano, I.,Buitrago, D.,Orozco, M.,Escaja, N.,Gonzalez, C. (deposition date: 2017-07-12, release date: 2017-11-29, Last modification date: 2024-06-19)

Primary citation

Mir, B.,Serrano, I.,Buitrago, D.,Orozco, M.,Escaja, N.,Gonzalez, C.
Prevalent Sequences in the Human Genome Can Form Mini i-Motif Structures at Physiological pH.
J. Am. Chem. Soc., 139:13985-13988, 2017

PubMed Abstract: We report here the solution structure of several repetitive DNA sequences containing d(TCGTTCCGT) and related repeats. At physiological pH, these sequences fold into i-motif like quadruplexes in which every two repeats a globular structure is stabilized by two hemiprotonated C:C base pairs, flanked by two minor groove tetrads resulting from the association of G:C or G:T base pairs. The interaction between the minor groove tetrads and the nearby C:C base pairs affords a strong stabilization, which results in effective pH values above 7.5. Longer sequences with more than two repeats are able to fold in tandem, forming a rosary bead-like structure. Bioinformatics analysis shows that these sequences are prevalent in the human genome, and are present in development-related genes.

PubMed: 28933543
DOI: 10.1021/jacs.7b07383

Experimental method

SOLUTION NMR