Design, synthesis, and complementary recognition of β-hairpin peptides stabilized by artificial DNA base-pairing amino acids

2010 ◽  
Vol 46 (17) ◽  
pp. 2947 ◽  
Author(s):  
Katsuhiro Isozaki ◽  
Kazushi Miki
Keyword(s):  
Amino Acids ◽  
Base Pairing ◽  
Design Synthesis ◽  
Dna Base ◽  
Artificial Dna ◽  
Hairpin Peptides

scholarly journals Artificial DNA Base Pairing Mediated by Diverse Metal Ions

2017 ◽  
Vol 46 (5) ◽  
pp. 622-633 ◽  
Author(s):  
Yusuke Takezawa ◽  
Jens Müller ◽  
Mitsuhiko Shionoya
Keyword(s):  
Metal Ions ◽  
Base Pairing ◽  
Dna Base ◽  
Artificial Dna

Symmetry Selection in Artificial DNA Base Pairs

2007 ◽  
Vol 111 (19) ◽  
pp. 5357-5361 ◽  
Author(s):  
Radi A. Jishi ◽  
Joseph Bragin
Keyword(s):  
Base Pairs ◽  
Dna Base ◽  
Dna Base Pairs ◽  
Artificial Dna

scholarly journals Supercoiling and looping promote DNA base accessibility and coordination among distant sites

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Jonathan M. Fogg ◽  
Allison K. Judge ◽  
Erik Stricker ◽  
Hilda L. Chan ◽  
Lynn Zechiedrich
Keyword(s):  
Mechanical Stress ◽  
Genomic Instability ◽  
Base Pair ◽  
Base Pairing ◽  
Complex Interplay ◽  
Site Specific ◽  
Torsional Strain ◽  
Dna Base ◽  
Dna Backbone ◽  
Negative Supercoiling

AbstractDNA in cells is supercoiled and constrained into loops and this supercoiling and looping influence every aspect of DNA activity. We show here that negative supercoiling transmits mechanical stress along the DNA backbone to disrupt base pairing at specific distant sites. Cooperativity among distant sites localizes certain sequences to superhelical apices. Base pair disruption allows sharp bending at superhelical apices, which facilitates DNA writhing to relieve torsional strain. The coupling of these processes may help prevent extensive denaturation associated with genomic instability. Our results provide a model for how DNA can form short loops, which are required for many essential processes, and how cells may use DNA loops to position nicks to facilitate repair. Furthermore, our results reveal a complex interplay between site-specific disruptions to base pairing and the 3-D conformation of DNA, which influences how genomes are stored, replicated, transcribed, repaired, and many other aspects of DNA activity.

scholarly journals A Deep Dive into DNA Base Pairing Interactions Under Water

2020 ◽  
Vol 124 (27) ◽  
pp. 5559-5570
Author(s):  
Rongpeng Li ◽  
Chi H. Mak
Keyword(s):  
Base Pairing ◽  
Deep Dive ◽  
Dna Base ◽  
Pairing Interactions

Antiovulatory Potency and Conformation of an Antagonist of the Luteinizing Hormone-Releasing Hormone Having Six D-Amino Acids

1982 ◽  
Vol 37 (7) ◽  
pp. 872-876 ◽  
Author(s):  
Karl Folkers ◽  
Cyril Y. Bowers ◽  
Frank Momany ◽  
Klaus J. Friebel ◽  
Teresa Kubiak ◽  
...  
Keyword(s):  
Amino Acids ◽  
Luteinizing Hormone ◽  
Conformational Structure ◽  
Design Synthesis ◽  
Luteinizing Hormone Releasing Hormone ◽  
Energy Calculations ◽  
Releasing Hormone ◽  
Routes Of Administration ◽  
Antiovulatory Activity

Abstract [N-Ac-Thr 1 ,D-Phe 2,D-Trp 3,6]-LHRH was the model antagonist of LHRH, which was the basis for tho design, synthesis and bioassay of seven peptides having four, five and six D-amino acids, which resulted from three single, three double, and one triple introductions of D-amino acids in positions 4, 5 and 8 of the model. Only the analog with six D-amino acids, [N-Ac-Thr 1,D-Phe 2 ,D-Trp 3,D-Ser 4, D-Tyr 5 ,D-Trp 6 ,D-Arg 8]-LHRH, had antiovulatory activity which was higher than that of the model antagonist, i.e., 70% antiovulatory activity at 25 μg/rat compared with 50% activity at 50 μg/rat, respectively. Empirical energy calculations gave a conformational structure for [N-Ac-Thr 1,D-Phe 2,D-Trp 3, D-Ser 4,D-Tyr 5,D-Arg 6,D-Arg 8]-LHRH which is similar to that calculated for previous potent antagonists. These results are a basis of new designs of antagonists having D-sub-stituents in up to ten positions toward effective inhibitors of ovulation by the parenteral and oral routes of administration.

scholarly journals Creating the protein version of DNA base pairing

Science ◽  
2019 ◽  
Vol 366 (6468) ◽  
pp. 965.3-965
Author(s):  
Zibo Chen
Keyword(s):  
Base Pairing ◽  
Dna Base
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