Literature DB >> 21350476

Biophysics: Flipping Watson and Crick.

Barry Honig, Remo Rohs.   

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Year:  2011        PMID： 21350476     DOI： 10.1038/470472a

Source DB:  PubMed          Journal:  Nature        ISSN： 0028-0836            Impact factor:   49.962


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  10 in total

1.  A Hoogsteen base pair embedded in undistorted B-DNA.

Authors:  Jun Aishima; Rossitza K Gitti; Joyce E Noah; Hin Hark Gan; Tamar Schlick; Cynthia Wolberger
Journal:  Nucleic Acids Res       Date:  2002-12-01       Impact factor: 16.971

2.  Molecular structure of nucleic acids; a structure for deoxyribose nucleic acid.

Authors:  J D WATSON; F H CRICK
Journal:  Nature       Date:  1953-04-25       Impact factor: 49.962

Review 3.  Origins of specificity in protein-DNA recognition.

Authors:  Remo Rohs; Xiangshu Jin; Sean M West; Rohit Joshi; Barry Honig; Richard S Mann
Journal:  Annu Rev Biochem       Date:  2010       Impact factor: 23.643

Review 4.  Characterization of the dynamics of biomacromolecules using rotating-frame spin relaxation NMR spectroscopy.

Authors:  Arthur G Palmer; Francesca Massi
Journal:  Chem Rev       Date:  2006-05       Impact factor: 60.622

5.  Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs.

Authors:  Malka Kitayner; Haim Rozenberg; Remo Rohs; Oded Suad; Dov Rabinovich; Barry Honig; Zippora Shakked
Journal:  Nat Struct Mol Biol       Date:  2010-04-04       Impact factor: 15.369

6.  Crystal structure of the p53 core domain bound to a full consensus site as a self-assembled tetramer.

Authors:  Yongheng Chen; Raja Dey; Lin Chen
Journal:  Structure       Date:  2010-02-10       Impact factor: 5.006

7.  Replication by human DNA polymerase-iota occurs by Hoogsteen base-pairing.

Authors:  Deepak T Nair; Robert E Johnson; Satya Prakash; Louise Prakash; Aneel K Aggarwal
Journal:  Nature       Date:  2004-07-15       Impact factor: 49.962

8.  Local DNA topography correlates with functional noncoding regions of the human genome.

Authors:  Stephen C J Parker; Loren Hansen; Hatice Ozel Abaan; Thomas D Tullius; Elliott H Margulies
Journal:  Science       Date:  2009-03-12       Impact factor: 47.728

9.  Transient Hoogsteen base pairs in canonical duplex DNA.

Authors:  Evgenia N Nikolova; Eunae Kim; Abigail A Wise; Patrick J O'Brien; Ioan Andricioaei; Hashim M Al-Hashimi
Journal:  Nature       Date:  2011-01-26       Impact factor: 49.962

10.  The role of DNA shape in protein-DNA recognition.

Authors:  Remo Rohs; Sean M West; Alona Sosinsky; Peng Liu; Richard S Mann; Barry Honig
Journal:  Nature       Date:  2009-10-29       Impact factor: 49.962
  10 in total
  10 in total

1.  Widespread transient Hoogsteen base pairs in canonical duplex DNA with variable energetics.

Authors:  Heidi S Alvey; Federico L Gottardo; Evgenia N Nikolova; Hashim M Al-Hashimi
Journal:  Nat Commun       Date:  2014-09-04       Impact factor: 14.919

2.  1,8-Naphthyridine-2,7-diamine: a potential universal reader of Watson-Crick base pairs for DNA sequencing by electron tunneling.

Authors:  Feng Liang; Stuart Lindsay; Peiming Zhang
Journal:  Org Biomol Chem       Date:  2012-11-21       Impact factor: 3.876

3.  Thermodynamic properties of water molecules in the presence of cosolute depend on DNA structure: a study using grid inhomogeneous solvation theory.

Authors:  Miki Nakano; Hisae Tateishi-Karimata; Shigenori Tanaka; Florence Tama; Osamu Miyashita; Shu-Ichi Nakano; Naoki Sugimoto
Journal:  Nucleic Acids Res       Date:  2015-11-03       Impact factor: 16.971

4.  Dinucleotides as simple models of the base stacking-unstacking component of DNA 'breathing' mechanisms.

Authors:  Eric R Beyerle; Mohammadhasan Dinpajooh; Huiying Ji; Peter H von Hippel; Andrew H Marcus; Marina G Guenza
Journal:  Nucleic Acids Res       Date:  2021-02-26       Impact factor: 16.971

5.  Computational mapping reveals dramatic effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde.

Authors:  Tanggis Bohnuud; Dmitri Beglov; Chi Ho Ngan; Brandon Zerbe; David R Hall; Ryan Brenke; Sandor Vajda; Maxim D Frank-Kamenetskii; Dima Kozakov
Journal:  Nucleic Acids Res       Date:  2012-06-16       Impact factor: 16.971

6.  PhysBinder: Improving the prediction of transcription factor binding sites by flexible inclusion of biophysical properties.

Authors:  Stefan Broos; Arne Soete; Bart Hooghe; Raymond Moran; Frans van Roy; Pieter De Bleser
Journal:  Nucleic Acids Res       Date:  2013-04-24       Impact factor: 16.971

7.  Improved predictions of transcription factor binding sites using physicochemical features of DNA.

Authors:  Mark Maienschein-Cline; Aaron R Dinner; William S Hlavacek; Fangping Mu
Journal:  Nucleic Acids Res       Date:  2012-08-25       Impact factor: 16.971

8.  Protein Nano-Object Integrator (ProNOI) for generating atomic style objects for molecular modeling.

Authors:  Nicholas Smith; Brandon Campbell; Lin Li; Chuan Li; Emil Alexov
Journal:  BMC Struct Biol       Date:  2012-12-05

9.  Conformations of p53 response elements in solution deduced using site-directed spin labeling and Monte Carlo sampling.

Authors:  Xiaojun Zhang; Ana Carolina Dantas Machado; Yuan Ding; Yongheng Chen; Yan Lu; Yankun Duan; Kenneth W Tham; Lin Chen; Remo Rohs; Peter Z Qin
Journal:  Nucleic Acids Res       Date:  2013-11-30       Impact factor: 16.971

10.  Elucidating the evolutionary conserved DNA-binding specificities of WRKY transcription factors by molecular dynamics and in vitro binding assays.

Authors:  Luise H Brand; Nina M Fischer; Klaus Harter; Oliver Kohlbacher; Dierk Wanke
Journal:  Nucleic Acids Res       Date:  2013-08-23       Impact factor: 16.971
  10 in total

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