Rapid assessment of Watson-Crick to Hoogsteen exchange in unlabeled DNA duplexes using high-power SELOPE imino


Journal

Magnetic resonance (Gottingen, Germany)
ISSN: 2699-0016
Titre abrégé: Magn Reson (Gott)
Pays: Germany
ID NLM: 101775538

Informations de publication

Date de publication:
2021
Historique:
received: 10 07 2021
accepted: 05 09 2021
medline: 14 9 2021
pubmed: 14 9 2021
entrez: 31 10 2023
Statut: epublish

Résumé

In duplex DNA, Watson-Crick A-T and G-C base pairs (bp's) exist in dynamic equilibrium with an alternative Hoogsteen conformation, which is low in abundance and short-lived. Measuring how the Hoogsteen dynamics varies across different DNA sequences, structural contexts and physiological conditions is key for identifying potential Hoogsteen hot spots and for understanding the potential roles of Hoogsteen base pairs in DNA recognition and repair. However, such studies are hampered by the need to prepare

Identifiants

pubmed: 37905209
doi: 10.5194/mr-2-715-2021
pii: 01021829
pmc: PMC10539785
doi:

Types de publication

Journal Article

Langues

eng

Pagination

715-731

Informations de copyright

Copyright: © 2021 Bei Liu et al.

Déclaration de conflit d'intérêts

Hashim M. Al-Hashimi is a member of the editorial board of .

Références

Nat Commun. 2014 Sep 04;5:4786
pubmed: 25185517
Proc Natl Acad Sci U S A. 2016 May 17;113(20):E2794-801
pubmed: 27140645
Angew Chem Int Ed Engl. 2017 May 22;56(22):6122-6125
pubmed: 28035783
J Phys Chem B. 2012 Dec 13;116(49):14311-7
pubmed: 23194058
Nat Commun. 2021 Mar 11;12(1):1595
pubmed: 33707433
J Am Chem Soc. 2009 Feb 11;131(5):1915-26
pubmed: 19152327
J Biomol NMR. 2015 Oct;63(2):125-39
pubmed: 26232926
Sci Rep. 2014 Jan 08;4:3593
pubmed: 24399194
Biochemistry. 2012 Oct 30;51(43):8654-64
pubmed: 23035755
Sci Rep. 2020 Nov 4;10(1):19005
pubmed: 33149183
Nat Struct Mol Biol. 2010 Apr;17(4):423-9
pubmed: 20364130
J Am Chem Soc. 2010 Dec 1;132(47):17004-14
pubmed: 21058670
Angew Chem Int Ed Engl. 2015 Jan 2;54(1):207-10
pubmed: 25377083
Chem Sci. 2017 Sep 1;8(9):6380-6388
pubmed: 29308175
Nature. 2003 Aug 28;424(6952):1083-7
pubmed: 12904819
Structure. 2018 Sep 4;26(9):1237-1250.e6
pubmed: 30057026
Angew Chem Int Ed Engl. 2016 Dec 19;55(51):15869-15872
pubmed: 27860024
J Biomol NMR. 2018 Jul;71(3):165-172
pubmed: 29858959
J Phys Chem B. 2013 Feb 21;117(7):2045-52
pubmed: 23320790
Biophys J. 2005 Nov;89(5):3285-92
pubmed: 16126830
Nature. 2015 Mar 19;519(7543):315-20
pubmed: 25762137
J Biomol NMR. 2018 Apr;70(4):229-244
pubmed: 29675775
Proc Natl Acad Sci U S A. 1995 Apr 11;92(8):3091-5
pubmed: 7724521
Prog Nucl Magn Reson Spectrosc. 2010 Apr;56(3):289-310
pubmed: 20633356
FEBS Lett. 2017 Jun;591(12):1770-1784
pubmed: 28524232
Science. 1984 Sep 14;225(4667):1115-21
pubmed: 6474168
J Magn Reson. 2014 Jul;244:18-29
pubmed: 24819426
Chem Res Toxicol. 1993 Nov-Dec;6(6):825-36
pubmed: 8117922
J Biomol NMR. 2005 Aug;32(4):281-93
pubmed: 16211482
Angew Chem Int Ed Engl. 2020 Jul 6;59(28):11262-11266
pubmed: 32168407
J Magn Reson. 2000 Jul;145(1):142-6
pubmed: 10873505
Nucleic Acids Res. 2020 Sep 4;48(15):8796-8807
pubmed: 32652019
Nucleic Acids Res. 1985 Apr 11;13(7):2305-23
pubmed: 4000957
J Biomol NMR. 1995 Nov;6(3):277-93
pubmed: 8520220
Nucleic Acids Res. 2010 Jul;38(13):4415-25
pubmed: 20223766
Nucleic Acids Res. 2021 Dec 2;49(21):12540-12555
pubmed: 34792150
Biochemistry. 2001 Jul 31;40(30):8898-904
pubmed: 11467951
J Magn Reson. 2019 Nov;308:106589
pubmed: 31539864
J Magn Reson. 2014 Apr;241:3-17
pubmed: 24656076
Biochemistry. 2019 Apr 16;58(15):1963-1974
pubmed: 30950607
Biopolymers. 2013 Dec;99(12):955-68
pubmed: 23818176
Methods Enzymol. 1995;261:383-413
pubmed: 8569504
Nucleic Acids Res. 2002 Dec 1;30(23):5244-52
pubmed: 12466549
J Am Chem Soc. 2019 Dec 26;141(51):19988-19993
pubmed: 31826614
Nat Methods. 2014 Apr;11(4):413-6
pubmed: 24584194
Nat Struct Mol Biol. 2016 Sep;23(9):803-10
pubmed: 27478929
Eur Biophys J. 1993;21(6):425-31
pubmed: 8449175
Nature. 2011 Feb 24;470(7335):498-502
pubmed: 21270796
Angew Chem Int Ed Engl. 2019 Jul 1;58(27):9140-9144
pubmed: 31131949
Nucleic Acids Res. 2017 May 19;45(9):5586-5601
pubmed: 28369571
Nature. 2020 Nov;587(7833):291-296
pubmed: 33087930
Nature. 2020 Jul;583(7814):139-144
pubmed: 32461691
Prog Nucl Magn Reson Spectrosc. 2019 Jun - Aug;112-113:55-102
pubmed: 31481159
J Biomol NMR. 2003 Mar;25(3):243-8
pubmed: 12652136
J Am Chem Soc. 2012 Feb 15;134(6):3178-89
pubmed: 22300166
Nucleic Acids Res. 1992 Oct 25;20(20):5339-43
pubmed: 1331987
J Biomol NMR. 2014 Nov;60(2-3):77-83
pubmed: 25186910
Chemistry. 2018 Apr 20;24(23):6067-6070
pubmed: 29504639
Nat Struct Mol Biol. 2006 Jul;13(7):619-25
pubmed: 16819516
Angew Chem Int Ed Engl. 2016 Feb 18;55(8):2724-7
pubmed: 26800479
J Am Chem Soc. 2014 Jan 8;136(1):20-3
pubmed: 24299272
J Mol Biol. 1988 Mar 20;200(2):223-38
pubmed: 2836594
J Am Chem Soc. 2013 May 8;135(18):6766-9
pubmed: 23506098
Nucleic Acids Res. 2018 Nov 16;46(20):11099-11114
pubmed: 30285154
Nature. 2018 Feb 8;554(7691):195-201
pubmed: 29420478
J Am Chem Soc. 2009 Mar 25;131(11):3818-9
pubmed: 19243182
Nature. 1987 Jul 2-8;328(6125):89-92
pubmed: 3037381
J Biol Chem. 2020 Nov 20;295(47):15933-15947
pubmed: 32913127
Angew Chem Int Ed Engl. 2016 Sep 19;55(39):12008-12
pubmed: 27533469
J Am Chem Soc. 2012 Nov 14;134(45):18562-5
pubmed: 23106551
J Magn Reson. 1999 Jan;136(1):118-26
pubmed: 9887297
Nat Commun. 2018 Apr 16;9(1):1473
pubmed: 29662229
J Biomol NMR. 2005 Jun;32(2):163-73
pubmed: 16034667
Nucleic Acids Res. 2021 Jan 25;49(2):1152-1162
pubmed: 33337470
J Am Chem Soc. 2012 Feb 29;134(8):3667-70
pubmed: 22309937
J Biomol NMR. 2013 Sep;57(1):47-55
pubmed: 23904100
Nat Commun. 2021 Aug 31;12(1):5201
pubmed: 34465779
J Biomol NMR. 2017 Jul;68(3):215-224
pubmed: 28647789

Auteurs

Bei Liu (B)

Department of Biochemistry, Duke University School of Medicine, Durham, NC, USA.

Atul Rangadurai (A)

Department of Biochemistry, Duke University School of Medicine, Durham, NC, USA.

Honglue Shi (H)

Department of Chemistry, Duke University, Durham, NC, USA.

Hashim M Al-Hashimi (HM)

Department of Biochemistry, Duke University School of Medicine, Durham, NC, USA.
Department of Chemistry, Duke University, Durham, NC, USA.

Classifications MeSH