We are analyzing https://link.springer.com/article/10.1007/s10858-020-00337-7.

Title:
Probing conformational transitions towards mutagenic Watson–Crick-like G·T mismatches using off-resonance sugar carbon R1ρ relaxation dispersion | Journal of Biomolecular NMR
Description:
NMR off-resonance R1ρ relaxation dispersion measurements on base carbon and nitrogen nuclei have revealed that wobble G·T/U mismatches in DNA and RNA duplexes exist in dynamic equilibrium with short-lived, low-abundance, and mutagenic Watson–Crick-like conformations. As Watson–Crick-like G·T mismatches have base pairing geometries similar to Watson–Crick base pairs, we hypothesized that they would mimic Watson–Crick base pairs with respect to the sugar-backbone conformation as well. Using off-resonance R1ρ measurements targeting the sugar C3′ and C4′ nuclei, a structure survey, and molecular dynamics simulations, we show that wobble G·T mismatches adopt sugar-backbone conformations that deviate from the canonical Watson–Crick conformation and that transitions toward tautomeric and anionic Watson–Crick-like G·T mismatches restore the canonical Watson–Crick sugar-backbone. These measurements also reveal kinetic isotope effects for tautomerization in D2O versus H2O, which provide experimental evidence in support of a transition state involving proton transfer. The results provide additional evidence in support of mutagenic Watson–Crick-like G·T mismatches, help rule out alternative inverted wobble conformations in the case of anionic G·T−, and also establish sugar carbons as new non-exchangeable probes of this exchange process.
Website Age:
28 years and 1 months (reg. 1997-05-29).

Matching Content Categories {📚}

Education
Science
Telecommunications

Content Management System {📝}

What CMS is link.springer.com built with?

Custom-built

No common CMS systems were detected on Link.springer.com, and no known web development framework was identified.

Traffic Estimate {📈}

What is the average monthly size of link.springer.com audience?

🌠 Phenomenal Traffic: 5M - 10M visitors per month

Based on our best estimate, this website will receive around 5,000,019 visitors per month in the current month.
However, some sources were not loaded, we suggest to reload the page to get complete results.

check SE Ranking
check Ahrefs
check Similarweb
check Ubersuggest
check Semrush

How Does Link.springer.com Make Money? {💸}

We can't tell how the site generates income.

While profit motivates many websites, others exist to inspire, entertain, or provide valuable resources. Websites have a variety of goals. And this might be one of them. Link.springer.com could be getting rich in stealth mode, or the way it's monetizing isn't detectable.

Keywords {🔍}

google, scholar, wobble, mismatches, dna, exchange, wclike, sugar, chemical, supplementary, conformation, bps, nmr, mismatch, fig, base, data, shifts, kimsey, measurements, anionic, sugarbackbone, state, inverted, tautomeric, structures, nucleic, hoogsteen, figure, formation, ads, acids, chem, structure, relaxation, watsoncrick, pairs, methods, offresonance, shift, observed, ppm, obtained, expected, profiles, res, biol, canonical, form, parameters,

Topics {✒️}

c-g-c-g-a-a-t-t-c-a-c c-g-t-g-a-a-t-t-c-g-c base c6-h6/c2-h2/c8-h8 resonances canonical gua-cyt base-pairs watson-crick/hoogsteen breathing dynamics low-abundance short-lived wc n1-methyl deoxy guanosine canonical watson–crick sugar-backbone anti-hiv nucleoside 5-aza-5 low spin-lock fields longitudinal 13c/15n magnetization 13c/15n rf fields visualizing transient watson-crick 13c/15n spin-lock glen-pak dna cartridges gac/gc-cgc/gc-ggc resonance 13c/15n r1ρ article download pdf trna-mrna mini-helix uridine 5-oxyacetic acid n-site chemical exchange watson–crick base pairs sugar-backbone geometry typical unique sugar-backbone conformation hydrogen bond register full size image m1g6-c14+ hoogsteen bp favors anionic watson-crick sugar-backbone conformation differs polymerase active site canonical watson–crick conformation watson–crick duplex fragments t-c4′ chemical shifts rare tautomers form r2 free-precession relaxation canonical sugar-backbone conformations nucleic acid species dna damage repair c2′-endo sugar pucker nmr relaxation dispersion joung–cheatham ion parameters catalytically active conformations canonical c2′-endo conformation dna double helix dt form watson-crick g6-c14 hoogsteen bp disrupt a-rna structure gc-cgc/gc-ggc c8-h8 assignments bloch–mcconnell equations assuming

Questions {❓}

Brovarets OO, Hovorun DM (2015) How many tautomerization pathways connect Watson-Crick-like G*T DNA base mispair and wobble mismatches?
Hansen DF, Vallurupalli P, Lundstrom P, Neudecker P, Kay LE (2008b) Probing chemical shifts of invisible states of proteins with relaxation dispersion NMR spectroscopy: how well can we do?
Rangadurai A et al (2018) Why are Hoogsteen base pairs energetically disfavored in A-RNA compared to B-DNA?

Schema {🗺️}

WebPage:
      mainEntity:
         headline:Probing conformational transitions towards mutagenic Watson–Crick-like G·T mismatches using off-resonance sugar carbon R1ρ relaxation dispersion
         description:NMR off-resonance R1ρ relaxation dispersion measurements on base carbon and nitrogen nuclei have revealed that wobble G·T/U mismatches in DNA and RNA duplexes exist in dynamic equilibrium with short-lived, low-abundance, and mutagenic Watson–Crick-like conformations. As Watson–Crick-like G·T mismatches have base pairing geometries similar to Watson–Crick base pairs, we hypothesized that they would mimic Watson–Crick base pairs with respect to the sugar-backbone conformation as well. Using off-resonance R1ρ measurements targeting the sugar C3′ and C4′ nuclei, a structure survey, and molecular dynamics simulations, we show that wobble G·T mismatches adopt sugar-backbone conformations that deviate from the canonical Watson–Crick conformation and that transitions toward tautomeric and anionic Watson–Crick-like G·T mismatches restore the canonical Watson–Crick sugar-backbone. These measurements also reveal kinetic isotope effects for tautomerization in D2O versus H2O, which provide experimental evidence in support of a transition state involving proton transfer. The results provide additional evidence in support of mutagenic Watson–Crick-like G·T mismatches, help rule out alternative inverted wobble conformations in the case of anionic G·T−, and also establish sugar carbons as new non-exchangeable probes of this exchange process.
         datePublished:2020-08-12T00:00:00Z
         dateModified:2020-08-12T00:00:00Z
         pageStart:457
         pageEnd:471
         license:http://creativecommons.org/licenses/by/4.0/
         sameAs:https://doi.org/10.1007/s10858-020-00337-7
         keywords:
            Tautomers
            Anions
            Replication error
            Nucleic acid dynamics
            Chemical exchange
            Sugar pucker
            Biological and Medical Physics
            Biophysics
            Biochemistry
            general
            Spectroscopy/Spectrometry
         image:
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig1_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig2_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig3_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig4_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig5_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig6_HTML.png
            https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig7_HTML.png
         isPartOf:
            name:Journal of Biomolecular NMR
            issn:
               1573-5001
               0925-2738
            volumeNumber:74
            type:
               Periodical
               PublicationVolume
         publisher:
            name:Springer Netherlands
            logo:
               url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
               type:ImageObject
            type:Organization
         author:
               name:Atul Rangadurai
               affiliation:
                     name:Duke University School of Medicine
                     address:
                        name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                        type:PostalAddress
                     type:Organization
               type:Person
               name:Eric S. Szymanski
               affiliation:
                     name:Duke University School of Medicine
                     address:
                        name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                        type:PostalAddress
                     type:Organization
                     name:Nymirum
                     address:
                        name:Nymirum, Durham, USA
                        type:PostalAddress
                     type:Organization
               type:Person
               name:Isaac Kimsey
               affiliation:
                     name:Duke University School of Medicine
                     address:
                        name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                        type:PostalAddress
                     type:Organization
                     name:Nymirum
                     address:
                        name:Nymirum, Durham, USA
                        type:PostalAddress
                     type:Organization
               type:Person
               name:Honglue Shi
               affiliation:
                     name:Duke University
                     address:
                        name:Department of Chemistry, Duke University, Durham, USA
                        type:PostalAddress
                     type:Organization
               type:Person
               name:Hashim M. Al-Hashimi
               url:http://orcid.org/0000-0003-0681-1747
               affiliation:
                     name:Duke University School of Medicine
                     address:
                        name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                        type:PostalAddress
                     type:Organization
                     name:Duke University
                     address:
                        name:Department of Chemistry, Duke University, Durham, USA
                        type:PostalAddress
                     type:Organization
               email:[email protected]
               type:Person
         isAccessibleForFree:1
         type:ScholarlyArticle
      context:https://schema.org
ScholarlyArticle:
      headline:Probing conformational transitions towards mutagenic Watson–Crick-like G·T mismatches using off-resonance sugar carbon R1ρ relaxation dispersion
      description:NMR off-resonance R1ρ relaxation dispersion measurements on base carbon and nitrogen nuclei have revealed that wobble G·T/U mismatches in DNA and RNA duplexes exist in dynamic equilibrium with short-lived, low-abundance, and mutagenic Watson–Crick-like conformations. As Watson–Crick-like G·T mismatches have base pairing geometries similar to Watson–Crick base pairs, we hypothesized that they would mimic Watson–Crick base pairs with respect to the sugar-backbone conformation as well. Using off-resonance R1ρ measurements targeting the sugar C3′ and C4′ nuclei, a structure survey, and molecular dynamics simulations, we show that wobble G·T mismatches adopt sugar-backbone conformations that deviate from the canonical Watson–Crick conformation and that transitions toward tautomeric and anionic Watson–Crick-like G·T mismatches restore the canonical Watson–Crick sugar-backbone. These measurements also reveal kinetic isotope effects for tautomerization in D2O versus H2O, which provide experimental evidence in support of a transition state involving proton transfer. The results provide additional evidence in support of mutagenic Watson–Crick-like G·T mismatches, help rule out alternative inverted wobble conformations in the case of anionic G·T−, and also establish sugar carbons as new non-exchangeable probes of this exchange process.
      datePublished:2020-08-12T00:00:00Z
      dateModified:2020-08-12T00:00:00Z
      pageStart:457
      pageEnd:471
      license:http://creativecommons.org/licenses/by/4.0/
      sameAs:https://doi.org/10.1007/s10858-020-00337-7
      keywords:
         Tautomers
         Anions
         Replication error
         Nucleic acid dynamics
         Chemical exchange
         Sugar pucker
         Biological and Medical Physics
         Biophysics
         Biochemistry
         general
         Spectroscopy/Spectrometry
      image:
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig1_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig2_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig3_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig4_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig5_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig6_HTML.png
         https://media.springernature.com/lw1200/springer-static/image/art%3A10.1007%2Fs10858-020-00337-7/MediaObjects/10858_2020_337_Fig7_HTML.png
      isPartOf:
         name:Journal of Biomolecular NMR
         issn:
            1573-5001
            0925-2738
         volumeNumber:74
         type:
            Periodical
            PublicationVolume
      publisher:
         name:Springer Netherlands
         logo:
            url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
            type:ImageObject
         type:Organization
      author:
            name:Atul Rangadurai
            affiliation:
                  name:Duke University School of Medicine
                  address:
                     name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Eric S. Szymanski
            affiliation:
                  name:Duke University School of Medicine
                  address:
                     name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                     type:PostalAddress
                  type:Organization
                  name:Nymirum
                  address:
                     name:Nymirum, Durham, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Isaac Kimsey
            affiliation:
                  name:Duke University School of Medicine
                  address:
                     name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                     type:PostalAddress
                  type:Organization
                  name:Nymirum
                  address:
                     name:Nymirum, Durham, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Honglue Shi
            affiliation:
                  name:Duke University
                  address:
                     name:Department of Chemistry, Duke University, Durham, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Hashim M. Al-Hashimi
            url:http://orcid.org/0000-0003-0681-1747
            affiliation:
                  name:Duke University School of Medicine
                  address:
                     name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
                     type:PostalAddress
                  type:Organization
                  name:Duke University
                  address:
                     name:Department of Chemistry, Duke University, Durham, USA
                     type:PostalAddress
                  type:Organization
            email:[email protected]
            type:Person
      isAccessibleForFree:1
["Periodical","PublicationVolume"]:
      name:Journal of Biomolecular NMR
      issn:
         1573-5001
         0925-2738
      volumeNumber:74
Organization:
      name:Springer Netherlands
      logo:
         url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
         type:ImageObject
      name:Duke University School of Medicine
      address:
         name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
         type:PostalAddress
      name:Duke University School of Medicine
      address:
         name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
         type:PostalAddress
      name:Nymirum
      address:
         name:Nymirum, Durham, USA
         type:PostalAddress
      name:Duke University School of Medicine
      address:
         name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
         type:PostalAddress
      name:Nymirum
      address:
         name:Nymirum, Durham, USA
         type:PostalAddress
      name:Duke University
      address:
         name:Department of Chemistry, Duke University, Durham, USA
         type:PostalAddress
      name:Duke University School of Medicine
      address:
         name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
         type:PostalAddress
      name:Duke University
      address:
         name:Department of Chemistry, Duke University, Durham, USA
         type:PostalAddress
ImageObject:
      url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
Person:
      name:Atul Rangadurai
      affiliation:
            name:Duke University School of Medicine
            address:
               name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
               type:PostalAddress
            type:Organization
      name:Eric S. Szymanski
      affiliation:
            name:Duke University School of Medicine
            address:
               name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
               type:PostalAddress
            type:Organization
            name:Nymirum
            address:
               name:Nymirum, Durham, USA
               type:PostalAddress
            type:Organization
      name:Isaac Kimsey
      affiliation:
            name:Duke University School of Medicine
            address:
               name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
               type:PostalAddress
            type:Organization
            name:Nymirum
            address:
               name:Nymirum, Durham, USA
               type:PostalAddress
            type:Organization
      name:Honglue Shi
      affiliation:
            name:Duke University
            address:
               name:Department of Chemistry, Duke University, Durham, USA
               type:PostalAddress
            type:Organization
      name:Hashim M. Al-Hashimi
      url:http://orcid.org/0000-0003-0681-1747
      affiliation:
            name:Duke University School of Medicine
            address:
               name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
               type:PostalAddress
            type:Organization
            name:Duke University
            address:
               name:Department of Chemistry, Duke University, Durham, USA
               type:PostalAddress
            type:Organization
      email:[email protected]
PostalAddress:
      name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
      name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
      name:Nymirum, Durham, USA
      name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
      name:Nymirum, Durham, USA
      name:Department of Chemistry, Duke University, Durham, USA
      name:Department of Biochemistry, Duke University School of Medicine, Durham, USA
      name:Department of Chemistry, Duke University, Durham, USA

External Links {🔗}(148)

Analytics and Tracking {📊}

Google Tag Manager

Libraries {📚}

Backbone.js
Clipboard.js
Prism.js

CDN Services {📦}

Crossref

5.45s.

LINK . SPRINGER . COM {}