A DNA structural alphabet provides new insight into DNA flexibility

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F86652036%3A_____%2F18%3A00499565" target="_blank" >RIV/86652036:_____/18:00499565 - isvavai.cz</a>

Result on the web

<a href="http://dx.doi.org/10.1107/S2059798318000050" target="_blank" >http://dx.doi.org/10.1107/S2059798318000050</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1107/S2059798318000050" target="_blank" >10.1107/S2059798318000050</a>

Result language

angličtina

Original language name

A DNA structural alphabet provides new insight into DNA flexibility

Original language description

DNA is a structurally plastic molecule, and its biological function is enabled by adaptation to its binding partners. To identify the DNA structural polymorphisms that are possible in such adaptations, the dinucleotide structures of 60000 DNA steps from sequentially nonredundant crystal structures were classified and an automated protocol assigning 44 distinct structural (conformational) classes called NtC (for Nucleotide Conformers) was developed. To further facilitate understanding of the DNA structure, the NtC were assembled into the DNA structural alphabet CANA (Conformational Alphabet of Nucleic Acids) and the projection of CANA onto the graphical representation of the molecular structure was proposed. The NtC classification was used to define a validation score called confal, which quantifies the conformity between an analyzed structure and the geometries of NtC. NtC and CANA assignment were applied to analyze the structural properties of typical DNA structures such as Dickerson-Drew dodecamers, guanine quadruplexes and structural models based on fibre diffraction. NtC, CANA and confal assignment, which is accessible at the website https://dnatco.org, allows the quantitative assessment and validation of DNA structures and their subsequent analysis by means of pseudo-sequence alignment. An animated Interactive 3D Complement (I3DC) is available in Proteopedia at http://proteopedia.org/w/Journal:Acta_Cryst_D:2.

Czech name

—

Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

—

OECD FORD branch

10608 - Biochemistry and molecular biology

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2018

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Acta Crystallographica Section D-Structural Biology

ISSN

2059-7983

e-ISSN

—

Volume of the periodical

74

Issue of the periodical within the volume

JAN 2018

Country of publishing house

GB - UNITED KINGDOM

Number of pages

13

Pages from-to

52-64

UT code for WoS article

000423422400006

EID of the result in the Scopus database

2-s2.0-85041490716