FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2967359918> ?p ?o ?g. }

• W2967359918 endingPage "3320" @default.
• W2967359918 startingPage "3307" @default.
• W2967359918 abstract "Base pairs belonging to the cis Hoogsteen:sugar-edge (H:S) family play important structural roles in folded RNA molecules. Several of these are present in internal loops, where they are involved in interactions leading to planar dinucleotide platforms which stabilize higher order structures such as base triplets and quartets. We report results of analysis of 30 representative examples spanning 16 possible base pair combinations, with several of them showing multimodality of base pairing geometry. The geometries of 23 of these base pairs were modeled directly from coordinates extracted from RNA crystal structures. The other seven were predicted structures which were modeled on the basis of observed isosteric analogues. After appropriate satisfaction of residual valencies, these structures were relaxed using the B3LYP/6-31G(d,p) method and interaction energies were derived at the RIMP2/aug-cc-pVDZ level of theory. The geometries for each of the studied base pairs have been characterized in terms of the number and nature of H-bonds, rmsd values observed on optimization, base pair geometrical parameters, and sugar pucker analysis. In addition to its evaluation, the nature of intermolecular interaction in these complexes was also analyzed using Morokuma decomposition. The gas phase interaction energies range between −5.2 and −20.6 kcal/mol and, in contrast to the H:S trans base pairs, show enhanced relative importance of the electron correlation component, indicative of the greater role of dispersion energy in stabilization of these base pairs. The rich variety of hydrogen bonding pattern, involving the flexible sugar edge, appears to hold the key to several features of structural motifs, such as planarity and propensity to participate in triplets, observed in this family of base pairs. This work explores these aspects by integrating database analysis, and detailed base pairing geometry analysis at the atomistic level, with ab initio computation of interaction energies. The study, involving alternative classification of base pairs and triplets, provides insights into intrinsic properties of these base pairs and their possible structural and functional roles." @default.
• W2967359918 created "2019-08-22" @default.
• W2967359918 creator A5000127560 @default.
• W2967359918 creator A5026399646 @default.
• W2967359918 creator A5044759740 @default.
• W2967359918 creator A5046203598 @default.
• W2967359918 creator A5051389777 @default.
• W2967359918 creator A5082173414 @default.
• W2967359918 date "2010-02-17" @default.
• W2967359918 modified "2023-10-16" @default.
• W2967359918 title "On the Role of the cis Hoogsteen:Sugar-Edge Family of Base Pairs in Platforms and Triplets—Quantum Chemical Insights into RNA Structural Biology" @default.
• W2967359918 cites W1499622055 @default.
• W2967359918 cites W1547278669 @default.
• W2967359918 cites W1973350548 @default.
• W2967359918 cites W1977169697 @default.
• W2967359918 cites W1980722147 @default.
• W2967359918 cites W1983563212 @default.
• W2967359918 cites W1984614201 @default.
• W2967359918 cites W1986726295 @default.
• W2967359918 cites W1993383767 @default.
• W2967359918 cites W1995402364 @default.
• W2967359918 cites W2003122343 @default.
• W2967359918 cites W2010747602 @default.
• W2967359918 cites W2011843710 @default.
• W2967359918 cites W2013902881 @default.
• W2967359918 cites W2014628406 @default.
• W2967359918 cites W2022889126 @default.
• W2967359918 cites W2022950330 @default.
• W2967359918 cites W2023167098 @default.
• W2967359918 cites W2023271753 @default.
• W2967359918 cites W2025529107 @default.
• W2967359918 cites W2031931648 @default.
• W2967359918 cites W2035179065 @default.
• W2967359918 cites W2038767330 @default.
• W2967359918 cites W2040282014 @default.
• W2967359918 cites W2044247083 @default.
• W2967359918 cites W2047766036 @default.
• W2967359918 cites W2057640882 @default.
• W2967359918 cites W2058334701 @default.
• W2967359918 cites W2068798833 @default.
• W2967359918 cites W2070927764 @default.
• W2967359918 cites W2074718022 @default.
• W2967359918 cites W2076707086 @default.
• W2967359918 cites W2079057579 @default.
• W2967359918 cites W2082037815 @default.
• W2967359918 cites W2082691688 @default.
• W2967359918 cites W2085341294 @default.
• W2967359918 cites W2091701613 @default.
• W2967359918 cites W2091705944 @default.
• W2967359918 cites W2096976538 @default.
• W2967359918 cites W2100135112 @default.
• W2967359918 cites W2106478835 @default.
• W2967359918 cites W2107533804 @default.
• W2967359918 cites W2108927984 @default.
• W2967359918 cites W2114972602 @default.
• W2967359918 cites W2115729502 @default.
• W2967359918 cites W2119792369 @default.
• W2967359918 cites W2127382372 @default.
• W2967359918 cites W2136556521 @default.
• W2967359918 cites W2143455506 @default.
• W2967359918 cites W2143981217 @default.
• W2967359918 cites W2144879714 @default.
• W2967359918 cites W2145065557 @default.
• W2967359918 cites W2146357275 @default.
• W2967359918 cites W2148941593 @default.
• W2967359918 cites W2151272756 @default.
• W2967359918 cites W2156021317 @default.
• W2967359918 cites W2167120376 @default.
• W2967359918 cites W280694366 @default.
• W2967359918 doi "https://doi.org/10.1021/jp910226e" @default.
• W2967359918 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/20163171" @default.
• W2967359918 hasPublicationYear "2010" @default.
• W2967359918 type Work @default.
• W2967359918 sameAs 2967359918 @default.
• W2967359918 citedByCount "33" @default.
• W2967359918 countsByYear W29673599182012 @default.
• W2967359918 countsByYear W29673599182013 @default.
• W2967359918 countsByYear W29673599182014 @default.
• W2967359918 countsByYear W29673599182015 @default.
• W2967359918 countsByYear W29673599182017 @default.
• W2967359918 countsByYear W29673599182018 @default.
• W2967359918 countsByYear W29673599182019 @default.
• W2967359918 countsByYear W29673599182021 @default.
• W2967359918 countsByYear W29673599182022 @default.
• W2967359918 countsByYear W29673599182023 @default.
• W2967359918 crossrefType "journal-article" @default.
• W2967359918 hasAuthorship W2967359918A5000127560 @default.
• W2967359918 hasAuthorship W2967359918A5026399646 @default.
• W2967359918 hasAuthorship W2967359918A5044759740 @default.
• W2967359918 hasAuthorship W2967359918A5046203598 @default.
• W2967359918 hasAuthorship W2967359918A5051389777 @default.
• W2967359918 hasAuthorship W2967359918A5082173414 @default.
• W2967359918 hasConcept C104317684 @default.
• W2967359918 hasConcept C112887158 @default.
• W2967359918 hasConcept C134306372 @default.
• W2967359918 hasConcept C159467904 @default.
• W2967359918 hasConcept C166950319 @default.
• W2967359918 hasConcept C178790620 @default.

• next