LitCovid-sentences  

PMC:7219429 / 17801-20735 JSONTXT 9 Projects

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Id Subject Object Predicate Lexical cue
T133 0-240 Sentence denotes Based on recent in-silico data that led to the characterization of ganglioside-spike protein interactions [10], MD simulations were performed with GM1 gangliosides surrounded by typical raft lipids, i.e. sphingomyelin and cholesterol (Figs.
T134 241-251 Sentence denotes 5 and 6 ).
T135 252-352 Sentence denotes These new data confirmed and extended our previous results obtained with isolated gangliosides [10].
T136 353-528 Sentence denotes Indeed, cholesterol and sphingomyelin appeared to stabilize the typical chalice-shaped GM1 dimer, which serves as a landing platform for the SARS-CoV-2 spike protein (Fig. 6).
T137 529-765 Sentence denotes Moreover, the histograms of Fig. 5 show that all amino acid residues of the spike protein that are involved in ATM binding, including the QFN triad, are also essential for GM1 binding in the lipid raft environment (Table S1 and Fig. 5).
T138 766-933 Sentence denotes Taken together, these data indicate that the NTD of the viral glycoprotein may display a common ganglioside/ATM binding site, in agreement with our working hypothesis.
T139 934-1132 Sentence denotes Sequence alignments revealed that this common binding site, including the QFN triad, is totally conserved among clinical isolates of SARS-CoV-2 from various geographical origins worldwide (Fig. 7 ).
T140 1133-1315 Sentence denotes It is also conserved in bat RaTG13, which further illustrates the close relationship between this bat coronavirus and the SARS-CoV-2 strains that are currently circulating the world.
T141 1316-1404 Sentence denotes This region of the NTD should therefore be considered for SARS-CoV-2 vaccine strategies.
T142 1405-1655 Sentence denotes However, the motif has a different sequence signature in other animal- and human-related SARS coronaviruses (Fig. 7), indicating a recent evolution that may be linked to the higher contagiousness of SARS-CoV-2 compared with other human coronaviruses.
T143 1656-1734 Sentence denotes Fig. 6 MD simulations of GM1-spike protein interaction in a lipid raft domain.
T144 1735-1832 Sentence denotes Two GM1 gangliosides were merged with eight cholesterol (chol) and two sphingomyelin (SM) lipids.
T145 1833-1896 Sentence denotes After initial docking, MD simulations were performed for 50 ns.
T146 1897-1941 Sentence denotes Two distinct views of the complex are shown.
T147 1942-2037 Sentence denotes Cholesterol and sphingomyelin stabilize a dimer of GM1 clamped by the NTD of the spike protein.
T148 2038-2146 Sentence denotes Fig. 7 Amino acid sequence alignments of the ganglioside/ATM binding domain of the SARS-CoV-2 spike protein.
T149 2147-2311 Sentence denotes The first group of sequences includes clinical SARS-CoV-2 isolates from various geographical origins aligned with the reference sequence (6VSB_A, fragment 111-162).
T150 2312-2351 Sentence denotes The QFN triad is highlighted in yellow.
T151 2352-2441 Sentence denotes The second group of sequences includes human and animal viruses compared with SARS-CoV-2.
T152 2442-2584 Sentence denotes Deletions are highlighted in green, amino acid changes are highlighted in blue, conserved residues of the QFN triad are highlighted in yellow.
T153 2585-2934 Sentence denotes The degree of conservation observed in each column is symbolized by an asterisk (*) when the residue is fully conserved, a colon (:) for distinct residues with strongly similar properties (scoring > 0.5 in the Gonnet PAM 250 matrix), and a period (.) for distinct residues with weakly similar properties (scoring ≤ 0.5 in the Gonnet PAM 250 matrix).