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PMC:7605337 / 26564-28312 JSONTXT

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LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T161 137-146 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T162 148-152 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T163 260-269 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T164 593-602 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T165 719-728 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T166 746-750 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T167 804-813 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T168 826-830 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T169 894-903 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T170 921-925 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T171 1205-1214 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T172 1366-1375 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096
T173 1491-1500 Disease denotes nCOV-2019 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T183 277-278 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T184 368-371 http://purl.obolibrary.org/obo/CLO_0001375 denotes 455
T185 649-652 http://purl.obolibrary.org/obo/CLO_0054064 denotes 491
T186 904-907 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T187 939-940 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T188 1024-1025 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T189 1092-1093 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T190 1241-1242 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T191 1636-1637 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T192 1697-1698 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T96 30-35 Chemical denotes atoms http://purl.obolibrary.org/obo/CHEBI_33250
T97 85-90 Chemical denotes atoms http://purl.obolibrary.org/obo/CHEBI_33250

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T163 0-246 Sentence denotes The correlated motions of RBD atoms were also analyzed with the DCCM based on the Cα atoms of RBD from the last 400 ns of simulation for nCOV-2019, SARS-COV, and extended mutant systems and the last 200 ns for the other mutant systems (Figure 6).
T164 247-446 Sentence denotes The DCCM for nCOV-2019 showed a correlation between residues 490–505 (containing α5, L4 and β5 regions) and residues 440–455 (containing α4, L1 and β5 regions) shown in the red rectangle in Figure 6.
T165 447-534 Sentence denotes This correlation showed the coordination of these regions for binding ACE2 effectively.
T166 535-653 Sentence denotes Another important correlation that appears in the DCCM of nCOV-2019 is between residues 473–481 with residues 482–491.
T167 654-755 Sentence denotes These residues are in L3 and β6 regions and their correlation in nCOV-2019 is stronger than SARS-COV.
T168 756-867 Sentence denotes This is due to the presence of the β6 strand in nCOV-2019, whereas in SARS-COV these residues all belong to L3.
T169 868-1057 Sentence denotes This indicates that L3 in nCOV-2019 has evolved from SARS-COV to adopt a new secondary structure, which causes strong correlation and makes the loop act as a recognition region for binding.
T170 1058-1121 Sentence denotes The correlation in L3 is shown as a blue rectangle in Figure 6.
T171 1122-1218 Sentence denotes Some of the mutations disrupted the patterns of correlation and anticorrelation in nCOV-2019-wt.
T172 1219-1307 Sentence denotes Mutation N487A showed a stronger correlation in L3 and β6 strand than the wild-type RBD.
T173 1308-1379 Sentence denotes In mutation E484A, correlation in L3 is stronger than the nCOV-2019-wt.
T174 1380-1426 Sentence denotes DCCM for other mutants are shown in Figure S6.
T175 1427-1598 Sentence denotes It is worth mentioning that mutation F486A disrupts the DCCM of nCOV-2019 by introducing strong correlations in the core region of RBD as well as the extended loop region.
T176 1599-1748 Sentence denotes Residue F486 resides in L3 and plays a crucial role in stabilizing the recognition loop by making a π-stacking interaction with residue Y83A on ACE2.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
576 517-521 Gene denotes ACE2 Gene:59272
577 1743-1747 Gene denotes ACE2 Gene:59272
578 137-141 Species denotes nCOV Tax:2697049
579 148-156 Species denotes SARS-COV Tax:694009
580 260-264 Species denotes nCOV Tax:2697049
581 593-597 Species denotes nCOV Tax:2697049
582 719-723 Species denotes nCOV Tax:2697049
583 746-754 Species denotes SARS-COV Tax:694009
584 804-808 Species denotes nCOV Tax:2697049
585 826-834 Species denotes SARS-COV Tax:694009
586 894-898 Species denotes nCOV Tax:2697049
587 921-929 Species denotes SARS-COV Tax:694009
588 1205-1209 Species denotes nCOV Tax:2697049
589 1366-1370 Species denotes nCOV Tax:2697049
590 1491-1495 Species denotes nCOV Tax:2697049
591 395-397 Gene denotes β5 Gene:28884
592 339-341 Gene denotes β5 Gene:28884
593 1274-1276 Gene denotes β6 Gene:28873
594 791-793 Gene denotes β6 Gene:28873
595 683-685 Gene denotes β6 Gene:28873
596 328-330 Gene denotes α5 Gene:28884
597 384-386 Gene denotes α4 Gene:28898
598 1607-1611 Chemical denotes F486
599 1735-1739 Chemical denotes Y83A