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PMC:7441777 / 19769-20634 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T34 159-169 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T55 104-112 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T56 305-313 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T57 454-462 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T115 507-510 http://purl.obolibrary.org/obo/CLO_0009325 denotes TF1
T116 828-830 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T277 71-82 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195
T278 152-158 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T279 159-169 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T280 159-164 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T281 165-169 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T282 203-206 Chemical denotes GTP http://purl.obolibrary.org/obo/CHEBI_15996|http://purl.obolibrary.org/obo/CHEBI_37565
T284 211-221 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T285 328-339 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195
T286 423-434 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195
T287 496-499 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T288 518-528 Chemical denotes hesperidin http://purl.obolibrary.org/obo/CHEBI_28775
T289 530-534 Chemical denotes EGCG http://purl.obolibrary.org/obo/CHEBI_4806
T290 536-545 Chemical denotes myricetin http://purl.obolibrary.org/obo/CHEBI_18152|http://purl.obolibrary.org/obo/CHEBI_58395
T292 550-563 Chemical denotes quercetagetin http://purl.obolibrary.org/obo/CHEBI_8695
T293 740-751 Chemical denotes polyphenols http://purl.obolibrary.org/obo/CHEBI_26195

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
446 92-96 Gene denotes RdRp Gene:43740578
447 316-320 Gene denotes RdRp Gene:43740578
448 465-469 Gene denotes RdRp Gene:43740578
449 501-505 Gene denotes TF2b Gene:2959
450 705-709 Gene denotes RdRp Gene:43740578
451 104-114 Species denotes SARS-CoV-2 Tax:2697049
452 305-315 Species denotes SARS-CoV-2 Tax:2697049
453 454-464 Species denotes SARS-CoV-2 Tax:2697049
454 0-11 Chemical denotes Polyphenols MESH:D059808
455 71-82 Chemical denotes polyphenols MESH:D059808
456 203-206 Chemical denotes GTP MESH:D006160
457 211-221 Chemical denotes remdesivir MESH:C000606551
458 328-339 Chemical denotes polyphenols MESH:D059808
459 423-434 Chemical denotes polyphenols MESH:D059808
460 518-528 Chemical denotes hesperidin MESH:D006569
461 530-534 Chemical denotes EGCG MESH:C045651
462 536-545 Chemical denotes myricetin MESH:C040015
463 550-563 Chemical denotes quercetagetin MESH:C079163
464 564-566 Chemical denotes as MESH:D001151
465 740-751 Chemical denotes polyphenols MESH:D059808

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T5 507-510 GlycoEpitope denotes TF1 http://www.glycoepitope.jp/epitopes/AN0049

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T201 0-183 Sentence denotes Polyphenols exhibiting binding energy of −7.0 kcal/mol or lower (eight polyphenols) against RdRp of the SARS-CoV-2 are listed in Table 2 along with the ligand-amino acid interactions.
T202 184-321 Sentence denotes Control compounds, GTP and remdesivir, exhibited the binding energy of −7.9 and −7.7 kcal/mol, respectively, against the SARS-CoV-2 RdRp.
T203 322-665 Sentence denotes Eight polyphenols displayed significantly higher binding affinity among the selected hundred natural polyphenols docked against the SARS-CoV-2 RdRp, with binding energies of TF3, TF2b, TF1, TF2a, hesperidin, EGCG, myricetin and quercetagetin as −9.9, −9.6, −9.6, −9.3, −8.8, −7.3, −7.2 and −7.0 kcal/mol, respectively (highlighted in Table 1).
T204 666-865 Sentence denotes Further, 2D LigPlot+ representation of RdRp and the above-mentioned eight polyphenols reveal the stable network of molecular interactions (see Table 2 and Figure S1 in the Supplementary Information).