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PMC:7441777 / 27662-28835 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T45 10-16 Body_part denotes radius http://purl.org/sig/ont/fma/fma23463
T46 62-69 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T47 858-865 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T48 950-952 Body_part denotes Å2 http://purl.org/sig/ont/fma/fma66595
T49 1015-1019 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T50 1075-1077 Body_part denotes Å2 http://purl.org/sig/ont/fma/fma66595
T51 1155-1162 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T4 1015-1019 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T172 228-229 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T173 237-238 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T174 246-247 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T175 255-256 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T176 264-265 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T177 273-274 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T178 282-283 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T179 291-292 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T180 303-304 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T181 405-408 http://purl.obolibrary.org/obo/CLO_0009325 denotes TF1
T182 883-884 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T183 950-952 http://purl.obolibrary.org/obo/CLO_0001562 denotes Å2
T184 950-952 http://purl.obolibrary.org/obo/CLO_0001563 denotes Å2
T185 1075-1077 http://purl.obolibrary.org/obo/CLO_0001562 denotes Å2
T186 1075-1077 http://purl.obolibrary.org/obo/CLO_0001563 denotes Å2

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T388 62-69 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T389 329-339 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T390 341-345 Chemical denotes EGCG http://purl.obolibrary.org/obo/CHEBI_4806
T391 347-350 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T392 364-373 Chemical denotes myricetin http://purl.obolibrary.org/obo/CHEBI_18152|http://purl.obolibrary.org/obo/CHEBI_58395
T394 375-388 Chemical denotes quercetagetin http://purl.obolibrary.org/obo/CHEBI_8695
T395 390-400 Chemical denotes hesperidin http://purl.obolibrary.org/obo/CHEBI_28775
T396 531-538 Chemical denotes solvent http://purl.obolibrary.org/obo/CHEBI_46787
T397 634-644 Chemical denotes polyphenol http://purl.obolibrary.org/obo/CHEBI_26195
T398 779-788 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T399 858-865 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T400 981-990 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T401 1062-1065 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T402 1126-1129 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T403 1155-1162 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
685 309-313 Gene denotes RdRp Gene:43740578
686 352-356 Gene denotes TF2b Gene:2959
687 629-633 Gene denotes RdRp Gene:43740578
688 931-935 Gene denotes RdRp Gene:43740578
689 936-940 Gene denotes TF2b Gene:2959
690 976-980 Gene denotes RdRp Gene:43740578
691 329-339 Chemical denotes remdesivir MESH:C000606551
692 341-345 Chemical denotes EGCG MESH:C045651
693 364-373 Chemical denotes myricetin MESH:C040015
694 375-388 Chemical denotes quercetagetin MESH:C079163
695 390-400 Chemical denotes hesperidin MESH:D006569
696 634-644 Chemical denotes polyphenol MESH:D059808
697 814-818 Chemical denotes SASA

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T13 405-408 GlycoEpitope denotes TF1 http://www.glycoepitope.jp/epitopes/AN0049

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T263 0-191 Sentence denotes Since the radius of gyration (RoG) helps us to understand the protein structural compactness, RoG of each complex was monitored and represented in Figure S3A in the Supplementary Information.
T264 192-432 Sentence denotes The average values of RoG are 29.96 Å, 29.52 Å, 29.60 Å, 29.86 Å, 29.75 Å, 29.88 Å, 29.84 Å, 29.74 Å and 29.86 Å for RdRp complexed with remdesivir, EGCG, TF3, TF2b, TF2a, myricetin, quercetagetin, hesperidin and TF1 respectively (Table 3).
T265 433-517 Sentence denotes This suggests that the structural compactness remained unchanged during simulations.
T266 518-712 Sentence denotes Finally, the solvent-accessible surface area (SASA) was also explored, and the time evolution of SASA for four RdRp-polyphenol complexes are shown in Figure S3B in the Supplementary Information.
T267 713-764 Sentence denotes The average values of SASA are reported in Table 3.
T268 765-876 Sentence denotes Binding of an inhibitor to the substrate changes SASA and sometimes could greatly affect the protein structure.
T269 877-1001 Sentence denotes Here, a relatively higher SASA value was obtained for RdRp/TF2b (35462.9 Å2) compared to the other RdRp/inhibitor complexes.
T270 1002-1079 Sentence denotes On the other hand, the lowest SASA value was noted for RdRp/TF3 (34080.2 Å2).
T271 1080-1173 Sentence denotes Thus, it can be suggested that the binding of TF3 could potentially reduce protein expansion.