> top > docs > PMC:7441777 > spans > 36222-38012 > annotations

PMC:7441777 / 36222-38012 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T54 783-787 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T55 1366-1370 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T5 783-787 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398
T6 1366-1370 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T204 51-53 http://purl.obolibrary.org/obo/CLO_0007622 denotes MD
T205 257-258 http://purl.obolibrary.org/obo/CLO_0001020 denotes Å
T206 949-951 http://purl.obolibrary.org/obo/CLO_0008149 denotes NE
T207 1732-1733 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T476 51-53 Chemical denotes MD http://purl.obolibrary.org/obo/CHEBI_74699
T477 71-79 Chemical denotes hydrogen http://purl.obolibrary.org/obo/CHEBI_49637
T478 224-232 Chemical denotes acceptor http://purl.obolibrary.org/obo/CHEBI_15339
T479 233-238 Chemical denotes donor http://purl.obolibrary.org/obo/CHEBI_17891
T480 321-331 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T481 375-385 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T482 416-424 Chemical denotes hydrogen http://purl.obolibrary.org/obo/CHEBI_49637
T483 520-530 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T484 545-548 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T485 566-569 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T486 657-661 Chemical denotes EGCG http://purl.obolibrary.org/obo/CHEBI_4806
T487 712-718 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T488 816-819 Chemical denotes TF3 http://purl.obolibrary.org/obo/CHEBI_136608
T489 834-837 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T490 912-918 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T491 933-936 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T492 949-951 Chemical denotes NE http://purl.obolibrary.org/obo/CHEBI_73824
T493 954-957 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T494 1073-1079 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T495 1249-1255 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T496 1270-1273 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T497 1291-1294 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T498 1458-1461 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T499 1469-1472 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T500 1629-1632 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T501 1651-1654 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015
T502 1753-1756 Chemical denotes Lig http://purl.obolibrary.org/obo/CHEBI_31015

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
939 370-374 Gene denotes RdRp Gene:43740578
940 545-548 Gene denotes Lig Gene:3093
941 566-569 Gene denotes Lig Gene:3093
942 652-656 Gene denotes RdRp Gene:43740578
943 834-837 Gene denotes Lig Gene:3093
944 933-936 Gene denotes Lig Gene:3093
945 954-957 Gene denotes Lig Gene:3093
946 1186-1190 Gene denotes RdRp Gene:43740578
947 1191-1195 Gene denotes TF2b Gene:2959
948 1264-1267 Gene denotes OE1 Gene:1879
949 1270-1273 Gene denotes Lig Gene:3093
950 1291-1294 Gene denotes Lig Gene:3093
951 1458-1461 Gene denotes Lig Gene:3093
952 1469-1472 Gene denotes Lig Gene:3093
953 1547-1551 Gene denotes RdRp Gene:43740578
954 1629-1632 Gene denotes Lig Gene:3093
955 1651-1654 Gene denotes Lig Gene:3093
956 1285-1288 Gene denotes OE2 Gene:253738
957 316-320 Gene denotes RdRp Gene:43740578
958 71-79 Chemical denotes hydrogen MESH:D006859
959 375-385 Chemical denotes remdesivir MESH:C000606551
960 416-424 Chemical denotes hydrogen MESH:D006859
961 437-443 Chemical denotes Asp761
962 445-451 Chemical denotes Asp760
963 457-463 Chemical denotes Ser759
964 479-485 Chemical denotes Asp760
965 520-530 Chemical denotes remdesivir MESH:C000606551
966 532-538 Chemical denotes Asp760
967 553-559 Chemical denotes Asp760
968 657-661 Chemical denotes EGCG MESH:C045651
969 668-674 Chemical denotes Asp618
970 679-685 Chemical denotes Asp760
971 789-795 Chemical denotes Asp761
972 878-884 Chemical denotes Arg836
973 920-926 Chemical denotes Arg836
974 942-948 Chemical denotes Arg836
975 1018-1024 Chemical denotes Glu811
976 1026-1032 Chemical denotes Thr556
977 1037-1043 Chemical denotes Asp761
978 1197-1203 Chemical denotes Glu811
979 1257-1263 Chemical denotes Glu811
980 1278-1284 Chemical denotes Glu811
981 1409-1415 Chemical denotes Pro832
982 1420-1426 Chemical denotes Tyr877
983 1448-1454 Chemical denotes Pro832
984 1478-1484 Chemical denotes Tyr877
985 1558-1564 Chemical denotes Asp618
986 1616-1622 Chemical denotes Asp618
987 1638-1644 Chemical denotes Asp618
988 1714-1720 Chemical denotes Asp760
989 1742-1748 Chemical denotes Asp760

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T353 0-180 Sentence denotes To complement the energetic analysis, we performed MD trajectory-based hydrogen bond (h-bond) analysis for all five complexes, and the h-bonds with occupancy are listed in Table 6.
T354 181-289 Sentence denotes The h-bonds were determined by setting the acceptor-donor distance of ≤ 3.5 Å, and the angle cut off ≥ 1200.
T355 290-354 Sentence denotes Important h-bonds between RdRp-inhibitors are shown in Figure 6.
T356 355-478 Sentence denotes In the case of RdRp/remdesivir, key residues involved in the hydrogen bonding are Asp761, Asp760, and Ser759, respectively.
T357 479-636 Sentence denotes Asp760 is found to form two h-bonds with remdesivir (Asp760@OD2 - Lig@O7, Asp760@OD2 - Lig@O6) with an occupancy of more than 15% (see Table 6 and Figure 6).
T358 637-769 Sentence denotes In the case of RdRp/EGCG, both Asp618 and Asp760 form two h-bonds with the ligand with an occupancy in the range of 16.09 to 30.17%.
T359 770-1017 Sentence denotes On the other hand, Asp761 form an h-bond with TF3 (Asp761@OD1 - Lig@O11) with an occupancy of 69.84%, while Arg836 forms two h-bonds with the ligand (Arg836@NH2 - Lig@O14, Arg836@NE - Lig@O14) with an occupancy of 52.66%, and 48.70%, respectively.
T360 1018-1170 Sentence denotes Glu811, Thr556 and Asp761 also formed h-bonds with the ligand during our simulations with an occupancy varying in the range of 44% to 58% (see Table 6).
T361 1171-1352 Sentence denotes In the case of RdRp/TF2b, Glu811 is found to form two strong h–bonds with the ligand (Glu811@OE1 – Lig@O7, Glu811@OE2 – Lig@O7) with an occupancy of 22.45% and 18.89%, respectively.
T362 1353-1522 Sentence denotes On the other hand, it can be observed from Table 6 that Pro832 and Tyr877 form strong h-bonds (Pro832@O -Lig@O8 and Lig@O10 -Tyr877@OH) with increased occupancy (> 24%).
T363 1523-1713 Sentence denotes Finally, in the case of RdRp/TF2a, Asp618 is found to form two strong h-bonds with the TF2a (Asp618@OD1 – Lig@O10, Asp618@OD1 – Lig@O11) with an occupancy of 38.68% and 38.38%, respectively.
T364 1714-1790 Sentence denotes Asp760 also forms a h-bond (Asp760@O – Lig@O11) with an occupancy of 20.83%.