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PMC:7291971 / 25171-28031 JSONTXT

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LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T543 34-42 SP_10 denotes SARS-CoV
T544 43-48 PR:000000125 denotes nsp14
T545 49-57 SP_10 denotes SARS-CoV
T546 58-63 PR:000000125 denotes nsp14
T547 64-73 CHEBI:35222;CHEBI:35222 denotes inhibitor
T548 285-293 SP_10 denotes SARS-CoV
T549 352-360 CHEBI:23357;CHEBI:23357 denotes cofactor
T550 422-431 CHEBI:36357;CHEBI:36357 denotes compounds
T551 476-484 SP_10 denotes SARS-CoV
T552 514-521 GO:0032508 denotes melting
T553 649-654 CHEBI:24433;CHEBI:24433 denotes group
T554 718-728 CHEBI:35222;CHEBI:35222 denotes inhibitors
T555 745-758 CHEBI:23447;CHEBI:23447 denotes dinucleosides
T556 774-782 SP_10 denotes SARS-CoV
T557 783-788 PR:000000125 denotes nsp14
T558 913-922 CHEBI:36357;CHEBI:36357 denotes compounds
T559 950-958 SP_10 denotes SARS-CoV
T560 959-964 PR:000000125 denotes nsp14
T561 1002-1011 CHEBI:35222;CHEBI:35222 denotes inhibitor
T562 1059-1067 SP_10 denotes SARS-CoV
T563 1110-1119 CHEBI:36357;CHEBI:36357 denotes compounds
T564 1203-1212 CHEBI:35222;CHEBI:35222 denotes inhibitor
T565 1292-1301 CHEBI:35222;CHEBI:35222 denotes inhibitor
T566 1341-1349 SP_10 denotes SARS-CoV
T567 1536-1544 CHEBI:36357;CHEBI:36357 denotes compound
T568 1610-1619 CHEBI:35222;CHEBI:35222 denotes inhibitor
T569 1633-1641 CHEBI:36357;CHEBI:36357 denotes compound
T570 1668-1677 CHEBI:36357;CHEBI:36357 denotes compounds
T571 1724-1732 SP_10 denotes SARS-CoV
T572 1733-1738 PR:000000125 denotes nsp14
T573 1781-1788 CHEBI:33543;CHEBI:33543 denotes sulfone
T574 1789-1794 CHEBI:24433;CHEBI:24433 denotes group
T575 1800-1802 CHEBI:17996;CHEBI:17996 denotes Cl
T576 1807-1810 CHEBI:17997;CHEBI:17997 denotes NO2
T577 1861-1870 CHEBI:62946;CHEBI:62946 denotes N-(4-Cl-3
T578 1870-1871 CHEBI:86228;CHEBI:86228 denotes -
T579 1871-1875 CHEBI:62946;CHEBI:62946 denotes NO2-
T580 1875-1892 CHEBI:8102;CHEBI:8102 denotes phenylsulfonamide
T581 1934-1942 SP_10 denotes SARS-CoV
T582 1943-1948 PR:000000125 denotes nsp14
T583 2016-2024 SP_10 denotes SARS-CoV
T584 2132-2135 CHEBI:17997;CHEBI:17997 denotes NO2
T585 2156-2162 CHEBI:30396;CHEBI:30396 denotes phenyl
T586 2206-2214 SP_10 denotes SARS-CoV
T587 2215-2220 PR:000000125 denotes nsp14
T588 2327-2335 SP_10 denotes SARS-CoV
T589 2336-2341 PR:000000125 denotes nsp14
T590 2394-2406 CHEBI:23447;CHEBI:23447 denotes dinucleoside
T591 2407-2417 CHEBI:35222;CHEBI:35222 denotes inhibitors
T592 2451-2459 SP_10 denotes SARS-CoV
T593 2460-2465 PR:000000125 denotes nsp14
T594 2574-2581 CHEBI:60004;CHEBI:60004 denotes mixture
T595 2589-2594 CHEBI:46756;CHEBI:46756 denotes HEPES
T596 2612-2616 CHEBI:26710;CHEBI:26710 denotes NaCl
T597 2627-2633 CHEBI:51461;CHEBI:51461 denotes orange
T598 2634-2637 CHEBI:37958;CHEBI:37958 denotes dye
T599 2663-2671 SP_10 denotes SARS-CoV
T600 2672-2677 PR:000000125 denotes nsp14
T601 2695-2703 CHEBI:36357;CHEBI:36357 denotes compound
T602 2733-2737 CHEBI:51231;CHEBI:51231 denotes DMSO
T83376 64-73 CHEBI:35222;CHEBI:35222 denotes inhibitor
T91238 87-95 CHEBI:36357;CHEBI:36357 denotes were fur
T42222 122-131 CHEBI:36357;CHEBI:36357 denotes ring the
T27451 178-186 SP_10 denotes tial sca
T6980 187-192 PR:000000125 denotes ning
T57622 235-242 CHEBI:33543;CHEBI:33543 denotes Fig. S3
T35844 243-248 CHEBI:24433;CHEBI:24433 denotes [34]
T99111 254-256 CHEBI:17996;CHEBI:17996 denotes ch
T33412 261-264 CHEBI:17997;CHEBI:17997 denotes in
T5864 315-324 CHEBI:62946;CHEBI:62946 denotes n respons
T17732 324-325 CHEBI:86228;CHEBI:86228 denotes e
T93473 325-329 CHEBI:62946;CHEBI:62946 denotes to
T58283 329-346 CHEBI:8102;CHEBI:8102 denotes binding of the na
T60428 388-396 SP_10 denotes nd the 9
T10954 397-402 PR:000000125 denotes most
T66216 470-478 SP_10 denotes cted, SA
T80783 586-589 CHEBI:17997;CHEBI:17997 denotes °C)
T13698 610-616 CHEBI:30396;CHEBI:30396 denotes diffe
T62351 660-668 SP_10 denotes M (Fig. 
T74939 669-674 PR:000000125 denotes ). T
T91245 779-787 SP_10 denotes CoV nsp1
T14005 788-793 PR:000000125 denotes prot
T80178 846-857 CHEBI:23447;CHEBI:23447 denotes 0.8 °C (Sup
T51176 858-868 CHEBI:35222;CHEBI:35222 denotes orting Inf
T34929 902-910 SP_10 denotes 9 examin
T40977 911-916 PR:000000125 denotes d com
T38581 1025-1032 CHEBI:60004;CHEBI:60004 denotes ore int
T69790 1040-1045 CHEBI:46756;CHEBI:46756 denotes ly, T
T40677 1063-1067 CHEBI:26710;CHEBI:26710 denotes -CoV
T29874 1078-1084 CHEBI:51461;CHEBI:51461 denotes large
T70042 1085-1088 CHEBI:37958;CHEBI:37958 denotes in
T13832 1114-1122 SP_10 denotes ounds 10
T25614 1123-1128 PR:000000125 denotes and 1
T25735 1146-1154 CHEBI:36357;CHEBI:36357 denotes natural
T28064 1184-1188 CHEBI:51231;CHEBI:51231 denotes ing
T603 1349-1357 SP_10 denotes nsp14 a
T604 1358-1363 PR:000000125 denotes ainst
T605 1416-1427 CHEBI:23447;CHEBI:23447 denotes ts notable
T606 1428-1438 CHEBI:35222;CHEBI:35222 denotes inding aff
T607 1472-1480 SP_10 denotes as dedu
T608 1481-1486 PR:000000125 denotes ed fr
T609 1595-1602 CHEBI:60004;CHEBI:60004 denotes highlig
T610 1610-1615 CHEBI:46756;CHEBI:46756 denotes inhib
T611 1633-1637 CHEBI:26710;CHEBI:26710 denotes comp
T612 1648-1654 CHEBI:51461;CHEBI:51461 denotes e T m
T613 1655-1658 CHEBI:37958;CHEBI:37958 denotes omp
T614 1684-1692 SP_10 denotes and 13
T615 1693-1698 PR:000000125 denotes howed
T616 1716-1724 CHEBI:36357;CHEBI:36357 denotes ease in
T617 1754-1758 CHEBI:51231;CHEBI:51231 denotes ling
T63873 1915-1923 SP_10 denotes ferred f
T38188 1924-1929 PR:000000125 denotes r opt
T35219 1933-1940 GO:1990524 denotes SARS-C
T10089 2004-2009 PR:000000125 denotes 5.4 °
T55090 2028-2040 CHEBI:23447;CHEBI:23447 denotes 14 observed
T3561 2097-2106 CHEBI:35222;CHEBI:35222 denotes differ by
T28408 2160-2168 SP_10 denotes yl ring.
T14339 2169-2174 PR:000000125 denotes A hig
T12317 2175-2180 PR:000000125 denotes er st
T19370 2181-2188 GO:0032991 denotes bility
T81343 2231-2239 SP_10 denotes ed when
T69930 2240-2245 PR:000000125 denotes he OC
T92038 2324-2330 SO:0000417 denotes of SAR
T47756 2426-2432 SO:0000417 denotes 16. Th
T8747 2464-2470 SO:0000417 denotes 4 upon
T58585 2683-2691 SP_10 denotes in and 1
T5949 2786-2795 CHEBI:37886;CHEBI:37886 denotes values fr
T90084 2811-2820 CHEBI:28748;CHEBI:28748 denotes dent meas

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T79 156-163 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T80 789-796 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T81 1195-1202 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T82 1827-1834 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T83 2678-2685 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
439 2377-2387 Chemical denotes sinefungin MESH:C006235
440 2589-2594 Chemical denotes HEPES MESH:D006531
441 2612-2616 Chemical denotes NaCl MESH:D012965
442 2621-2633 Chemical denotes SYPRO orange
443 2733-2737 Chemical denotes DMSO MESH:D004121
451 376-386 Chemical denotes sinefungin MESH:C006235
452 745-758 Chemical denotes dinucleosides
453 1012-1022 Chemical denotes sinefungin MESH:C006235
454 1781-1788 Chemical denotes sulfone MESH:D013450
455 1807-1810 Chemical denotes NO2
456 1861-1892 Chemical denotes N-(4-Cl-3-NO2-phenylsulfonamide
457 2279-2291 Chemical denotes dinucleoside

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T68 34-42 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T69 49-57 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T70 285-293 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T71 476-484 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T72 774-782 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T73 950-958 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T74 1059-1067 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T75 1341-1349 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T76 1724-1732 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T77 1934-1942 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T78 2016-2024 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T79 2206-2214 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T80 2327-2335 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T81 2451-2459 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T82 2663-2671 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T213 245-247 http://purl.obolibrary.org/obo/CLO_0001302 denotes 34
T214 402-408 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T215 622-623 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T216 816-817 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T217 884-886 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T218 1390-1391 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T219 1489-1492 http://purl.obolibrary.org/obo/CLO_0009405 denotes TSA
T220 1567-1568 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T221 1699-1700 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T222 1800-1802 http://purl.obolibrary.org/obo/CLO_0052906 denotes Cl
T223 1866-1870 http://purl.obolibrary.org/obo/CLO_0002489 denotes Cl-3
T224 2083-2085 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T225 2169-2170 http://purl.obolibrary.org/obo/CLO_0001020 denotes A

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T422 64-73 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T423 156-163 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T424 240-242 Chemical denotes S3 http://purl.obolibrary.org/obo/CHEBI_29388
T425 352-360 Chemical denotes cofactor http://purl.obolibrary.org/obo/CHEBI_23357
T426 371-374 Chemical denotes SAM http://purl.obolibrary.org/obo/CHEBI_15414|http://purl.obolibrary.org/obo/CHEBI_67040
T428 376-386 Chemical denotes sinefungin http://purl.obolibrary.org/obo/CHEBI_45453
T429 551-554 Chemical denotes SAM http://purl.obolibrary.org/obo/CHEBI_15414|http://purl.obolibrary.org/obo/CHEBI_67040
T431 569-579 Chemical denotes sinefungin http://purl.obolibrary.org/obo/CHEBI_45453
T432 649-654 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T433 658-661 Chemical denotes SAM http://purl.obolibrary.org/obo/CHEBI_15414|http://purl.obolibrary.org/obo/CHEBI_67040
T435 718-728 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T436 789-796 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T437 1002-1011 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T438 1012-1022 Chemical denotes sinefungin http://purl.obolibrary.org/obo/CHEBI_45453
T439 1172-1175 Chemical denotes SAM http://purl.obolibrary.org/obo/CHEBI_15414|http://purl.obolibrary.org/obo/CHEBI_67040
T441 1195-1202 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T442 1203-1212 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T443 1292-1301 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T444 1454-1456 Chemical denotes KD http://purl.obolibrary.org/obo/CHEBI_73601
T445 1489-1492 Chemical denotes TSA http://purl.obolibrary.org/obo/CHEBI_46024
T446 1610-1619 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T447 1781-1788 Chemical denotes sulfone http://purl.obolibrary.org/obo/CHEBI_35850
T448 1789-1794 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T449 1800-1802 Chemical denotes Cl http://purl.obolibrary.org/obo/CHEBI_23116
T450 1807-1810 Chemical denotes NO2 http://purl.obolibrary.org/obo/CHEBI_16301|http://purl.obolibrary.org/obo/CHEBI_33101
T452 1827-1834 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T453 1866-1868 Chemical denotes Cl http://purl.obolibrary.org/obo/CHEBI_23116
T454 1871-1874 Chemical denotes NO2 http://purl.obolibrary.org/obo/CHEBI_16301|http://purl.obolibrary.org/obo/CHEBI_33101
T456 2132-2135 Chemical denotes NO2 http://purl.obolibrary.org/obo/CHEBI_16301|http://purl.obolibrary.org/obo/CHEBI_33101
T458 2156-2162 Chemical denotes phenyl http://purl.obolibrary.org/obo/CHEBI_30396
T459 2248-2253 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T460 2320-2322 Chemical denotes Tm http://purl.obolibrary.org/obo/CHEBI_33380
T461 2372-2375 Chemical denotes SAM http://purl.obolibrary.org/obo/CHEBI_15414|http://purl.obolibrary.org/obo/CHEBI_67040
T463 2377-2387 Chemical denotes sinefungin http://purl.obolibrary.org/obo/CHEBI_45453
T464 2407-2417 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T465 2471-2477 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T466 2574-2581 Chemical denotes mixture http://purl.obolibrary.org/obo/CHEBI_60004
T467 2589-2594 Chemical denotes HEPES http://purl.obolibrary.org/obo/CHEBI_46756
T468 2612-2616 Chemical denotes NaCl http://purl.obolibrary.org/obo/CHEBI_26710
T469 2634-2637 Chemical denotes dye http://purl.obolibrary.org/obo/CHEBI_37958
T470 2678-2685 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T471 2733-2737 Chemical denotes DMSO http://purl.obolibrary.org/obo/CHEBI_28262

2_test

Id Subject Object Predicate Lexical cue
32563813-17853878-29105589 245-247 17853878 denotes 34

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T184 0-48 Sentence denotes 2.5 Thermal shift DSF assays for SARS-CoV nsp14
T185 49-249 Sentence denotes SARS-CoV nsp14-inhibitor interactions were further investigated by monitoring the thermal stability of the protein using differential scanning fluorimetry (DSF) (Supporting Information, Fig. S3) [34].
T186 250-462 Sentence denotes The change in thermal stability of SARS-CoV nsp14 was monitored in response to binding of the natural cofactor substrate SAM, sinefungin and the 9 most active and specific compounds 6 and 9–16 with IC50 < 100 μM.
T187 463-672 Sentence denotes As expected, SARS-CoV nsp14 displayed an increased melting temperature (T m) value with SAM (+6.5 °C) and sinefungin (+4.4 °C) whose structure only differs by a C–NH2 in place of S+-CH3 group in SAM (Fig. 2 ).
T188 673-888 Sentence denotes The binding experiments with the bisubstrate inhibitors showed that all dinucleosides stabilized the SARS-CoV nsp14 protein (T m > 40 °C) with a T m shift from +4.6 °C to +10.8 °C (Supporting Information, Table S1).
T189 889-1023 Sentence denotes Eight of the 9 examined compounds increased the stability of SARS-CoV nsp14 more efficiently than the well-known inhibitor sinefungin.
T190 1024-1226 Sentence denotes More interestingly, T m values for SARS-CoV nsp14 were larger in the presence of five compounds 10 and 12–15 than with the natural enzyme substrate SAM, suggesting strong protein-inhibitor interactions.
T191 1227-1548 Sentence denotes Remarkably, the highest T m was observed with the most efficient inhibitor 13 (IC50 0.6 ± 0.1 μM) that stabilizes SARS-CoV nsp14 against thermal denaturation with a ΔT m +10.8 °C and exhibits notable binding affinity (apparent KD 1.3 ± 0.87 μM), as deduced from TSA performed with increasing concentration of compound 13.
T192 1549-1645 Sentence denotes This demonstrates a favorable interaction and highlights the inhibitor potential of compound 13.
T193 1646-1851 Sentence denotes The T m comparison of compounds 16, 15 and 13 showed a respective increase in SARS-CoV nsp14 stability, settling the importance of the sulfone group, the Cl and NO2 substituents in protein binding with 13.
T194 1852-1962 Sentence denotes Thus the N-(4-Cl-3-NO2-phenylsulfonamide) moiety is notably preferred for optimal SARS-CoV nsp14 interactions.
T195 1963-2168 Sentence denotes Another highlight is the thermal shift (+5.4 °C) for SARS-CoV nsp14 observed in the presence of compound 10 compared to 11, both only differ by the position of OCH3 and NO2 substituents in the phenyl ring.
T196 2169-2295 Sentence denotes A higher stability and inhibition of SARS-CoV nsp14 was observed when the OCH3 group is in “para” position in dinucleoside 10.
T197 2296-2429 Sentence denotes Fig. 2 Thermal shifts (ΔTm) of SARS-CoV nsp14 in the absence or presence of SAM, sinefungin and 9 dinucleoside inhibitors 6 and 9–16.
T198 2430-2537 Sentence denotes Thermal stability of SARS-CoV nsp14 upon ligand binding was monitored by differential scanning fluorimetry.
T199 2538-2738 Sentence denotes Assays were carried out in reaction mixture [20 mM HEPES (pH 7.5), 150 mM NaCl, 1x SYPRO orange dye] in the presence of 5 μM SARS-CoV nsp14 protein and 1 mM compound previously dissolved in 100% DMSO.
T200 2739-2860 Sentence denotes The bars and error bars correspond to the mean values from three independent measurements and their s.d.’s, respectively.

MyTest

Id Subject Object Predicate Lexical cue
32563813-17853878-29105589 245-247 17853878 denotes 34