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PMC:7571312 / 2828-3843 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T24320 41-49 Body_part denotes cysteine http://purl.org/sig/ont/fma/fma82751
T27359 326-334 Body_part denotes cysteine http://purl.org/sig/ont/fma/fma82751
T53411 413-420 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T28 918-922 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T29 986-990 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T55317 314-320 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T10101 343-344 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T44241 482-488 http://purl.obolibrary.org/obo/CLO_0001658 denotes active
T14318 494-497 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T44972 582-583 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T86707 628-629 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T48673 936-944 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T59338 1004-1012 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T16 41-69 Chemical denotes cysteine protease inhibitors http://purl.obolibrary.org/obo/CHEBI_64152
T17 41-49 Chemical denotes cysteine http://purl.obolibrary.org/obo/CHEBI_15356
T18 50-69 Chemical denotes protease inhibitors http://purl.obolibrary.org/obo/CHEBI_37670|http://purl.obolibrary.org/obo/CHEBI_60258
T20 59-69 Chemical denotes inhibitors http://purl.obolibrary.org/obo/CHEBI_35222
T21 85-94 Chemical denotes aldehydes http://purl.obolibrary.org/obo/CHEBI_17478
T22 101-105 Chemical denotes thio http://purl.obolibrary.org/obo/CHEBI_29830
T23 130-144 Chemical denotes cyclic ketones http://purl.obolibrary.org/obo/CHEBI_3992
T24 137-144 Chemical denotes ketones http://purl.obolibrary.org/obo/CHEBI_17087
T25 170-178 Chemical denotes nitriles http://purl.obolibrary.org/obo/CHEBI_18379
T26 242-248 Chemical denotes carbon http://purl.obolibrary.org/obo/CHEBI_27594|http://purl.obolibrary.org/obo/CHEBI_33415
T28 296-307 Chemical denotes sulfur atom http://purl.obolibrary.org/obo/CHEBI_26833
T29 303-307 Chemical denotes atom http://purl.obolibrary.org/obo/CHEBI_33250
T30 326-334 Chemical denotes cysteine http://purl.obolibrary.org/obo/CHEBI_15356
T31 413-420 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T32 421-427 Chemical denotes ligand http://purl.obolibrary.org/obo/CHEBI_52214
T33 525-534 Chemical denotes inhibitor http://purl.obolibrary.org/obo/CHEBI_35222
T34 640-655 Chemical denotes peptidomimetics http://purl.obolibrary.org/obo/CHEBI_63175
T35 855-864 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T14 0-382 Sentence denotes There are numerous reports of reversible cysteine protease inhibitors, which include aldehydes,10−13 thio- or oxymethylketones,14 cyclic ketones,15 amidomethylketones,16 nitriles,17,18 or various 1,2-dicarbonyl motifs.19,20 The electrophilic carbon of these chemotypes reacts reversibly with the sulfur atom of an active-site cysteine forming a covalently bound tetrahedral complex.
T15 383-796 Sentence denotes Stabilization of this charged protein–ligand transition state by an “oxyanion hole” present in the active site has been observed with certain inhibitor classes by X-ray crystallography and NMR.21,22 A recent report describes the optimization of a series of peptidomimetics designed with an α-ketoamide warhead, which achieves broad-spectrum inhibition against the Mpro for several coronaviruses and enteroviruses.
T16 797-1015 Sentence denotes Importantly, the reported protease potencies correlate to antiviral potencies, and the authors suggest that the reported SARS CoV-1 3CLpro activity of their lead could be predictive of the SARS CoV-2 3CLpro activity.23

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
102 747-751 Gene denotes Mpro Gene:8673700
103 41-58 Gene denotes cysteine protease Gene:1508
104 764-777 Species denotes coronaviruses Tax:11118
105 918-926 Species denotes SARS CoV Tax:694009
106 986-996 Species denotes SARS CoV-2 Tax:2697049
107 85-94 Chemical denotes aldehydes MESH:D000447
108 97-126 Chemical denotes −13 thio- or oxymethylketones
109 130-144 Chemical denotes cyclic ketones
110 148-166 Chemical denotes amidomethylketones
111 170-178 Chemical denotes nitriles MESH:D009570
112 196-210 Chemical denotes 1,2-dicarbonyl
113 242-248 Chemical denotes carbon MESH:D002244
114 296-302 Chemical denotes sulfur MESH:D013455
115 326-334 Chemical denotes cysteine MESH:D003545
116 673-684 Chemical denotes α-ketoamide
117 685-692 Chemical denotes warhead

2_test

Id Subject Object Predicate Lexical cue
33054210-9667969-61913444 95-97 9667969 denotes 10
33054210-7794931-61913445 98-100 7794931 denotes 13
33054210-12270191-61913446 145-147 12270191 denotes 15
33054210-8230139-61913447 218-220 8230139 denotes 19
33054210-11848867-61913448 576-578 11848867 denotes 21
33054210-32045235-61913449 1013-1015 32045235 denotes 23