PMC:7291971 / 85467-86967 JSON TXT

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LitCovid-PMC-OGER-BB

LitCovid-PD-FMA-UBERON

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T107","span":{"begin":90,"end":93},"obj":"Body_part"},{"id":"T108","span":{"begin":382,"end":385},"obj":"Body_part"},{"id":"T109","span":{"begin":470,"end":473},"obj":"Body_part"},{"id":"T110","span":{"begin":606,"end":609},"obj":"Body_part"},{"id":"T111","span":{"begin":940,"end":943},"obj":"Body_part"},{"id":"T112","span":{"begin":1124,"end":1143},"obj":"Body_part"},{"id":"T113","span":{"begin":1140,"end":1143},"obj":"Body_part"}],"attributes":[{"id":"A107","pred":"fma_id","subj":"T107","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A108","pred":"fma_id","subj":"T108","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A109","pred":"fma_id","subj":"T109","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A110","pred":"fma_id","subj":"T110","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A111","pred":"fma_id","subj":"T111","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A112","pred":"fma_id","subj":"T112","obj":"http://purl.org/sig/ont/fma/fma67127"},{"id":"A113","pred":"fma_id","subj":"T113","obj":"http://purl.org/sig/ont/fma/fma67095"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

LitCovid-PubTator

{"project":"LitCovid-PubTator","denotations":[{"id":"1618","span":{"begin":77,"end":79},"obj":"Chemical"},{"id":"1619","span":{"begin":255,"end":259},"obj":"Chemical"},{"id":"1620","span":{"begin":260,"end":263},"obj":"Chemical"},{"id":"1621","span":{"begin":279,"end":282},"obj":"Chemical"},{"id":"1622","span":{"begin":289,"end":294},"obj":"Chemical"},{"id":"1623","span":{"begin":316,"end":318},"obj":"Chemical"},{"id":"1624","span":{"begin":562,"end":566},"obj":"Chemical"},{"id":"1625","span":{"begin":577,"end":581},"obj":"Chemical"},{"id":"1626","span":{"begin":712,"end":716},"obj":"Chemical"},{"id":"1627","span":{"begin":801,"end":806},"obj":"Chemical"},{"id":"1628","span":{"begin":836,"end":853},"obj":"Chemical"},{"id":"1629","span":{"begin":855,"end":859},"obj":"Chemical"},{"id":"1630","span":{"begin":988,"end":1004},"obj":"Chemical"},{"id":"1631","span":{"begin":1024,"end":1029},"obj":"Chemical"},{"id":"1632","span":{"begin":1044,"end":1051},"obj":"Chemical"},{"id":"1633","span":{"begin":1114,"end":1116},"obj":"Chemical"}],"attributes":[{"id":"A1618","pred":"tao:has_database_id","subj":"1618","obj":"MESH:D014316"},{"id":"A1620","pred":"tao:has_database_id","subj":"1620","obj":"MESH:D006851"},{"id":"A1621","pred":"tao:has_database_id","subj":"1621","obj":"MESH:D004229"},{"id":"A1622","pred":"tao:has_database_id","subj":"1622","obj":"MESH:D015636"},{"id":"A1623","pred":"tao:has_database_id","subj":"1623","obj":"MESH:D014316"},{"id":"A1624","pred":"tao:has_database_id","subj":"1624","obj":"MESH:D004121"},{"id":"A1625","pred":"tao:has_database_id","subj":"1625","obj":"MESH:D004121"},{"id":"A1626","pred":"tao:has_database_id","subj":"1626","obj":"MESH:D004121"},{"id":"A1627","pred":"tao:has_database_id","subj":"1627","obj":"MESH:D014867"},{"id":"A1630","pred":"tao:has_database_id","subj":"1630","obj":"MESH:C030544"},{"id":"A1631","pred":"tao:has_database_id","subj":"1631","obj":"MESH:D014867"},{"id":"A1632","pred":"tao:has_database_id","subj":"1632","obj":"MESH:D000431"},{"id":"A1633","pred":"tao:has_database_id","subj":"1633","obj":"MESH:D014316"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

LitCovid-PD-MONDO

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T102","span":{"begin":390,"end":398},"obj":"Disease"},{"id":"T103","span":{"begin":414,"end":422},"obj":"Disease"}],"attributes":[{"id":"A102","pred":"mondo_id","subj":"T102","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A103","pred":"mondo_id","subj":"T103","obj":"http://purl.obolibrary.org/obo/MONDO_0002595"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

LitCovid-PD-CLO

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T445","span":{"begin":423,"end":428},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_10239"},{"id":"T446","span":{"begin":454,"end":456},"obj":"http://purl.obolibrary.org/obo/CLO_0053794"},{"id":"T447","span":{"begin":464,"end":469},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T448","span":{"begin":891,"end":892},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T449","span":{"begin":922,"end":933},"obj":"http://purl.obolibrary.org/obo/OBI_0000968"},{"id":"T450","span":{"begin":1176,"end":1177},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T451","span":{"begin":1491,"end":1499},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

LitCovid-PD-CHEBI

LitCovid-PD-GO-BP

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T51","span":{"begin":1124,"end":1143},"obj":"http://purl.obolibrary.org/obo/GO_0030533"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

LitCovid-sentences

{"project":"LitCovid-sentences","denotations":[{"id":"T562","span":{"begin":0,"end":37},"obj":"Sentence"},{"id":"T563","span":{"begin":38,"end":203},"obj":"Sentence"},{"id":"T564","span":{"begin":204,"end":499},"obj":"Sentence"},{"id":"T565","span":{"begin":500,"end":656},"obj":"Sentence"},{"id":"T566","span":{"begin":657,"end":717},"obj":"Sentence"},{"id":"T567","span":{"begin":718,"end":807},"obj":"Sentence"},{"id":"T568","span":{"begin":808,"end":935},"obj":"Sentence"},{"id":"T569","span":{"begin":936,"end":1052},"obj":"Sentence"},{"id":"T570","span":{"begin":1053,"end":1245},"obj":"Sentence"},{"id":"T571","span":{"begin":1246,"end":1397},"obj":"Sentence"},{"id":"T572","span":{"begin":1398,"end":1500},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"4.3 MTase filter binding assay (FBA)\nThe transfer of tritiated methyl from [3H] SAM onto RNA substrate was monitored by filter binding assay, performed according to the method described previously [40]. Assays were carried out in reaction mixture [40 mM Tris-HCl (pH 8.0), 1 mM DTT, 1 mM MgCl2, 2 μM SAM and 0.1 μM 3H-SAM (PerkinElmer)] in the presence of 0.7 μM GpppAC4 synthetic RNA and SARS-CoV nsp14 (50 nM), vaccinia virus capping enzyme (D1-D12) (41 U), or human RNA N7 MTase (hRNMT) (50 nM). The enzymes were first mixed with compounds suspended in 100% DMSO (5% final DMSO) before the addition of RNA substrate and SAM and then incubated at 30 °C. Control reactions were performed in the presence of 5% DMSO. Reactions mixtures were stopped after 30 min by their 10-fold dilution in ice-cold water. Samples were transferred to diethylaminoethyl (DEAE) filtermat (PerkinElmer) using a Filtermat Harvester (Packard Instruments). The RNA-retaining mats were washed twice with 10 mM ammonium formate pH 8.0, twice with water and once with ethanol. They were soaked with scintillation fluid (PerkinElmer), and 3H-methyl transfer to the RNA substrates was determined using a Wallac MicroBeta TriLux Liquid Scintillation Counter (PerkinElmer). For IC50 measurements, values were normalized and fitted with Prism (GraphPad software) using the following equation: Y = 100/(1+((X/IC50)^Hillslope)). IC50 is defined as the inhibitory compound concentration that causes 50% reduction in enzyme activity."}

PMC:7291971 / 85467-86967 JSONTXT

Annnotations TAB JSON ListView MergeView

PMC:7291971 / 85467-86967 JSON TXT