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    LitCovid-PubTator

    {"project":"LitCovid-PubTator","denotations":[{"id":"671","span":{"begin":30,"end":48},"obj":"Chemical"},{"id":"672","span":{"begin":50,"end":56},"obj":"Chemical"},{"id":"673","span":{"begin":96,"end":99},"obj":"Chemical"},{"id":"674","span":{"begin":120,"end":123},"obj":"Chemical"},{"id":"675","span":{"begin":148,"end":154},"obj":"Chemical"},{"id":"676","span":{"begin":204,"end":210},"obj":"Chemical"},{"id":"677","span":{"begin":226,"end":229},"obj":"Chemical"},{"id":"678","span":{"begin":317,"end":324},"obj":"Chemical"},{"id":"679","span":{"begin":334,"end":337},"obj":"Chemical"},{"id":"680","span":{"begin":361,"end":367},"obj":"Chemical"},{"id":"681","span":{"begin":404,"end":407},"obj":"Chemical"},{"id":"682","span":{"begin":443,"end":448},"obj":"Chemical"},{"id":"683","span":{"begin":487,"end":508},"obj":"Chemical"},{"id":"684","span":{"begin":520,"end":523},"obj":"Chemical"},{"id":"685","span":{"begin":578,"end":584},"obj":"Chemical"},{"id":"686","span":{"begin":601,"end":604},"obj":"Chemical"},{"id":"687","span":{"begin":700,"end":706},"obj":"Chemical"},{"id":"688","span":{"begin":726,"end":729},"obj":"Chemical"},{"id":"689","span":{"begin":798,"end":801},"obj":"Chemical"},{"id":"690","span":{"begin":812,"end":818},"obj":"Chemical"},{"id":"691","span":{"begin":862,"end":873},"obj":"Chemical"}],"attributes":[{"id":"A671","pred":"tao:has_database_id","subj":"671","obj":"MESH:D006886"},{"id":"A673","pred":"tao:has_database_id","subj":"673","obj":"MESH:D005677"},{"id":"A674","pred":"tao:has_database_id","subj":"674","obj":"MESH:D005677"},{"id":"A677","pred":"tao:has_database_id","subj":"677","obj":"MESH:D005677"},{"id":"A678","pred":"tao:has_database_id","subj":"678","obj":"MESH:D005947"},{"id":"A679","pred":"tao:has_database_id","subj":"679","obj":"MESH:D005677"},{"id":"A681","pred":"tao:has_database_id","subj":"681","obj":"MESH:D005677"},{"id":"A682","pred":"tao:has_database_id","subj":"682","obj":"MESH:C022084"},{"id":"A683","pred":"tao:has_database_id","subj":"683","obj":"MESH:D000116"},{"id":"A684","pred":"tao:has_database_id","subj":"684","obj":"MESH:D005677"},{"id":"A686","pred":"tao:has_database_id","subj":"686","obj":"MESH:D005677"},{"id":"A688","pred":"tao:has_database_id","subj":"688","obj":"MESH:D005677"},{"id":"A689","pred":"tao:has_database_id","subj":"689","obj":"MESH:D005677"},{"id":"A691","pred":"tao:has_database_id","subj":"691","obj":"MESH:D005732"}],"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":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PMC-OGER-BB

    {"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T535","span":{"begin":30,"end":48},"obj":"CHEBI:5801;DG_20;CHEBI:5801"},{"id":"T536","span":{"begin":74,"end":80},"obj":"SO:0000417"},{"id":"T537","span":{"begin":155,"end":164},"obj":"CHEBI:36357;CHEBI:36357"},{"id":"T538","span":{"begin":211,"end":220},"obj":"CHEBI:36357;CHEBI:36357"},{"id":"T539","span":{"begin":317,"end":324},"obj":"CHEBI:17234;CHEBI:17234"},{"id":"T540","span":{"begin":487,"end":508},"obj":"CHEBI:28800;CHEBI:28800"},{"id":"T541","span":{"begin":630,"end":634},"obj":"CHEBI:23888;CHEBI:23888"},{"id":"T542","span":{"begin":707,"end":716},"obj":"CHEBI:36357;CHEBI:36357"},{"id":"T543","span":{"begin":819,"end":828},"obj":"CHEBI:36357;CHEBI:36357"},{"id":"T544","span":{"begin":862,"end":873},"obj":"CHEBI:5386;CHEBI:5386"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PD-FMA-UBERON

    {"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T161","span":{"begin":317,"end":324},"obj":"Body_part"},{"id":"T162","span":{"begin":487,"end":508},"obj":"Body_part"},{"id":"T163","span":{"begin":862,"end":873},"obj":"Body_part"}],"attributes":[{"id":"A161","pred":"fma_id","subj":"T161","obj":"http://purl.org/sig/ont/fma/fma82743"},{"id":"A162","pred":"fma_id","subj":"T162","obj":"http://purl.org/sig/ont/fma/fma82786"},{"id":"A163","pred":"fma_id","subj":"T163","obj":"http://purl.org/sig/ont/fma/fma82816"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PD-MONDO

    {"project":"LitCovid-PD-MONDO","denotations":[{"id":"T111","span":{"begin":82,"end":85},"obj":"Disease"},{"id":"T113","span":{"begin":191,"end":194},"obj":"Disease"},{"id":"T115","span":{"begin":464,"end":467},"obj":"Disease"},{"id":"T117","span":{"begin":663,"end":666},"obj":"Disease"},{"id":"T119","span":{"begin":783,"end":786},"obj":"Disease"}],"attributes":[{"id":"A111","pred":"mondo_id","subj":"T111","obj":"http://purl.obolibrary.org/obo/MONDO_0008449"},{"id":"A112","pred":"mondo_id","subj":"T111","obj":"http://purl.obolibrary.org/obo/MONDO_0018075"},{"id":"A113","pred":"mondo_id","subj":"T113","obj":"http://purl.obolibrary.org/obo/MONDO_0008449"},{"id":"A114","pred":"mondo_id","subj":"T113","obj":"http://purl.obolibrary.org/obo/MONDO_0018075"},{"id":"A115","pred":"mondo_id","subj":"T115","obj":"http://purl.obolibrary.org/obo/MONDO_0008449"},{"id":"A116","pred":"mondo_id","subj":"T115","obj":"http://purl.obolibrary.org/obo/MONDO_0018075"},{"id":"A117","pred":"mondo_id","subj":"T117","obj":"http://purl.obolibrary.org/obo/MONDO_0008449"},{"id":"A118","pred":"mondo_id","subj":"T117","obj":"http://purl.obolibrary.org/obo/MONDO_0018075"},{"id":"A119","pred":"mondo_id","subj":"T119","obj":"http://purl.obolibrary.org/obo/MONDO_0008449"},{"id":"A120","pred":"mondo_id","subj":"T119","obj":"http://purl.obolibrary.org/obo/MONDO_0018075"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PD-CLO

    {"project":"LitCovid-PD-CLO","denotations":[{"id":"T190","span":{"begin":253,"end":254},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T191","span":{"begin":255,"end":256},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"},{"id":"T192","span":{"begin":412,"end":413},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PD-CHEBI

    {"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T579","span":{"begin":30,"end":48},"obj":"Chemical"},{"id":"T580","span":{"begin":96,"end":99},"obj":"Chemical"},{"id":"T583","span":{"begin":120,"end":123},"obj":"Chemical"},{"id":"T586","span":{"begin":155,"end":164},"obj":"Chemical"},{"id":"T587","span":{"begin":211,"end":220},"obj":"Chemical"},{"id":"T588","span":{"begin":226,"end":229},"obj":"Chemical"},{"id":"T591","span":{"begin":317,"end":324},"obj":"Chemical"},{"id":"T593","span":{"begin":334,"end":337},"obj":"Chemical"},{"id":"T596","span":{"begin":404,"end":407},"obj":"Chemical"},{"id":"T599","span":{"begin":487,"end":508},"obj":"Chemical"},{"id":"T600","span":{"begin":520,"end":523},"obj":"Chemical"},{"id":"T603","span":{"begin":601,"end":604},"obj":"Chemical"},{"id":"T606","span":{"begin":630,"end":634},"obj":"Chemical"},{"id":"T607","span":{"begin":707,"end":716},"obj":"Chemical"},{"id":"T608","span":{"begin":726,"end":729},"obj":"Chemical"},{"id":"T611","span":{"begin":798,"end":801},"obj":"Chemical"},{"id":"T614","span":{"begin":819,"end":828},"obj":"Chemical"},{"id":"T615","span":{"begin":862,"end":873},"obj":"Chemical"}],"attributes":[{"id":"A579","pred":"chebi_id","subj":"T579","obj":"http://purl.obolibrary.org/obo/CHEBI_5801"},{"id":"A580","pred":"chebi_id","subj":"T580","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A581","pred":"chebi_id","subj":"T580","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A582","pred":"chebi_id","subj":"T580","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A583","pred":"chebi_id","subj":"T583","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A584","pred":"chebi_id","subj":"T583","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A585","pred":"chebi_id","subj":"T583","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A586","pred":"chebi_id","subj":"T586","obj":"http://purl.obolibrary.org/obo/CHEBI_25367"},{"id":"A587","pred":"chebi_id","subj":"T587","obj":"http://purl.obolibrary.org/obo/CHEBI_25367"},{"id":"A588","pred":"chebi_id","subj":"T588","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A589","pred":"chebi_id","subj":"T588","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A590","pred":"chebi_id","subj":"T588","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A591","pred":"chebi_id","subj":"T591","obj":"http://purl.obolibrary.org/obo/CHEBI_17234"},{"id":"A592","pred":"chebi_id","subj":"T591","obj":"http://purl.obolibrary.org/obo/CHEBI_4167"},{"id":"A593","pred":"chebi_id","subj":"T593","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A594","pred":"chebi_id","subj":"T593","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A595","pred":"chebi_id","subj":"T593","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A596","pred":"chebi_id","subj":"T596","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A597","pred":"chebi_id","subj":"T596","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A598","pred":"chebi_id","subj":"T596","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A599","pred":"chebi_id","subj":"T599","obj":"http://purl.obolibrary.org/obo/CHEBI_28800"},{"id":"A600","pred":"chebi_id","subj":"T600","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A601","pred":"chebi_id","subj":"T600","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A602","pred":"chebi_id","subj":"T600","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A603","pred":"chebi_id","subj":"T603","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A604","pred":"chebi_id","subj":"T603","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A605","pred":"chebi_id","subj":"T603","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A606","pred":"chebi_id","subj":"T606","obj":"http://purl.obolibrary.org/obo/CHEBI_23888"},{"id":"A607","pred":"chebi_id","subj":"T607","obj":"http://purl.obolibrary.org/obo/CHEBI_25367"},{"id":"A608","pred":"chebi_id","subj":"T608","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A609","pred":"chebi_id","subj":"T608","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A610","pred":"chebi_id","subj":"T608","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A611","pred":"chebi_id","subj":"T611","obj":"http://purl.obolibrary.org/obo/CHEBI_18216"},{"id":"A612","pred":"chebi_id","subj":"T611","obj":"http://purl.obolibrary.org/obo/CHEBI_61048"},{"id":"A613","pred":"chebi_id","subj":"T611","obj":"http://purl.obolibrary.org/obo/CHEBI_73110"},{"id":"A614","pred":"chebi_id","subj":"T614","obj":"http://purl.obolibrary.org/obo/CHEBI_25367"},{"id":"A615","pred":"chebi_id","subj":"T615","obj":"http://purl.obolibrary.org/obo/CHEBI_28892"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-PD-GlycoEpitope

    {"project":"LitCovid-PD-GlycoEpitope","denotations":[{"id":"T34","span":{"begin":96,"end":99},"obj":"GlycoEpitope"},{"id":"T35","span":{"begin":120,"end":123},"obj":"GlycoEpitope"},{"id":"T36","span":{"begin":226,"end":229},"obj":"GlycoEpitope"},{"id":"T37","span":{"begin":334,"end":337},"obj":"GlycoEpitope"},{"id":"T38","span":{"begin":404,"end":407},"obj":"GlycoEpitope"},{"id":"T39","span":{"begin":520,"end":523},"obj":"GlycoEpitope"},{"id":"T40","span":{"begin":601,"end":604},"obj":"GlycoEpitope"},{"id":"T41","span":{"begin":726,"end":729},"obj":"GlycoEpitope"},{"id":"T42","span":{"begin":798,"end":801},"obj":"GlycoEpitope"}],"attributes":[{"id":"A38","pred":"glyco_epitope_db_id","subj":"T38","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A36","pred":"glyco_epitope_db_id","subj":"T36","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A42","pred":"glyco_epitope_db_id","subj":"T42","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A37","pred":"glyco_epitope_db_id","subj":"T37","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A34","pred":"glyco_epitope_db_id","subj":"T34","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A40","pred":"glyco_epitope_db_id","subj":"T40","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A39","pred":"glyco_epitope_db_id","subj":"T39","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A41","pred":"glyco_epitope_db_id","subj":"T41","obj":"http://www.glycoepitope.jp/epitopes/EP0050"},{"id":"A35","pred":"glyco_epitope_db_id","subj":"T35","obj":"http://www.glycoepitope.jp/epitopes/EP0050"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}

    LitCovid-sentences

    {"project":"LitCovid-sentences","denotations":[{"id":"T198","span":{"begin":0,"end":58},"obj":"Sentence"},{"id":"T199","span":{"begin":59,"end":165},"obj":"Sentence"},{"id":"T200","span":{"begin":166,"end":438},"obj":"Sentence"},{"id":"T201","span":{"begin":439,"end":874},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Fig. 9 Mechanism of action of hydroxychloroquine (CLQ-OH). The N-terminal domain (NTD) bound to GM1 was superposed onto GM1 in interaction with two CLQ-OH molecules. The models only show the NTD and both CLQ-OH molecules (not GM1, to improve clarity). (a,b) The aromatic ring of F-135 (in red), which stacks onto the glucose cycle of GM1, overlaps the aromatic CLQ-OH rings (in green) which also bind to GM1 via a CH-π stacking mechanism. The N-137 residue of the NTD interacts with the N-acetylgalactosamine residue of GM1, but this interaction cannot occur in the presence of CLQ-OH as this part of GM1 is totally masked by the drug. (c,d) Superposition of the NTD surface (in purple) with the two CLQ-OH molecules bound to GM1, illustrating the steric impossibility that prevents NTD binding to GM1 when both CLQ-OH molecules are already interacting with the ganglioside."}