PMC:7033698 / 8143-9181 JSONTXT

Annnotations TAB JSON ListView MergeView

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7033698","sourcedb":"PMC","sourceid":"7033698","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7033698","text":"Third, insertions 1 and 2 in 2019-nCoV have 6-AA motifs identical to those in V4 and V5 of certain HIV-1 gp120 isolates, which are structurally close to each other but separated by a LE loop (Figure 1C) [9]. However, insertion 3 located between insertions 1 and 2 in 2019-nCoV has sequences similar (with deletions) to those in the V1 region of HIV-1 gp120. V1 is far away from V4 and V5 on the opposite side of gp120, which should not interact with V4/V5 in gp120 (Figure 1C) but is now inserted between V4 and V5 in the modelled the 2019-nCoV spike protein structure [10]. Insertion 4 was found in Gag protein of HIV-1 that is not associated with viral entry. This insertion is located too far to be considered to form the same structural unit with the other three insertions in the 2019-nCoV spike protein (Figure 1C). We do not see any selection benefit or rationale for 2019-nCoV to obtain and mix structurally unrelated parts of HIV-1 to generate a unique structure for its enhanced receptor binding as indicated by the authors [8].","tracks":[{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T64","span":{"begin":99,"end":102},"obj":"Body_part"},{"id":"T65","span":{"begin":332,"end":334},"obj":"Body_part"},{"id":"T67","span":{"begin":345,"end":348},"obj":"Body_part"},{"id":"T68","span":{"begin":358,"end":360},"obj":"Body_part"},{"id":"T70","span":{"begin":551,"end":558},"obj":"Body_part"},{"id":"T71","span":{"begin":600,"end":603},"obj":"Body_part"},{"id":"T72","span":{"begin":604,"end":611},"obj":"Body_part"},{"id":"T73","span":{"begin":615,"end":618},"obj":"Body_part"},{"id":"T74","span":{"begin":801,"end":808},"obj":"Body_part"},{"id":"T75","span":{"begin":935,"end":938},"obj":"Body_part"}],"attributes":[{"id":"A64","pred":"fma_id","subj":"T64","obj":"http://purl.org/sig/ont/fma/fma278683"},{"id":"A65","pred":"fma_id","subj":"T65","obj":"http://purl.org/sig/ont/fma/fma13444"},{"id":"A66","pred":"fma_id","subj":"T65","obj":"http://purl.org/sig/ont/fma/fma68614"},{"id":"A67","pred":"fma_id","subj":"T67","obj":"http://purl.org/sig/ont/fma/fma278683"},{"id":"A68","pred":"fma_id","subj":"T68","obj":"http://purl.org/sig/ont/fma/fma13444"},{"id":"A69","pred":"fma_id","subj":"T68","obj":"http://purl.org/sig/ont/fma/fma68614"},{"id":"A70","pred":"fma_id","subj":"T70","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A71","pred":"fma_id","subj":"T71","obj":"http://purl.org/sig/ont/fma/fma63011"},{"id":"A72","pred":"fma_id","subj":"T72","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A73","pred":"fma_id","subj":"T73","obj":"http://purl.org/sig/ont/fma/fma278683"},{"id":"A74","pred":"fma_id","subj":"T74","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A75","pred":"fma_id","subj":"T75","obj":"http://purl.org/sig/ont/fma/fma278683"},{"subj":"T64","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T65","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T67","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T68","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T70","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T71","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T72","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T73","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T74","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T75","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T80","span":{"begin":46,"end":48},"obj":"http://purl.obolibrary.org/obo/CLO_0001627"},{"id":"T81","span":{"begin":181,"end":182},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T82","span":{"begin":277,"end":280},"obj":"http://purl.obolibrary.org/obo/CLO_0051582"},{"id":"T83","span":{"begin":953,"end":954},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"attributes":[{"subj":"T80","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T81","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T82","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T83","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T15","span":{"begin":46,"end":48},"obj":"Chemical"},{"id":"T17","span":{"begin":183,"end":185},"obj":"Chemical"},{"id":"T18","span":{"begin":551,"end":558},"obj":"Chemical"},{"id":"T19","span":{"begin":604,"end":611},"obj":"Chemical"},{"id":"T20","span":{"begin":801,"end":808},"obj":"Chemical"}],"attributes":[{"id":"A15","pred":"chebi_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/CHEBI_15843"},{"id":"A16","pred":"chebi_id","subj":"T15","obj":"http://purl.obolibrary.org/obo/CHEBI_72816"},{"id":"A17","pred":"chebi_id","subj":"T17","obj":"http://purl.obolibrary.org/obo/CHEBI_74531"},{"id":"A18","pred":"chebi_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A19","pred":"chebi_id","subj":"T19","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A20","pred":"chebi_id","subj":"T20","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"subj":"T15","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T17","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T18","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T19","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T20","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T70","span":{"begin":0,"end":207},"obj":"Sentence"},{"id":"T71","span":{"begin":208,"end":357},"obj":"Sentence"},{"id":"T72","span":{"begin":358,"end":574},"obj":"Sentence"},{"id":"T73","span":{"begin":575,"end":661},"obj":"Sentence"},{"id":"T74","span":{"begin":662,"end":821},"obj":"Sentence"},{"id":"T75","span":{"begin":822,"end":1038},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T70","pred":"source","obj":"LitCovid-sentences"},{"subj":"T71","pred":"source","obj":"LitCovid-sentences"},{"subj":"T72","pred":"source","obj":"LitCovid-sentences"},{"subj":"T73","pred":"source","obj":"LitCovid-sentences"},{"subj":"T74","pred":"source","obj":"LitCovid-sentences"},{"subj":"T75","pred":"source","obj":"LitCovid-sentences"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"237","span":{"begin":105,"end":110},"obj":"Gene"},{"id":"238","span":{"begin":351,"end":356},"obj":"Gene"},{"id":"239","span":{"begin":412,"end":417},"obj":"Gene"},{"id":"240","span":{"begin":459,"end":464},"obj":"Gene"},{"id":"241","span":{"begin":600,"end":603},"obj":"Gene"},{"id":"242","span":{"begin":795,"end":800},"obj":"Gene"},{"id":"243","span":{"begin":545,"end":550},"obj":"Gene"},{"id":"244","span":{"begin":29,"end":38},"obj":"Species"},{"id":"245","span":{"begin":99,"end":104},"obj":"Species"},{"id":"246","span":{"begin":267,"end":276},"obj":"Species"},{"id":"247","span":{"begin":345,"end":350},"obj":"Species"},{"id":"248","span":{"begin":535,"end":544},"obj":"Species"},{"id":"249","span":{"begin":615,"end":620},"obj":"Species"},{"id":"250","span":{"begin":785,"end":794},"obj":"Species"},{"id":"251","span":{"begin":875,"end":884},"obj":"Species"},{"id":"252","span":{"begin":935,"end":940},"obj":"Species"},{"id":"253","span":{"begin":217,"end":226},"obj":"Species"},{"id":"254","span":{"begin":575,"end":584},"obj":"Species"},{"id":"255","span":{"begin":667,"end":676},"obj":"Species"}],"attributes":[{"id":"A237","pred":"tao:has_database_id","subj":"237","obj":"Gene:3700"},{"id":"A238","pred":"tao:has_database_id","subj":"238","obj":"Gene:3700"},{"id":"A239","pred":"tao:has_database_id","subj":"239","obj":"Gene:3700"},{"id":"A240","pred":"tao:has_database_id","subj":"240","obj":"Gene:3700"},{"id":"A241","pred":"tao:has_database_id","subj":"241","obj":"Gene:155030"},{"id":"A242","pred":"tao:has_database_id","subj":"242","obj":"Gene:43740568"},{"id":"A243","pred":"tao:has_database_id","subj":"243","obj":"Gene:43740568"},{"id":"A244","pred":"tao:has_database_id","subj":"244","obj":"Tax:2697049"},{"id":"A245","pred":"tao:has_database_id","subj":"245","obj":"Tax:11676"},{"id":"A246","pred":"tao:has_database_id","subj":"246","obj":"Tax:2697049"},{"id":"A247","pred":"tao:has_database_id","subj":"247","obj":"Tax:11676"},{"id":"A248","pred":"tao:has_database_id","subj":"248","obj":"Tax:2697049"},{"id":"A249","pred":"tao:has_database_id","subj":"249","obj":"Tax:11676"},{"id":"A250","pred":"tao:has_database_id","subj":"250","obj":"Tax:2697049"},{"id":"A251","pred":"tao:has_database_id","subj":"251","obj":"Tax:2697049"},{"id":"A252","pred":"tao:has_database_id","subj":"252","obj":"Tax:11676"},{"id":"A253","pred":"tao:has_database_id","subj":"253","obj":"Tax:2673"},{"id":"A254","pred":"tao:has_database_id","subj":"254","obj":"Tax:2673"},{"id":"A255","pred":"tao:has_database_id","subj":"255","obj":"Tax:2673"},{"subj":"237","pred":"source","obj":"LitCovid-PubTator"},{"subj":"238","pred":"source","obj":"LitCovid-PubTator"},{"subj":"239","pred":"source","obj":"LitCovid-PubTator"},{"subj":"240","pred":"source","obj":"LitCovid-PubTator"},{"subj":"241","pred":"source","obj":"LitCovid-PubTator"},{"subj":"242","pred":"source","obj":"LitCovid-PubTator"},{"subj":"243","pred":"source","obj":"LitCovid-PubTator"},{"subj":"244","pred":"source","obj":"LitCovid-PubTator"},{"subj":"245","pred":"source","obj":"LitCovid-PubTator"},{"subj":"246","pred":"source","obj":"LitCovid-PubTator"},{"subj":"247","pred":"source","obj":"LitCovid-PubTator"},{"subj":"248","pred":"source","obj":"LitCovid-PubTator"},{"subj":"249","pred":"source","obj":"LitCovid-PubTator"},{"subj":"250","pred":"source","obj":"LitCovid-PubTator"},{"subj":"251","pred":"source","obj":"LitCovid-PubTator"},{"subj":"252","pred":"source","obj":"LitCovid-PubTator"},{"subj":"253","pred":"source","obj":"LitCovid-PubTator"},{"subj":"254","pred":"source","obj":"LitCovid-PubTator"},{"subj":"255","pred":"source","obj":"LitCovid-PubTator"}],"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_"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-FMA-UBERON","color":"#a993ec","default":true},{"id":"LitCovid-PD-CLO","color":"#96ec93"},{"id":"LitCovid-PD-CHEBI","color":"#ec93b1"},{"id":"LitCovid-sentences","color":"#93cbec"},{"id":"LitCovid-PubTator","color":"#e5ec93"}]}]}}