PMC:7556165 / 45782-46524 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7556165","sourcedb":"PMC","sourceid":"7556165","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7556165","text":"The SARS-CoV-2 RBD sequence was further investigated by structural analysis. X-ray crystallography showed that SARS-CoV-2 RBD folds into two structural domains (Figure 8): (1) the core subdomain with five antiparallel β-strands (β1, β2, β3, β4, β7), (2) the external subdomain, which inserts between β4 and β7, and it is characterized by the two small β5 and β6 strands [β1’ and β2’ in Wang et al. (2020)] connected by a disulfide bond (Lan et al., 2020; Wang et al., 2020). In keeping with their high sequence homology, the 3D structure of SARS-COV-2 and SARS-CoV RBD nearly superimpose (RMSD = 0.475 Å for 128 Cα atoms; Wang et al., 2020) with the exception of the β5/β6 loop, which actually entailed the larger primary sequence difference.","tracks":[{"project":"LitCovid-sample-MedDRA","denotations":[{"id":"T80","span":{"begin":40,"end":52},"obj":"http://purl.bioontology.org/ontology/MEDDRA/10022891"},{"id":"T81","span":{"begin":77,"end":82},"obj":"http://purl.bioontology.org/ontology/MEDDRA/10022891"}],"attributes":[{"id":"A80","pred":"meddra_id","subj":"T80","obj":"http://purl.bioontology.org/ontology/MEDDRA/10062026"},{"id":"A81","pred":"meddra_id","subj":"T81","obj":"http://purl.bioontology.org/ontology/MEDDRA/10048064"},{"subj":"T80","pred":"source","obj":"LitCovid-sample-MedDRA"},{"subj":"T81","pred":"source","obj":"LitCovid-sample-MedDRA"}]},{"project":"LitCovid-sample-CHEBI","denotations":[{"id":"T156","span":{"begin":421,"end":430},"obj":"Chemical"},{"id":"T157","span":{"begin":615,"end":620},"obj":"Chemical"}],"attributes":[{"id":"A156","pred":"chebi_id","subj":"T156","obj":"http://purl.obolibrary.org/obo/CHEBI_48343"},{"id":"A157","pred":"chebi_id","subj":"T157","obj":"http://purl.obolibrary.org/obo/CHEBI_33250"},{"subj":"T156","pred":"source","obj":"LitCovid-sample-CHEBI"},{"subj":"T157","pred":"source","obj":"LitCovid-sample-CHEBI"}]},{"project":"LitCovid-sample-PD-NCBITaxon","denotations":[{"id":"T219","span":{"begin":4,"end":14},"obj":"Species"},{"id":"T220","span":{"begin":4,"end":8},"obj":"Species"},{"id":"T221","span":{"begin":111,"end":121},"obj":"Species"},{"id":"T222","span":{"begin":111,"end":115},"obj":"Species"},{"id":"T223","span":{"begin":541,"end":551},"obj":"Species"},{"id":"T224","span":{"begin":541,"end":545},"obj":"Species"},{"id":"T225","span":{"begin":556,"end":564},"obj":"Species"},{"id":"T226","span":{"begin":556,"end":560},"obj":"Species"}],"attributes":[{"id":"A219","pred":"ncbi_taxonomy_id","subj":"T219","obj":"NCBItxid:2697049"},{"id":"A220","pred":"ncbi_taxonomy_id","subj":"T220","obj":"NCBItxid:694009"},{"id":"A221","pred":"ncbi_taxonomy_id","subj":"T221","obj":"NCBItxid:2697049"},{"id":"A222","pred":"ncbi_taxonomy_id","subj":"T222","obj":"NCBItxid:694009"},{"id":"A223","pred":"ncbi_taxonomy_id","subj":"T223","obj":"NCBItxid:2697049"},{"id":"A224","pred":"ncbi_taxonomy_id","subj":"T224","obj":"NCBItxid:694009"},{"id":"A225","pred":"ncbi_taxonomy_id","subj":"T225","obj":"NCBItxid:694009"},{"id":"A226","pred":"ncbi_taxonomy_id","subj":"T226","obj":"NCBItxid:694009"},{"subj":"T219","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T220","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T221","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T222","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T223","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T224","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T225","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"},{"subj":"T226","pred":"source","obj":"LitCovid-sample-PD-NCBITaxon"}],"namespaces":[{"prefix":"NCBItxid","uri":"http://purl.bioontology.org/ontology/NCBITAXON/"}]},{"project":"LitCovid-sample-sentences","denotations":[{"id":"T282","span":{"begin":0,"end":76},"obj":"Sentence"},{"id":"T283","span":{"begin":77,"end":474},"obj":"Sentence"},{"id":"T284","span":{"begin":475,"end":742},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T282","pred":"source","obj":"LitCovid-sample-sentences"},{"subj":"T283","pred":"source","obj":"LitCovid-sample-sentences"},{"subj":"T284","pred":"source","obj":"LitCovid-sample-sentences"}]},{"project":"LitCovid-sample-Pubtator","denotations":[{"id":"1248","span":{"begin":229,"end":231},"obj":"Gene"},{"id":"1249","span":{"begin":233,"end":235},"obj":"Gene"},{"id":"1250","span":{"begin":237,"end":239},"obj":"Gene"},{"id":"1251","span":{"begin":241,"end":243},"obj":"Gene"},{"id":"1252","span":{"begin":245,"end":247},"obj":"Gene"},{"id":"1253","span":{"begin":300,"end":302},"obj":"Gene"},{"id":"1254","span":{"begin":379,"end":382},"obj":"Gene"},{"id":"1255","span":{"begin":371,"end":374},"obj":"Gene"},{"id":"1256","span":{"begin":359,"end":361},"obj":"Gene"},{"id":"1257","span":{"begin":352,"end":354},"obj":"Gene"},{"id":"1258","span":{"begin":307,"end":309},"obj":"Gene"},{"id":"1259","span":{"begin":4,"end":14},"obj":"Species"},{"id":"1260","span":{"begin":111,"end":121},"obj":"Species"},{"id":"1261","span":{"begin":541,"end":551},"obj":"Species"},{"id":"1262","span":{"begin":556,"end":564},"obj":"Species"},{"id":"1263","span":{"begin":421,"end":430},"obj":"Chemical"},{"id":"1276","span":{"begin":541,"end":551},"obj":"Species"}],"attributes":[{"id":"A1256","pred":"pubann:denotes","subj":"1256","obj":"Gene:28873"},{"id":"A1255","pred":"pubann:denotes","subj":"1255","obj":"Gene:597"},{"id":"A1252","pred":"pubann:denotes","subj":"1252","obj":"Gene:28885"},{"id":"A1259","pred":"pubann:denotes","subj":"1259","obj":"Tax:2697049"},{"id":"A1249","pred":"pubann:denotes","subj":"1249","obj":"Gene:170589"},{"id":"A1258","pred":"pubann:denotes","subj":"1258","obj":"Gene:28885"},{"id":"A1253","pred":"pubann:denotes","subj":"1253","obj":"Gene:28898"},{"id":"A1276","pred":"pubann:denotes","subj":"1276","obj":"Tax:2697049"},{"id":"A1261","pred":"pubann:denotes","subj":"1261","obj":"Tax:2697049"},{"id":"A1257","pred":"pubann:denotes","subj":"1257","obj":"Gene:28884"},{"id":"A1254","pred":"pubann:denotes","subj":"1254","obj":"Gene:170589"},{"id":"A1248","pred":"pubann:denotes","subj":"1248","obj":"Gene:597"},{"id":"A1262","pred":"pubann:denotes","subj":"1262","obj":"Tax:694009"},{"id":"A1263","pred":"pubann:denotes","subj":"1263","obj":"MESH:D004220"},{"id":"A1260","pred":"pubann:denotes","subj":"1260","obj":"Tax:2697049"},{"id":"A1251","pred":"pubann:denotes","subj":"1251","obj":"Gene:28898"},{"id":"A1250","pred":"pubann:denotes","subj":"1250","obj":"Gene:28883"},{"subj":"1248","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1249","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1250","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1251","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1252","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1253","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1254","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1255","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1256","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1257","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1258","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1259","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1260","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1261","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1262","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1263","pred":"source","obj":"LitCovid-sample-Pubtator"},{"subj":"1276","pred":"source","obj":"LitCovid-sample-Pubtator"}]},{"project":"LitCovid-sample-UniProt","denotations":[{"id":"T5046","span":{"begin":15,"end":18},"obj":"Protein"},{"id":"T5055","span":{"begin":122,"end":125},"obj":"Protein"},{"id":"T5064","span":{"begin":565,"end":568},"obj":"Protein"}],"attributes":[{"id":"A5046","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/Q63492"},{"id":"A5047","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/Q63491"},{"id":"A5048","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/Q62815"},{"id":"A5049","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/Q62691"},{"id":"A5050","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/Q01542"},{"id":"A5051","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/P27732"},{"id":"A5052","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/O09024"},{"id":"A5053","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/O09023"},{"id":"A5054","pred":"uniprot_id","subj":"T5046","obj":"https://www.uniprot.org/uniprot/O09022"},{"id":"A5055","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/Q63492"},{"id":"A5056","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/Q63491"},{"id":"A5057","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/Q62815"},{"id":"A5058","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/Q62691"},{"id":"A5059","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/Q01542"},{"id":"A5060","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/P27732"},{"id":"A5061","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/O09024"},{"id":"A5062","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/O09023"},{"id":"A5063","pred":"uniprot_id","subj":"T5055","obj":"https://www.uniprot.org/uniprot/O09022"},{"id":"A5064","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/Q63492"},{"id":"A5065","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/Q63491"},{"id":"A5066","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/Q62815"},{"id":"A5067","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/Q62691"},{"id":"A5068","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/Q01542"},{"id":"A5069","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/P27732"},{"id":"A5070","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/O09024"},{"id":"A5071","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/O09023"},{"id":"A5072","pred":"uniprot_id","subj":"T5064","obj":"https://www.uniprot.org/uniprot/O09022"},{"subj":"T5046","pred":"source","obj":"LitCovid-sample-UniProt"},{"subj":"T5055","pred":"source","obj":"LitCovid-sample-UniProt"},{"subj":"T5064","pred":"source","obj":"LitCovid-sample-UniProt"}]},{"project":"LitCovid-sample-PD-MONDO","denotations":[{"id":"T199","span":{"begin":4,"end":14},"obj":"Disease"},{"id":"T200","span":{"begin":4,"end":8},"obj":"Disease"},{"id":"T201","span":{"begin":111,"end":121},"obj":"Disease"},{"id":"T202","span":{"begin":111,"end":115},"obj":"Disease"},{"id":"T203","span":{"begin":541,"end":551},"obj":"Disease"},{"id":"T204","span":{"begin":541,"end":545},"obj":"Disease"},{"id":"T205","span":{"begin":556,"end":564},"obj":"Disease"},{"id":"T206","span":{"begin":556,"end":560},"obj":"Disease"}],"attributes":[{"id":"A199","pred":"mondo_id","subj":"T199","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A200","pred":"mondo_id","subj":"T200","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A201","pred":"mondo_id","subj":"T201","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A202","pred":"mondo_id","subj":"T202","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A203","pred":"mondo_id","subj":"T203","obj":"http://purl.obolibrary.org/obo/MONDO_0100096"},{"id":"A204","pred":"mondo_id","subj":"T204","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A205","pred":"mondo_id","subj":"T205","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A206","pred":"mondo_id","subj":"T206","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T199","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T200","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T201","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T202","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T203","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T204","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T205","pred":"source","obj":"LitCovid-sample-PD-MONDO"},{"subj":"T206","pred":"source","obj":"LitCovid-sample-PD-MONDO"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"1248","span":{"begin":229,"end":231},"obj":"Gene"},{"id":"1249","span":{"begin":233,"end":235},"obj":"Gene"},{"id":"1250","span":{"begin":237,"end":239},"obj":"Gene"},{"id":"1251","span":{"begin":241,"end":243},"obj":"Gene"},{"id":"1252","span":{"begin":245,"end":247},"obj":"Gene"},{"id":"1253","span":{"begin":300,"end":302},"obj":"Gene"},{"id":"1254","span":{"begin":379,"end":382},"obj":"Gene"},{"id":"1255","span":{"begin":371,"end":374},"obj":"Gene"},{"id":"1256","span":{"begin":359,"end":361},"obj":"Gene"},{"id":"1257","span":{"begin":352,"end":354},"obj":"Gene"},{"id":"1258","span":{"begin":307,"end":309},"obj":"Gene"},{"id":"1259","span":{"begin":4,"end":14},"obj":"Species"},{"id":"1260","span":{"begin":111,"end":121},"obj":"Species"},{"id":"1261","span":{"begin":541,"end":551},"obj":"Species"},{"id":"1262","span":{"begin":556,"end":564},"obj":"Species"},{"id":"1263","span":{"begin":421,"end":430},"obj":"Chemical"}],"attributes":[{"id":"A1248","pred":"tao:has_database_id","subj":"1248","obj":"Gene:597"},{"id":"A1249","pred":"tao:has_database_id","subj":"1249","obj":"Gene:170589"},{"id":"A1250","pred":"tao:has_database_id","subj":"1250","obj":"Gene:28883"},{"id":"A1251","pred":"tao:has_database_id","subj":"1251","obj":"Gene:28898"},{"id":"A1252","pred":"tao:has_database_id","subj":"1252","obj":"Gene:28885"},{"id":"A1253","pred":"tao:has_database_id","subj":"1253","obj":"Gene:28898"},{"id":"A1254","pred":"tao:has_database_id","subj":"1254","obj":"Gene:170589"},{"id":"A1255","pred":"tao:has_database_id","subj":"1255","obj":"Gene:597"},{"id":"A1256","pred":"tao:has_database_id","subj":"1256","obj":"Gene:28873"},{"id":"A1257","pred":"tao:has_database_id","subj":"1257","obj":"Gene:28884"},{"id":"A1258","pred":"tao:has_database_id","subj":"1258","obj":"Gene:28885"},{"id":"A1259","pred":"tao:has_database_id","subj":"1259","obj":"Tax:2697049"},{"id":"A1260","pred":"tao:has_database_id","subj":"1260","obj":"Tax:2697049"},{"id":"A1261","pred":"tao:has_database_id","subj":"1261","obj":"Tax:2697049"},{"id":"A1262","pred":"tao:has_database_id","subj":"1262","obj":"Tax:694009"},{"id":"A1263","pred":"tao:has_database_id","subj":"1263","obj":"MESH:D004220"},{"subj":"1248","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1249","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1250","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1251","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1252","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1253","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1254","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1255","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1256","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1257","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1258","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1259","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1260","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1261","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1262","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1263","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_"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T282","span":{"begin":0,"end":76},"obj":"Sentence"},{"id":"T283","span":{"begin":77,"end":474},"obj":"Sentence"},{"id":"T284","span":{"begin":475,"end":742},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T282","pred":"source","obj":"LitCovid-sentences"},{"subj":"T283","pred":"source","obj":"LitCovid-sentences"},{"subj":"T284","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-sample-MedDRA","color":"#c693ec","default":true},{"id":"LitCovid-sample-CHEBI","color":"#93ecac"},{"id":"LitCovid-sample-PD-NCBITaxon","color":"#ec9393"},{"id":"LitCovid-sample-sentences","color":"#93adec"},{"id":"LitCovid-sample-Pubtator","color":"#c7ec93"},{"id":"LitCovid-sample-UniProt","color":"#ec93e1"},{"id":"LitCovid-sample-PD-MONDO","color":"#93ecdc"},{"id":"LitCovid-PubTator","color":"#ecc293"},{"id":"LitCovid-sentences","color":"#a893ec"}]}]}}