> top > docs > PMC:7443692 > spans > 64074-66045 > annotations

PMC:7443692 / 64074-66045 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-sample-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T435 335-342 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154
T436 669-676 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154
T437 1060-1067 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154
T438 1541-1548 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T439 1598-1605 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T440 1611-1623 Chemical denotes glycoprotein http://purl.obolibrary.org/obo/CHEBI_17089
T441 1737-1747 Chemical denotes asparagine http://purl.obolibrary.org/obo/CHEBI_22653
T442 1897-1904 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T176 1528-1538 Species denotes SARS-CoV-2 NCBItxid:2697049

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T432 0-268 Sentence denotes Glycoform generation – Glycans (detected by glycomics) were selected for installation on glycosylated S and ACE2 sequons (detected by glycoproteomics) based on three sets of criteria designed to reasonably capture different aspects of glycosylation microheterogeneity.
T433 269-608 Sentence denotes We denote the first of these glycoform models as “Abundance.” The glycans selected for installation to generate the Abundance model were chosen because they were identified as the most abundant glycan structure (detected by glycomics) that matched the most abundant glycan composition (detected by glycoproteomics) at each individual site.
T434 609-994 Sentence denotes We denote the second glycoform model as “Oxford Class.” The glycans selected for installation to generate the Oxford Class model were chosen because they were the most abundant glycan structure, (detected by glycomics) that was contained within the most highly represented Oxford classification group (detected by glycoproteomics) at each individual site (Figure S7; Tables S1 and S8).
T435 995-1429 Sentence denotes Finally, we denote the third glycoform model as “Processed.” The glycans selected for installation to generate the Processed model were chosen because they were the most highly trimmed, elaborated, or terminally decorated structure (detected by glycomics) that corresponded to a composition (detected by glycoproteomics) which was present at ≥ 1/3rd of the abundance of the most highly represented composition at each site (Table S1).
T436 1430-1606 Sentence denotes 3D structures of the three glycoforms (Abundance, Oxford Class, Processed) were generated for the SARS-CoV-2 S protein alone, and in complex with the glycosylated ACE2 protein.
T437 1607-1970 Sentence denotes The glycoprotein builder available at GLYCAM-Web (www.glycam.org) was employed together with an in-house program that adjusts the asparagine side chain torsion angles and glycosidic linkages within known low-energy ranges (Nivedha et al., 2014) to relieve any atomic overlaps with the core protein, as described previously (Grant et al., 2016; Peng et al., 2017).

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T107 1528-1538 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T5354 108-112 Protein denotes ACE2 https://www.uniprot.org/uniprot/Q9UFZ6
T5355 1539-1548 Protein denotes S protein https://www.uniprot.org/uniprot/Q9UIP0|https://www.uniprot.org/uniprot/Q9UIN9|https://www.uniprot.org/uniprot/Q9UIN8|https://www.uniprot.org/uniprot/Q9UIN7|https://www.uniprot.org/uniprot/Q9UIN6|https://www.uniprot.org/uniprot/Q9UBH8|https://www.uniprot.org/uniprot/Q9NRH8|https://www.uniprot.org/uniprot/Q9NRH7|https://www.uniprot.org/uniprot/Q9NRH6|https://www.uniprot.org/uniprot/Q9NRH5|https://www.uniprot.org/uniprot/Q9NRH4|https://www.uniprot.org/uniprot/Q9NPG5|https://www.uniprot.org/uniprot/Q9NPE0|https://www.uniprot.org/uniprot/Q9NP52|https://www.uniprot.org/uniprot/Q95IF9|https://www.uniprot.org/uniprot/Q8N5P3|https://www.uniprot.org/uniprot/Q8IZU6|https://www.uniprot.org/uniprot/Q8IZU5|https://www.uniprot.org/uniprot/Q8IZU4|https://www.uniprot.org/uniprot/Q86Z04|https://www.uniprot.org/uniprot/Q7YR44|https://www.uniprot.org/uniprot/Q7LA71|https://www.uniprot.org/uniprot/Q7LA70|https://www.uniprot.org/uniprot/Q5STD2|https://www.uniprot.org/uniprot/Q5SQ85|https://www.uniprot.org/uniprot/Q1XI16|https://www.uniprot.org/uniprot/Q1XI12|https://www.uniprot.org/uniprot/Q15517|https://www.uniprot.org/uniprot/O43509|https://www.uniprot.org/uniprot/O19084|https://www.uniprot.org/uniprot/B0UYZ7|https://www.uniprot.org/uniprot/B0S7V2|https://www.uniprot.org/uniprot/A5A6L9
T5388 1593-1597 Protein denotes ACE2 https://www.uniprot.org/uniprot/Q9UFZ6
T5389 1611-1623 Protein denotes glycoprotein https://www.uniprot.org/uniprot/Q9QSP1|https://www.uniprot.org/uniprot/Q9QJT6|https://www.uniprot.org/uniprot/Q9JGT4|https://www.uniprot.org/uniprot/Q9IPJ6|https://www.uniprot.org/uniprot/Q9DIC6|https://www.uniprot.org/uniprot/Q91DS0|https://www.uniprot.org/uniprot/Q91C28|https://www.uniprot.org/uniprot/Q8QQA2|https://www.uniprot.org/uniprot/Q8QPE5|https://www.uniprot.org/uniprot/Q8QPE4|https://www.uniprot.org/uniprot/Q8QPE3|https://www.uniprot.org/uniprot/Q8JTH0|https://www.uniprot.org/uniprot/Q8BDV6|https://www.uniprot.org/uniprot/Q8B6J6|https://www.uniprot.org/uniprot/Q8B0I1|https://www.uniprot.org/uniprot/Q8B0H6|https://www.uniprot.org/uniprot/Q8B0H1|https://www.uniprot.org/uniprot/Q89669|https://www.uniprot.org/uniprot/Q85213|https://www.uniprot.org/uniprot/Q82706|https://www.uniprot.org/uniprot/Q82683|https://www.uniprot.org/uniprot/Q82020|https://www.uniprot.org/uniprot/Q787B5|https://www.uniprot.org/uniprot/Q77SK0|https://www.uniprot.org/uniprot/Q77N36|https://www.uniprot.org/uniprot/Q76G52|https://www.uniprot.org/uniprot/Q75T09|https://www.uniprot.org/uniprot/Q6X1D5|https://www.uniprot.org/uniprot/Q6X1D1|https://www.uniprot.org/uniprot/Q6TYA0|https://www.uniprot.org/uniprot/Q6E0W7|https://www.uniprot.org/uniprot/Q66T62|https://www.uniprot.org/uniprot/Q5VKP3|https://www.uniprot.org/uniprot/Q5VKN9|https://www.uniprot.org/uniprot/Q5K2K4|https://www.uniprot.org/uniprot/Q5IX93|https://www.uniprot.org/uniprot/Q5IX92|https://www.uniprot.org/uniprot/Q5IX91|https://www.uniprot.org/uniprot/Q5IX90|https://www.uniprot.org/uniprot/Q5IX89|https://www.uniprot.org/uniprot/Q5IX88|https://www.uniprot.org/uniprot/Q5IX87|https://www.uniprot.org/uniprot/Q5GA86|https://www.uniprot.org/uniprot/Q58FH1|https://www.uniprot.org/uniprot/Q4VKV3|https://www.uniprot.org/uniprot/Q4F900|https://www.uniprot.org/uniprot/Q49LL3|https://www.uniprot.org/uniprot/Q49IU2|https://www.uniprot.org/uniprot/Q49IU1|https://www.uniprot.org/uniprot/Q49IT9|https://www.uniprot.org/uniprot/Q49IT8|https://www.uniprot.org/uniprot/Q49AV0|https://www.uniprot.org/uniprot/Q0GBY1|https://www.uniprot.org/uniprot/Q0GBX6|https://www.uniprot.org/uniprot/Q08089|https://www.uniprot.org/uniprot/P32595|https://www.uniprot.org/uniprot/P32550|https://www.uniprot.org/uniprot/P19462|https://www.uniprot.org/uniprot/P16288|https://www.uniprot.org/uniprot/P15199|https://www.uniprot.org/uniprot/P13180|https://www.uniprot.org/uniprot/P0C572|https://www.uniprot.org/uniprot/P08667|https://www.uniprot.org/uniprot/P08163|https://www.uniprot.org/uniprot/P07923|https://www.uniprot.org/uniprot/P04884|https://www.uniprot.org/uniprot/P04883|https://www.uniprot.org/uniprot/P04882|https://www.uniprot.org/uniprot/P03524|https://www.uniprot.org/uniprot/P03522|https://www.uniprot.org/uniprot/O92284|https://www.uniprot.org/uniprot/O56677|https://www.uniprot.org/uniprot/O10236|https://www.uniprot.org/uniprot/J7HBH4|https://www.uniprot.org/uniprot/D8V075|https://www.uniprot.org/uniprot/A7WNB3|https://www.uniprot.org/uniprot/A4UHQ6|https://www.uniprot.org/uniprot/A4UHQ1|https://www.uniprot.org/uniprot/A3RM22|https://www.uniprot.org/uniprot/A3F5R8|https://www.uniprot.org/uniprot/A3F5R3|https://www.uniprot.org/uniprot/A3F5Q8|https://www.uniprot.org/uniprot/A3F5N3|https://www.uniprot.org/uniprot/A3F5M3|https://www.uniprot.org/uniprot/A3F5L8
T5474 1892-1904 Protein denotes core protein https://www.uniprot.org/uniprot/Q9QBF2|https://www.uniprot.org/uniprot/Q9QAB9|https://www.uniprot.org/uniprot/Q9Q9F7|https://www.uniprot.org/uniprot/Q9Q6P4|https://www.uniprot.org/uniprot/Q9E6S6|https://www.uniprot.org/uniprot/Q9DKQ7|https://www.uniprot.org/uniprot/Q9DKQ6|https://www.uniprot.org/uniprot/Q9DKQ5|https://www.uniprot.org/uniprot/Q99D35|https://www.uniprot.org/uniprot/Q99BK4|https://www.uniprot.org/uniprot/Q999T0|https://www.uniprot.org/uniprot/Q98803|https://www.uniprot.org/uniprot/Q91B85|https://www.uniprot.org/uniprot/Q8JKE4|https://www.uniprot.org/uniprot/Q8B648|https://www.uniprot.org/uniprot/Q89579|https://www.uniprot.org/uniprot/Q89278|https://www.uniprot.org/uniprot/Q89277|https://www.uniprot.org/uniprot/Q89276|https://www.uniprot.org/uniprot/Q89275|https://www.uniprot.org/uniprot/Q88879|https://www.uniprot.org/uniprot/Q88878|https://www.uniprot.org/uniprot/Q88877|https://www.uniprot.org/uniprot/Q88788|https://www.uniprot.org/uniprot/Q88787|https://www.uniprot.org/uniprot/Q88786|https://www.uniprot.org/uniprot/Q88785|https://www.uniprot.org/uniprot/Q88784|https://www.uniprot.org/uniprot/Q88783|https://www.uniprot.org/uniprot/Q88782|https://www.uniprot.org/uniprot/Q88781|https://www.uniprot.org/uniprot/Q88671|https://www.uniprot.org/uniprot/Q88670|https://www.uniprot.org/uniprot/Q88669|https://www.uniprot.org/uniprot/Q88668|https://www.uniprot.org/uniprot/Q88667|https://www.uniprot.org/uniprot/Q88666|https://www.uniprot.org/uniprot/Q88665|https://www.uniprot.org/uniprot/Q88664|https://www.uniprot.org/uniprot/Q88663|https://www.uniprot.org/uniprot/Q88662|https://www.uniprot.org/uniprot/Q88661|https://www.uniprot.org/uniprot/Q88655|https://www.uniprot.org/uniprot/Q88654|https://www.uniprot.org/uniprot/Q88653|https://www.uniprot.org/uniprot/Q88652|https://www.uniprot.org/uniprot/Q88651|https://www.uniprot.org/uniprot/Q88650|https://www.uniprot.org/uniprot/Q88649|https://www.uniprot.org/uniprot/Q88648|https://www.uniprot.org/uniprot/Q88647|https://www.uniprot.org/uniprot/Q88646|https://www.uniprot.org/uniprot/Q88645|https://www.uniprot.org/uniprot/Q88644|https://www.uniprot.org/uniprot/Q88643|https://www.uniprot.org/uniprot/Q88642|https://www.uniprot.org/uniprot/Q88493|https://www.uniprot.org/uniprot/Q88479|https://www.uniprot.org/uniprot/Q88478|https://www.uniprot.org/uniprot/Q88477|https://www.uniprot.org/uniprot/Q88476|https://www.uniprot.org/uniprot/Q88475|https://www.uniprot.org/uniprot/Q82983|https://www.uniprot.org/uniprot/Q82928|https://www.uniprot.org/uniprot/Q82927|https://www.uniprot.org/uniprot/Q82926|https://www.uniprot.org/uniprot/Q82925|https://www.uniprot.org/uniprot/Q82924|https://www.uniprot.org/uniprot/Q82923|https://www.uniprot.org/uniprot/Q82922|https://www.uniprot.org/uniprot/Q82921|https://www.uniprot.org/uniprot/Q82920|https://www.uniprot.org/uniprot/Q81164|https://www.uniprot.org/uniprot/Q81102|https://www.uniprot.org/uniprot/Q7T6D2|https://www.uniprot.org/uniprot/Q7T4P5|https://www.uniprot.org/uniprot/Q7T4P4|https://www.uniprot.org/uniprot/Q76R61|https://www.uniprot.org/uniprot/Q6YMS4|https://www.uniprot.org/uniprot/Q6YMS3|https://www.uniprot.org/uniprot/Q6QLS0|https://www.uniprot.org/uniprot/Q6QLR9|https://www.uniprot.org/uniprot/Q6QLR8|https://www.uniprot.org/uniprot/Q6QLR7|https://www.uniprot.org/uniprot/Q6QLR6|https://www.uniprot.org/uniprot/Q6QLR5|https://www.uniprot.org/uniprot/Q6PX46|https://www.uniprot.org/uniprot/Q6J3P1|https://www.uniprot.org/uniprot/Q6DV88|https://www.uniprot.org/uniprot/Q6DLV0|https://www.uniprot.org/uniprot/Q69608|https://www.uniprot.org/uniprot/Q69422|https://www.uniprot.org/uniprot/Q67924|https://www.uniprot.org/uniprot/Q67868|https://www.uniprot.org/uniprot/Q66450|https://www.uniprot.org/uniprot/Q66406|https://www.uniprot.org/uniprot/Q66356|https://www.uniprot.org/uniprot/Q66355|https://www.uniprot.org/uniprot/Q66354|https://www.uniprot.org/uniprot/Q66353|https://www.uniprot.org/uniprot/Q66352|https://www.uniprot.org/uniprot/Q66351|https://www.uniprot.org/uniprot/Q66350|https://www.uniprot.org/uniprot/Q66349|https://www.uniprot.org/uniprot/Q66348|https://www.uniprot.org/uniprot/Q66347|https://www.uniprot.org/uniprot/Q64897|https://www.uniprot.org/uniprot/Q5WPU5|https://www.uniprot.org/uniprot/Q5UCB8|https://www.uniprot.org/uniprot/Q5UB51|https://www.uniprot.org/uniprot/Q58HT7|https://www.uniprot.org/uniprot/Q45RQ2|https://www.uniprot.org/uniprot/Q32ZE1|https://www.uniprot.org/uniprot/Q32ZE0|https://www.uniprot.org/uniprot/Q32ZD7|https://www.uniprot.org/uniprot/Q32ZD5|https://www.uniprot.org/uniprot/Q32ZD4|https://www.uniprot.org/uniprot/Q2YHF2|https://www.uniprot.org/uniprot/Q2YHF0|https://www.uniprot.org/uniprot/Q20II6|https://www.uniprot.org/uniprot/Q1X881|https://www.uniprot.org/uniprot/Q1X880|https://www.uniprot.org/uniprot/Q14F58|https://www.uniprot.org/uniprot/Q102J3|https://www.uniprot.org/uniprot/Q074N0|https://www.uniprot.org/uniprot/Q04538|https://www.uniprot.org/uniprot/Q01299|https://www.uniprot.org/uniprot/P89314|https://www.uniprot.org/uniprot/P89313|https://www.uniprot.org/uniprot/P69712|https://www.uniprot.org/uniprot/P69711|https://www.uniprot.org/uniprot/P69710|https://www.uniprot.org/uniprot/P69709|https://www.uniprot.org/uniprot/P69708|https://www.uniprot.org/uniprot/P69707|https://www.uniprot.org/uniprot/P69706|https://www.uniprot.org/uniprot/P33515|https://www.uniprot.org/uniprot/P33478|https://www.uniprot.org/uniprot/P32886|https://www.uniprot.org/uniprot/P30026|https://www.uniprot.org/uniprot/P29991|https://www.uniprot.org/uniprot/P29990|https://www.uniprot.org/uniprot/P29983|https://www.uniprot.org/uniprot/P29838|https://www.uniprot.org/uniprot/P29837|https://www.uniprot.org/uniprot/P29178|https://www.uniprot.org/uniprot/P29165|https://www.uniprot.org/uniprot/P27915|https://www.uniprot.org/uniprot/P27913|https://www.uniprot.org/uniprot/P27912|https://www.uniprot.org/uniprot/P27910|https://www.uniprot.org/uniprot/P27909|https://www.uniprot.org/uniprot/P27395|https://www.uniprot.org/uniprot/P24023|https://www.uniprot.org/uniprot/P03151|https://www.uniprot.org/uniprot/P03150|https://www.uniprot.org/uniprot/P03149|https://www.uniprot.org/uniprot/P03148|https://www.uniprot.org/uniprot/P03147|https://www.uniprot.org/uniprot/P03146|https://www.uniprot.org/uniprot/O91857|https://www.uniprot.org/uniprot/O71303|https://www.uniprot.org/uniprot/O42028|https://www.uniprot.org/uniprot/O10383|https://www.uniprot.org/uniprot/H9A910|https://www.uniprot.org/uniprot/H8Y6L5|https://www.uniprot.org/uniprot/H8Y6L4|https://www.uniprot.org/uniprot/H8Y6L3|https://www.uniprot.org/uniprot/G3FEX6|https://www.uniprot.org/uniprot/D7RF80|https://www.uniprot.org/uniprot/C8XPB2|https://www.uniprot.org/uniprot/C8XPA8|https://www.uniprot.org/uniprot/C5H431|https://www.uniprot.org/uniprot/B1PMU9|https://www.uniprot.org/uniprot/A3EZ58|https://www.uniprot.org/uniprot/A0A165GB83|https://www.uniprot.org/uniprot/A0A142I5B9|https://www.uniprot.org/uniprot/A0A024B7W1|https://www.uniprot.org/uniprot/Q9YWN2|https://www.uniprot.org/uniprot/Q9YWN1|https://www.uniprot.org/uniprot/Q9YWN0|https://www.uniprot.org/uniprot/Q9YRV3|https://www.uniprot.org/uniprot/Q9WDA6|https://www.uniprot.org/uniprot/Q9W878|https://www.uniprot.org/uniprot/Q9QMI2|https://www.uniprot.org/uniprot/Q9QEW5|https://www.uniprot.org/uniprot/P22338|https://www.uniprot.org/uniprot/P19901|https://www.uniprot.org/uniprot/P19712|https://www.uniprot.org/uniprot/P19110|https://www.uniprot.org/uniprot/P17763|https://www.uniprot.org/uniprot/P17392|https://www.uniprot.org/uniprot/P17391|https://www.uniprot.org/uniprot/P14403|https://www.uniprot.org/uniprot/P14340|https://www.uniprot.org/uniprot/P14337|https://www.uniprot.org/uniprot/P14336|https://www.uniprot.org/uniprot/P14335|https://www.uniprot.org/uniprot/P12901|https://www.uniprot.org/uniprot/P12823|https://www.uniprot.org/uniprot/P0DOK8|https://www.uniprot.org/uniprot/P0DOH9|https://www.uniprot.org/uniprot/P0DOH8|https://www.uniprot.org/uniprot/P0DOH7|https://www.uniprot.org/uniprot/P0C6K3|https://www.uniprot.org/uniprot/P0C6K2|https://www.uniprot.org/uniprot/P0C6K1|https://www.uniprot.org/uniprot/P0C6K0|https://www.uniprot.org/uniprot/P0C6J8|https://www.uniprot.org/uniprot/P0C6J7|https://www.uniprot.org/uniprot/P0C6J1|https://www.uniprot.org/uniprot/P0C6I9|https://www.uniprot.org/uniprot/P0C6I8|https://www.uniprot.org/uniprot/P0C6I6|https://www.uniprot.org/uniprot/P0C6I4|https://www.uniprot.org/uniprot/P0C6I3|https://www.uniprot.org/uniprot/P0C6I2|https://www.uniprot.org/uniprot/P0C6H8|https://www.uniprot.org/uniprot/P0C6H7|https://www.uniprot.org/uniprot/P0C6H6|https://www.uniprot.org/uniprot/P0C6H4|https://www.uniprot.org/uniprot/P0C698|https://www.uniprot.org/uniprot/P0C697|https://www.uniprot.org/uniprot/P0C696|https://www.uniprot.org/uniprot/P0C695|https://www.uniprot.org/uniprot/P0C694|https://www.uniprot.org/uniprot/P0C693|https://www.uniprot.org/uniprot/P0C683|https://www.uniprot.org/uniprot/P0C682|https://www.uniprot.org/uniprot/P0C680|https://www.uniprot.org/uniprot/P0C677|https://www.uniprot.org/uniprot/P09866|https://www.uniprot.org/uniprot/P09732|https://www.uniprot.org/uniprot/P08769|https://www.uniprot.org/uniprot/P07721|https://www.uniprot.org/uniprot/P07720|https://www.uniprot.org/uniprot/P07565|https://www.uniprot.org/uniprot/P07564|https://www.uniprot.org/uniprot/P06935|https://www.uniprot.org/uniprot/P06433|https://www.uniprot.org/uniprot/P05769|https://www.uniprot.org/uniprot/P03314|https://www.uniprot.org/uniprot/P03152

LitCovid-sample-PD-IDO

Id Subject Object Predicate Lexical cue
T161 603-607 http://purl.obolibrary.org/obo/BFO_0000029 denotes site
T162 959-963 http://purl.obolibrary.org/obo/BFO_0000029 denotes site
T163 1413-1417 http://purl.obolibrary.org/obo/BFO_0000029 denotes site

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T216 1541-1548 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T217 1598-1605 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T218 1611-1623 Body_part denotes glycoprotein http://purl.org/sig/ont/fma/fma62925
T219 1897-1904 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257

LitCovid-sample-PD-GO-BP-0

Id Subject Object Predicate Lexical cue
T132 235-248 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-sample-GO-BP

Id Subject Object Predicate Lexical cue
T125 235-248 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

2_test

Id Subject Object Predicate Lexical cue
32841605-24375430-19659566 1846-1850 24375430 denotes 2014
32841605-28120784-19659567 1945-1949 28120784 denotes 2016
32841605-28017661-19659568 1964-1968 28017661 denotes 2017