PMC:7352545 / 39105-41179
Annnotations
LitCovid_Glycan-Motif-Structure
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T163 | 283-285 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
| T164 | 397-403 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | Neu5Ac |
| T165 | 428-432 | https://glytoucan.org/Structures/Glycans/G00054MO | denotes | SLeX |
| T166 | 447-467 | https://glytoucan.org/Structures/Glycans/G00055MO | denotes | N-acetyl-lactosamine |
| T167 | 614-616 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
| T168 | 799-801 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
| T169 | 947-949 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
| T170 | 1104-1106 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
| T171 | 1387-1393 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | Neu5Ac |
| T172 | 1538-1540 | https://glytoucan.org/Structures/Glycans/G81533KY | denotes | SA |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T321 | 6-18 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T322 | 62-67 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T323 | 110-115 | Body_part | denotes | sugar | http://purl.org/sig/ont/fma/fma82737 |
| T324 | 231-243 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T325 | 343-355 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T326 | 576-589 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T327 | 704-717 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T328 | 775-787 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T329 | 896-909 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T330 | 953-966 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T331 | 1046-1058 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T332 | 1081-1094 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T333 | 1170-1182 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T334 | 1199-1211 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T335 | 1306-1319 | Body_part | denotes | glycoproteins | http://purl.org/sig/ont/fma/fma62925 |
| T336 | 1505-1517 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T337 | 1781-1793 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T338 | 1807-1819 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T339 | 1828-1840 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
| T340 | 1852-1864 | Body_part | denotes | glycoprotein | http://purl.org/sig/ont/fma/fma62925 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T133 | 19-27 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T134 | 40-49 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
| T135 | 680-689 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T136 | 866-875 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T137 | 1346-1355 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T138 | 1474-1483 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T139 | 1693-1702 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T140 | 1917-1926 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T141 | 1990-1999 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
| T142 | 2032-2041 | Disease | denotes | influenza | http://purl.obolibrary.org/obo/MONDO_0005812 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T531 | 62-67 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T532 | 266-269 | http://purl.obolibrary.org/obo/CLO_0001618 | denotes | a 9 |
| T533 | 266-269 | http://purl.obolibrary.org/obo/CLO_0001619 | denotes | a 9 |
| T534 | 266-269 | http://purl.obolibrary.org/obo/CLO_0001620 | denotes | a 9 |
| T535 | 672-675 | http://purl.obolibrary.org/obo/CLO_0053120 | denotes | HEs |
| T536 | 690-695 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T537 | 858-861 | http://purl.obolibrary.org/obo/CLO_0053120 | denotes | HEs |
| T538 | 876-881 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T539 | 947-952 | http://purl.obolibrary.org/obo/CLO_0051568 | denotes | SA. S |
| T540 | 985-988 | http://purl.obolibrary.org/obo/CLO_0051568 | denotes | SAs |
| T541 | 1005-1008 | http://purl.obolibrary.org/obo/CLO_0051568 | denotes | SAs |
| T542 | 1227-1229 | http://purl.obolibrary.org/obo/CLO_0054055 | denotes | 71 |
| T543 | 1356-1361 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T544 | 1362-1363 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T545 | 1364-1367 | http://purl.obolibrary.org/obo/CLO_0051582 | denotes | HAs |
| T546 | 1732-1735 | http://purl.obolibrary.org/obo/CLO_0051568 | denotes | SAs |
| T547 | 2000-2005 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T548 | 2006-2007 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T549 | 2008-2009 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T550 | 2042-2047 | http://purl.obolibrary.org/obo/NCBITaxon_10239 | denotes | virus |
| T551 | 2048-2049 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T552 | 2050-2051 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T553 | 2064-2074 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activities |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T1213 | 6-18 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1214 | 187-189 | Chemical | denotes | EM | http://purl.obolibrary.org/obo/CHEBI_73507 |
| T1215 | 231-243 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1216 | 283-285 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1221 | 297-299 | Chemical | denotes | EM | http://purl.obolibrary.org/obo/CHEBI_73507 |
| T1222 | 343-355 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1223 | 397-403 | Chemical | denotes | Neu5Ac | http://purl.obolibrary.org/obo/CHEBI_17012|http://purl.obolibrary.org/obo/CHEBI_75133 |
| T1225 | 405-411 | Chemical | denotes | Neu5Gc | http://purl.obolibrary.org/obo/CHEBI_62084 |
| T1226 | 447-467 | Chemical | denotes | N-acetyl-lactosamine | http://purl.obolibrary.org/obo/CHEBI_16153 |
| T1227 | 449-455 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1229 | 456-467 | Chemical | denotes | lactosamine | http://purl.obolibrary.org/obo/CHEBI_25001 |
| T1230 | 576-589 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1231 | 611-613 | Chemical | denotes | Ac | http://purl.obolibrary.org/obo/CHEBI_33337|http://purl.obolibrary.org/obo/CHEBI_40574 |
| T1233 | 614-616 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1238 | 638-644 | Chemical | denotes | ligand | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T1239 | 704-717 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1240 | 775-787 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1241 | 792-798 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1243 | 799-801 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1248 | 828-834 | Chemical | denotes | ligand | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T1249 | 896-909 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1250 | 944-946 | Chemical | denotes | Ac | http://purl.obolibrary.org/obo/CHEBI_33337|http://purl.obolibrary.org/obo/CHEBI_40574 |
| T1252 | 947-949 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1257 | 953-966 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1258 | 978-984 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1260 | 998-1004 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1262 | 1046-1058 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1263 | 1081-1094 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1264 | 1104-1106 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1269 | 1132-1138 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1271 | 1170-1182 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1272 | 1199-1211 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1273 | 1306-1319 | Chemical | denotes | glycoproteins | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1274 | 1387-1393 | Chemical | denotes | Neu5Ac | http://purl.obolibrary.org/obo/CHEBI_17012|http://purl.obolibrary.org/obo/CHEBI_75133 |
| T1276 | 1434-1440 | Chemical | denotes | ligand | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T1277 | 1505-1517 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1278 | 1535-1537 | Chemical | denotes | Ac | http://purl.obolibrary.org/obo/CHEBI_33337|http://purl.obolibrary.org/obo/CHEBI_40574 |
| T1280 | 1538-1540 | Chemical | denotes | SA | http://purl.obolibrary.org/obo/CHEBI_35962|http://purl.obolibrary.org/obo/CHEBI_38358|http://purl.obolibrary.org/obo/CHEBI_45373|http://purl.obolibrary.org/obo/CHEBI_74801|http://purl.obolibrary.org/obo/CHEBI_26667 |
| T1285 | 1557-1565 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
| T1286 | 1587-1593 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1288 | 1594-1608 | Chemical | denotes | carbonyl group | http://purl.obolibrary.org/obo/CHEBI_23019 |
| T1289 | 1603-1608 | Chemical | denotes | group | http://purl.obolibrary.org/obo/CHEBI_24433 |
| T1290 | 1655-1661 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1292 | 1662-1674 | Chemical | denotes | methyl group | http://purl.obolibrary.org/obo/CHEBI_32875 |
| T1293 | 1662-1668 | Chemical | denotes | methyl | http://purl.obolibrary.org/obo/CHEBI_29309 |
| T1294 | 1669-1674 | Chemical | denotes | group | http://purl.obolibrary.org/obo/CHEBI_24433 |
| T1295 | 1703-1705 | Chemical | denotes | HA | http://purl.obolibrary.org/obo/CHEBI_73924 |
| T1296 | 1725-1731 | Chemical | denotes | acetyl | http://purl.obolibrary.org/obo/CHEBI_40574|http://purl.obolibrary.org/obo/CHEBI_46887 |
| T1298 | 1781-1793 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1299 | 1807-1819 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1300 | 1828-1840 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1301 | 1852-1864 | Chemical | denotes | glycoprotein | http://purl.obolibrary.org/obo/CHEBI_17089 |
| T1302 | 1887-1893 | Chemical | denotes | ligand | http://purl.obolibrary.org/obo/CHEBI_52214 |
| T1303 | 2010-2012 | Chemical | denotes | HA | http://purl.obolibrary.org/obo/CHEBI_73924 |
| T1304 | 2052-2054 | Chemical | denotes | NA | http://purl.obolibrary.org/obo/CHEBI_33696 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T64 | 1632-1641 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | formation |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T384 | 0-68 | Sentence | denotes | The S glycoprotein SARS-CoV-2 initiates infection of the host cells. |
| T385 | 69-291 | Sentence | denotes | The molecular basis of CoV attachment to sugar/glycan receptors is an important issue, as demonstrated by recent cryo-EM defining the structure of the CoV-OC43 S glycoprotein trimer complexed with a 9-O-acetylated SA [56]. |
| T386 | 292-514 | Sentence | denotes | Cryo-EM structures of the trimeric ectodomain of S glycoprotein were observed using forms complexed with Neu5Ac, Neu5Gc, sialyl–LewisX (SLeX), α2,3-sialyl-N-acetyl-lactosamine (α2,3-SLacNAc) and α2,6-SLacNAc, respectively. |
| T387 | 515-768 | Sentence | denotes | The receptor-binding site is commonly conserved in all CoV S glycoproteins, which attach to 9-O-Ac-SA species with similar ligand-binding pockets to the CoV HEs and influenza virus C/D HEF glycoproteins, indicating conserved recognizing structures [25]. |
| T388 | 769-910 | Sentence | denotes | The S glycoprotein-9-O-acetyl-SA interaction resembles the ligand-binding pockets of CoV HEs and influenza virus C/D HE fusion glycoproteins. |
| T389 | 911-950 | Sentence | denotes | HCoV-OC43 and BCoV recognize 9-O-Ac-SA. |
| T390 | 951-989 | Sentence | denotes | S glycoproteins engage 9-O-acetyl-SAs. |
| T391 | 990-1231 | Sentence | denotes | The 9-O-acetyl SAs are the binding site for HCoV-OC43 S glycoprotein and related β-1 CoV S glycoproteins, however SA-binding sites on the 9-O-acetyl sialyl receptors of MERS-CoV S glycoprotein and HCoV-OC43 S glycoprotein are different [71]. |
| T392 | 1232-1292 | Sentence | denotes | Thus, CoVs use two different entry and attachment receptors. |
| T393 | 1293-1429 | Sentence | denotes | Therefore, S glycoproteins of CoVs are distinct from influenza virus A HAs, which bind to the Neu5Ac species by conserved binding sites. |
| T394 | 1430-1683 | Sentence | denotes | The ligand-binding sites of BCoV HE enzyme, influenza HEF enzyme and CoV S glycoprotein have evolved 9-O-Ac-SA binding through hydrogen bonding with the 9-O-acetyl carbonyl group and hydrophobic pocket formation with the 9-O-acetyl methyl group [71,72]. |
| T395 | 1684-1764 | Sentence | denotes | However, influenza HA cannot bind to 9-O-acetyl-SAs but can bind to NeuGcs [73]. |
| T396 | 1765-2074 | Sentence | denotes | The HCoV-OC43 S glycoprotein, HCoV-HKU1 S glycoprotein, BCoV S glycoprotein and PHEV S glycoprotein, therefore, share the ligand-binding specificity of influenza C/D HEF enzyme, although they are functionally more similar to influenza virus A/B HA, whereas CoV HE or influenza virus A/B NA have RDE activities |
2_test
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 32604730-27185912-51944026 | 287-289 | 27185912 | denotes | 56 |
| 32604730-30679277-51944027 | 1227-1229 | 30679277 | denotes | 71 |
| 32604730-30679277-51944028 | 1676-1678 | 30679277 | denotes | 71 |
| 32604730-22291594-51944029 | 1679-1681 | 22291594 | denotes | 72 |
| 32604730-23615615-51944030 | 1760-1762 | 23615615 | denotes | 73 |
| T90796 | 287-289 | 27185912 | denotes | 56 |
| T37653 | 1227-1229 | 30679277 | denotes | 71 |
| T96455 | 1676-1678 | 30679277 | denotes | 71 |
| T89087 | 1679-1681 | 22291594 | denotes | 72 |
| T59852 | 1760-1762 | 23615615 | denotes | 73 |