PMC:7048180 / 5943-7570
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T21 | 61-68 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T22 | 520-525 | Body_part | denotes | helix | http://purl.org/sig/ont/fma/fma60992 |
| T23 | 625-633 | Body_part | denotes | arginine | http://purl.org/sig/ont/fma/fma82763 |
| T24 | 844-850 | Body_part | denotes | lysine | http://purl.org/sig/ont/fma/fma82758 |
| T25 | 890-896 | Body_part | denotes | valine | http://purl.org/sig/ont/fma/fma82766 |
| T26 | 1049-1056 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T27 | 1436-1443 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T28 | 1601-1608 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T1 | 520-525 | Body_part | denotes | helix | http://purl.obolibrary.org/obo/UBERON_0002488 |
LitCovid_AGAC
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| p8111s23 | 704-713 | NegReg | denotes | abolished |
| p8111s25 | 718-724 | MPA | denotes | strong |
| p8111s26 | 725-743 | MPA | denotes | polar interactions |
| p8111s33 | 764-772 | NegReg | denotes | decrease |
| p8111s36 | 780-804 | Interaction | denotes | binding affinity between |
| p8112s39 | 994-1009 | MPA | denotes | binding ability |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T37 | 246-254 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T38 | 529-537 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T39 | 643-651 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T40 | 906-914 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T41 | 1114-1122 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T42 | 1421-1429 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T38 | 167-172 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T39 | 549-550 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T40 | 577-578 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T41 | 762-763 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T42 | 842-843 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T43 | 1092-1093 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T44 | 1185-1190 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T45 | 1352-1357 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
| T46 | 1449-1454 | http://purl.obolibrary.org/obo/NCBITaxon_9606 | denotes | human |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T29 | 61-68 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T30 | 456-464 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
| T31 | 551-555 | Chemical | denotes | salt | http://purl.obolibrary.org/obo/CHEBI_24866|http://purl.obolibrary.org/obo/CHEBI_26710 |
| T33 | 579-587 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
| T34 | 625-633 | Chemical | denotes | arginine | http://purl.obolibrary.org/obo/CHEBI_16467|http://purl.obolibrary.org/obo/CHEBI_29016|http://purl.obolibrary.org/obo/CHEBI_32696 |
| T37 | 660-670 | Chemical | denotes | asparagine | http://purl.obolibrary.org/obo/CHEBI_22653 |
| T38 | 844-850 | Chemical | denotes | lysine | http://purl.obolibrary.org/obo/CHEBI_18019|http://purl.obolibrary.org/obo/CHEBI_25094 |
| T40 | 890-896 | Chemical | denotes | valine | http://purl.obolibrary.org/obo/CHEBI_27266 |
| T41 | 942-946 | Chemical | denotes | salt | http://purl.obolibrary.org/obo/CHEBI_24866|http://purl.obolibrary.org/obo/CHEBI_26710 |
| T43 | 1049-1056 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T44 | 1326-1328 | Chemical | denotes | KD | http://purl.obolibrary.org/obo/CHEBI_73601 |
| T45 | 1436-1443 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T46 | 1601-1608 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T35 | 0-69 | Sentence | denotes | In this study, we first expressed and purified 2019-nCoV RBD protein. |
| T36 | 70-178 | Sentence | denotes | We also predicted the conformations of 2019-nCoV RBD and its complex with the putative receptor, human ACE2. |
| T37 | 179-352 | Sentence | denotes | Comparison of the interaction between the complex of ACE2 [13] and SARS-CoV RBD and homology model of ACE2 and 2019-nCoV RBD revealed similar binding modes (data not shown). |
| T38 | 353-490 | Sentence | denotes | In both complexes, β5–β6 loop and β6–β7 loop form extensive contact, including at least seven pairs of hydrogen bonds, with the receptor. |
| T39 | 491-611 | Sentence | denotes | Notably, R426 on the forth α helix in SARS-CoV RBD builds a salt bridge with E329 and a hydrogen bond with Q325 on ACE2. |
| T40 | 612-826 | Sentence | denotes | However, the arginine (R426 in SARS-CoV RBD) to asparagine (N439) mutation in 2019-nCoV RBD abolished the strong polar interactions, which may induce a decrease in the binding affinity between RBD and the receptor. |
| T41 | 827-1010 | Sentence | denotes | Interestingly, a lysine (K417 in 2019-nCoV RBD) replacement of valine (V404 in SARS-CoV RBD) on β6 formed an extra salt bridge with D30 on ACE2, which may recover the binding ability. |
| T42 | 1011-1132 | Sentence | denotes | These data indicate that the RBD in S protein of 2019-nCoV may bind to ACE2 with a similar affinity as SARS-CoV RBD does. |
| T43 | 1133-1300 | Sentence | denotes | Indeed, we measured the binding of 2019-nCoV RBD to human ACE2 by the biolayer interferometry binding (BLI) assay, and found that 2019-nCoV RBD bound potently to ACE2. |
| T44 | 1301-1473 | Sentence | denotes | The calculated affinity (KD) of 2019-nCoV RBD with human ACE2 was 15.2 nM (Figure 1(f)), which is comparable to that of SARS-CoV spike protein with human ACE2 (15 nM) [14]. |
| T45 | 1474-1627 | Sentence | denotes | These results indicate that ACE2 could be the potential receptor for the new coronavirus, and that the expressed 2019-nCoV RBD protein is functional [2]. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 234 | 173-177 | Gene | denotes | ACE2 | Gene:59272 |
| 235 | 232-236 | Gene | denotes | ACE2 | Gene:59272 |
| 236 | 281-285 | Gene | denotes | ACE2 | Gene:59272 |
| 237 | 606-610 | Gene | denotes | ACE2 | Gene:59272 |
| 238 | 966-970 | Gene | denotes | ACE2 | Gene:59272 |
| 239 | 1082-1086 | Gene | denotes | ACE2 | Gene:59272 |
| 240 | 1191-1195 | Gene | denotes | ACE2 | Gene:59272 |
| 241 | 1295-1299 | Gene | denotes | ACE2 | Gene:59272 |
| 242 | 1358-1362 | Gene | denotes | ACE2 | Gene:59272 |
| 243 | 1455-1459 | Gene | denotes | ACE2 | Gene:59272 |
| 244 | 1502-1506 | Gene | denotes | ACE2 | Gene:59272 |
| 245 | 47-56 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 246 | 109-118 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 247 | 167-172 | Species | denotes | human | Tax:9606 |
| 248 | 246-254 | Species | denotes | SARS-CoV | Tax:694009 |
| 249 | 290-299 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 250 | 529-537 | Species | denotes | SARS-CoV | Tax:694009 |
| 251 | 643-651 | Species | denotes | SARS-CoV | Tax:694009 |
| 252 | 690-699 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 253 | 860-869 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 254 | 906-914 | Species | denotes | SARS-CoV | Tax:694009 |
| 255 | 1060-1069 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 256 | 1114-1122 | Species | denotes | SARS-CoV | Tax:694009 |
| 257 | 1168-1177 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 258 | 1185-1190 | Species | denotes | human | Tax:9606 |
| 259 | 1263-1272 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 260 | 1333-1342 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 261 | 1352-1357 | Species | denotes | human | Tax:9606 |
| 262 | 1421-1429 | Species | denotes | SARS-CoV | Tax:694009 |
| 263 | 1449-1454 | Species | denotes | human | Tax:9606 |
| 264 | 1547-1562 | Species | denotes | new coronavirus | Tax:2697049 |
| 265 | 1587-1596 | Species | denotes | 2019-nCoV | Tax:2697049 |
| 266 | 456-464 | Chemical | denotes | hydrogen | MESH:D006859 |
| 267 | 568-572 | Chemical | denotes | E329 | |
| 268 | 579-587 | Chemical | denotes | hydrogen | MESH:D006859 |
| 269 | 598-602 | Chemical | denotes | Q325 | |
| 270 | 625-633 | Chemical | denotes | arginine | MESH:D001120 |
| 271 | 660-670 | Chemical | denotes | asparagine | MESH:D001216 |
| 272 | 844-850 | Chemical | denotes | lysine | MESH:D008239 |
| 273 | 852-856 | Chemical | denotes | K417 | |
| 274 | 890-896 | Chemical | denotes | valine | MESH:D014633 |
| 275 | 959-962 | Chemical | denotes | D30 | MESH:C005496 |