PMC:7189872 / 13727-15473
Annnotations
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
267 | 509-514 | Gene | denotes | HLA-A | Gene:3105 |
268 | 525-530 | Gene | denotes | MHC I | |
269 | 531-534 | Gene | denotes | HLA | Gene:3123 |
270 | 549-558 | Chemical | denotes | Threonine | MESH:D013912 |
271 | 625-633 | Chemical | denotes | hydrogen | MESH:D006859 |
272 | 731-744 | Chemical | denotes | Glutamic acid | MESH:D018698 |
273 | 749-755 | Chemical | denotes | lysine | MESH:D008239 |
280 | 941-946 | Gene | denotes | HLA-A | Gene:3105 |
281 | 957-962 | Gene | denotes | MHC I | |
282 | 963-966 | Gene | denotes | HLA | Gene:3123 |
283 | 981-990 | Chemical | denotes | Threonine | MESH:D013912 |
284 | 1027-1035 | Chemical | denotes | cysteine | MESH:D003545 |
285 | 1090-1098 | Chemical | denotes | hydrogen | MESH:D006859 |
293 | 1307-1315 | Gene | denotes | HLA-DRB1 | Gene:3123 |
294 | 1332-1335 | Gene | denotes | HLA | Gene:3123 |
295 | 1350-1358 | Chemical | denotes | Tyrosine | MESH:D014443 |
296 | 1367-1376 | Chemical | denotes | Glutamine | MESH:D005973 |
297 | 1397-1403 | Chemical | denotes | Serine | MESH:D012694 |
298 | 1453-1461 | Chemical | denotes | hydrogen | MESH:D006859 |
299 | 1549-1560 | Chemical | denotes | 7tharginine | |
301 | 1729-1732 | Gene | denotes | HLA | Gene:3123 |
306 | 117-120 | Gene | denotes | HLA | Gene:3123 |
307 | 98-101 | Gene | denotes | MHC | Gene:3107 |
308 | 425-428 | Gene | denotes | HLA | Gene:3123 |
309 | 133-141 | Chemical | denotes | hydrogen | MESH:D006859 |
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T135 | 68-72 | Body_part | denotes | Cell | http://purl.org/sig/ont/fma/fma68646 |
T136 | 98-101 | Body_part | denotes | MHC | http://purl.org/sig/ont/fma/fma84079 |
T137 | 117-120 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T138 | 425-428 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T139 | 509-512 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T140 | 525-528 | Body_part | denotes | MHC | http://purl.org/sig/ont/fma/fma84079 |
T141 | 531-534 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T142 | 549-558 | Body_part | denotes | Threonine | http://purl.org/sig/ont/fma/fma82765 |
T143 | 731-744 | Body_part | denotes | Glutamic acid | http://purl.org/sig/ont/fma/fma82762 |
T144 | 749-755 | Body_part | denotes | lysine | http://purl.org/sig/ont/fma/fma82758 |
T145 | 820-831 | Body_part | denotes | amino acids | http://purl.org/sig/ont/fma/fma82739 |
T146 | 941-944 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T147 | 957-960 | Body_part | denotes | MHC | http://purl.org/sig/ont/fma/fma84079 |
T148 | 963-966 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T149 | 981-990 | Body_part | denotes | Threonine | http://purl.org/sig/ont/fma/fma82765 |
T150 | 1027-1035 | Body_part | denotes | cysteine | http://purl.org/sig/ont/fma/fma82751 |
T151 | 1186-1197 | Body_part | denotes | amino acids | http://purl.org/sig/ont/fma/fma82739 |
T152 | 1307-1310 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T153 | 1332-1335 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
T154 | 1350-1358 | Body_part | denotes | Tyrosine | http://purl.org/sig/ont/fma/fma82768 |
T155 | 1367-1376 | Body_part | denotes | Glutamine | http://purl.org/sig/ont/fma/fma82752 |
T156 | 1397-1403 | Body_part | denotes | Serine | http://purl.org/sig/ont/fma/fma82764 |
T157 | 1617-1628 | Body_part | denotes | amino acids | http://purl.org/sig/ont/fma/fma82739 |
T158 | 1729-1732 | Body_part | denotes | HLA | http://purl.org/sig/ont/fma/fma84795 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T102 | 49-50 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T103 | 66-72 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T-Cell |
T104 | 360-361 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T105 | 513-514 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T106 | 623-624 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T107 | 793-794 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T108 | 945-946 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T109 | 1088-1089 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T110 | 1451-1452 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T111 | 1590-1591 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T94 | 114-116 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
T95 | 133-141 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
T96 | 483-490 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
T97 | 595-602 | Chemical | denotes | epitope | http://purl.obolibrary.org/obo/CHEBI_53000 |
T98 | 625-633 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
T99 | 702-707 | Chemical | denotes | atoms | http://purl.obolibrary.org/obo/CHEBI_33250 |
T100 | 731-744 | Chemical | denotes | Glutamic acid | http://purl.obolibrary.org/obo/CHEBI_18237 |
T101 | 740-744 | Chemical | denotes | acid | http://purl.obolibrary.org/obo/CHEBI_37527 |
T102 | 749-755 | Chemical | denotes | lysine | http://purl.obolibrary.org/obo/CHEBI_18019|http://purl.obolibrary.org/obo/CHEBI_25094 |
T104 | 795-799 | Chemical | denotes | salt | http://purl.obolibrary.org/obo/CHEBI_24866|http://purl.obolibrary.org/obo/CHEBI_26710 |
T106 | 820-831 | Chemical | denotes | amino acids | http://purl.obolibrary.org/obo/CHEBI_33709 |
T107 | 820-825 | Chemical | denotes | amino | http://purl.obolibrary.org/obo/CHEBI_46882 |
T108 | 826-831 | Chemical | denotes | acids | http://purl.obolibrary.org/obo/CHEBI_37527 |
T109 | 915-922 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
T110 | 1027-1035 | Chemical | denotes | cysteine | http://purl.obolibrary.org/obo/CHEBI_15356 |
T111 | 1059-1066 | Chemical | denotes | epitope | http://purl.obolibrary.org/obo/CHEBI_53000 |
T112 | 1090-1098 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
T113 | 1167-1172 | Chemical | denotes | atoms | http://purl.obolibrary.org/obo/CHEBI_33250 |
T114 | 1186-1197 | Chemical | denotes | amino acids | http://purl.obolibrary.org/obo/CHEBI_33709 |
T115 | 1186-1191 | Chemical | denotes | amino | http://purl.obolibrary.org/obo/CHEBI_46882 |
T116 | 1192-1197 | Chemical | denotes | acids | http://purl.obolibrary.org/obo/CHEBI_37527 |
T117 | 1281-1288 | Chemical | denotes | antigen | http://purl.obolibrary.org/obo/CHEBI_59132 |
T118 | 1350-1358 | Chemical | denotes | Tyrosine | http://purl.obolibrary.org/obo/CHEBI_17895|http://purl.obolibrary.org/obo/CHEBI_18186 |
T120 | 1367-1376 | Chemical | denotes | Glutamine | http://purl.obolibrary.org/obo/CHEBI_28300 |
T121 | 1397-1403 | Chemical | denotes | Serine | http://purl.obolibrary.org/obo/CHEBI_17115|http://purl.obolibrary.org/obo/CHEBI_17822 |
T123 | 1423-1430 | Chemical | denotes | epitope | http://purl.obolibrary.org/obo/CHEBI_53000 |
T124 | 1453-1461 | Chemical | denotes | hydrogen | http://purl.obolibrary.org/obo/CHEBI_49637 |
T125 | 1530-1535 | Chemical | denotes | atoms | http://purl.obolibrary.org/obo/CHEBI_33250 |
T126 | 1592-1596 | Chemical | denotes | salt | http://purl.obolibrary.org/obo/CHEBI_24866|http://purl.obolibrary.org/obo/CHEBI_26710 |
T128 | 1617-1628 | Chemical | denotes | amino acids | http://purl.obolibrary.org/obo/CHEBI_33709 |
T129 | 1617-1622 | Chemical | denotes | amino | http://purl.obolibrary.org/obo/CHEBI_46882 |
T130 | 1623-1628 | Chemical | denotes | acids | http://purl.obolibrary.org/obo/CHEBI_37527 |
LitCovid-PD-GO-BP
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T16 | 147-156 | http://purl.obolibrary.org/obo/GO_0009058 | denotes | formation |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T125 | 0-200 | Sentence | denotes | In Fig. 3, Fig. 4, Fig. 5 , interactions between a selected three T-Cell epitopes with respective MHC Class I and II HLA-Alleles via hydrogen bond formation and van der Waals interactions is depicted. |
T126 | 201-341 | Sentence | denotes | After positive docking results, these epitopes were subjected to further Molecular dynamic simulation and biochemical parameters assessment. |
T127 | 342-437 | Sentence | denotes | Fig. 6 represents a graphical plot of binding scores for epitopes interacting with HLA-Alleles. |
T128 | 438-542 | Sentence | denotes | Fig. 3 FTIGTVTLK Epitope interaction with an antigen-binding pocket of HLA-A*68:01, of MHC I-HLA Allele. |
T129 | 543-869 | Sentence | denotes | Here, Threonine at 2nd,5th, and 7th position in the epitope generate preferably a hydrogen bond due to the presence of partially charged positive and negative atoms, and also 4th position Glutamic acid and lysine at 8th position side chains can form a salt bridge, while other amino acids result in van der Waals interactions. |
T130 | 870-974 | Sentence | denotes | Fig. 4 ITLCFTLKR Epitope interaction with an antigen-binding pocket of HLA-A*68:01, of MHC I-HLA Allele. |
T131 | 975-1235 | Sentence | denotes | Here, Threonine at 2nd and 6th position, as well as cysteine at the 4th position in epitope, generate preferably a hydrogen bond due to the presence of partially charged positive and negative atoms, while other amino acids result in van der Waals interactions. |
T132 | 1236-1666 | Sentence | denotes | Fig. 5 VYQLRARSV Epitope interaction with an antigen-binding pocket of HLA-DRB1*07:01, of MHCII-HLA Allele, Here, Tyrosine at 2nd, Glutamine at 3rd position and Serine at 8th position in epitope generate preferably a hydrogen bond due to the presence of partially charged positive and negative atoms, and 5th and 7tharginine residue side chains can form a salt bridge, while other amino acids result in van der Waals interactions. |
T133 | 1667-1746 | Sentence | denotes | Fig. 6 Binding energy graphical plot for selected Epitope and HLA-Allelic pair. |
LitCovid-PMC-OGER-BB
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T249 | 66-72 | CL:0000084;BV_24 | denotes | T-Cell |
T250 | 73-81 | BV_24 | denotes | epitopes |
T251 | 98-109 | GO:0042613 | denotes | MHC Class I |
T252 | 117-120 | PR:000029150 | denotes | HLA |
T253 | 121-128 | SO:0001023 | denotes | Alleles |
T254 | 239-247 | BV_9 | denotes | epitopes |
T255 | 399-407 | BV_9 | denotes | epitopes |
T256 | 429-436 | SO:0001023 | denotes | Alleles |
T257 | 455-462 | BV_9 | denotes | Epitope |
T258 | 483-490 | CHEBI:59132;CHEBI:59132 | denotes | antigen |
T259 | 509-514 | PR:000002009 | denotes | HLA-A |
T260 | 525-530 | GO:0042613 | denotes | MHC I |
T261 | 535-541 | SO:0001023 | denotes | Allele |
T262 | 595-602 | BV_9 | denotes | epitope |
T263 | 702-707 | CHEBI:33250;CHEBI:33250 | denotes | atoms |
T264 | 772-783 | CHEBI:50325;CHEBI:50325 | denotes | side chains |
T265 | 795-799 | CHEBI:24866;CHEBI:24866 | denotes | salt |
T266 | 887-894 | BV_9 | denotes | Epitope |
T267 | 915-922 | CHEBI:59132;CHEBI:59132 | denotes | antigen |
T268 | 941-946 | PR:000002009 | denotes | HLA-A |
T269 | 957-962 | GO:0042613 | denotes | MHC I |
T270 | 967-973 | SO:0001023 | denotes | Allele |
T271 | 1059-1066 | BV_9 | denotes | epitope |
T272 | 1167-1172 | CHEBI:33250;CHEBI:33250 | denotes | atoms |
T273 | 1253-1260 | BV_9 | denotes | Epitope |
T274 | 1281-1288 | CHEBI:59132;CHEBI:59132 | denotes | antigen |
T275 | 1307-1315 | PR:000002019 | denotes | HLA-DRB1 |
T276 | 1326-1331 | GO:0042611 | denotes | MHCII |
T277 | 1336-1342 | SO:0001023 | denotes | Allele |
T278 | 1423-1430 | BV_9 | denotes | epitope |
T279 | 1530-1535 | CHEBI:33250;CHEBI:33250 | denotes | atoms |
T280 | 1569-1580 | CHEBI:50325;CHEBI:50325 | denotes | side chains |
T281 | 1592-1596 | CHEBI:24866;CHEBI:24866 | denotes | salt |
T282 | 1717-1724 | BV_9 | denotes | Epitope |
T283 | 1733-1740 | SO:0001023 | denotes | Allelic |