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PMC:7128678 / 25155-26896 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
785 1113-1123 Species denotes SARS-CoV-2 Tax:2697049
786 1152-1162 Species denotes SARS-CoV-2 Tax:2697049
787 1405-1410 Species denotes human Tax:9606
788 1444-1454 Species denotes SARS-CoV-2 Tax:2697049
789 1124-1129 Gene denotes spike Gene:43740568
790 1073-1084 Chemical denotes ganglioside MESH:D005732
791 1272-1275 Chemical denotes GM1 MESH:D005677
792 1310-1320 Chemical denotes asparagine MESH:D001216
793 1562-1573 Chemical denotes ganglioside MESH:D005732
794 1633-1636 Chemical denotes GBD
795 1665-1675 Chemical denotes asparagine MESH:D001216
812 274-284 Species denotes SARS-CoV-2 Tax:2697049
813 11-17 Chemical denotes CLQ-OH
814 152-163 Chemical denotes ganglioside MESH:D005732
815 399-410 Chemical denotes ganglioside MESH:D005732
816 554-565 Chemical denotes ganglioside MESH:D005732
817 641-644 Chemical denotes Phe MESH:D010649
818 683-686 Chemical denotes Lys MESH:D008239
819 695-698 Chemical denotes Arg MESH:D001120
820 777-778 Chemical denotes N MESH:D009584
821 799-802 Chemical denotes Asn MESH:D001216
822 811-814 Chemical denotes Asn MESH:D001216
823 869-880 Chemical denotes ganglioside MESH:D005732
824 897-912 Chemical denotes oligosaccharide MESH:D009844
825 929-939 Chemical denotes asparagine MESH:D001216
826 1013-1025 Chemical denotes gangliosides MESH:D005732
827 46-66 Disease denotes SARS-CoV-2 infection MESH:C000657245

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T559 46-56 SP_7 denotes SARS-CoV-2
T560 152-163 CHEBI:28892;CHEBI:28892 denotes ganglioside
T561 240-246 SO:0000417 denotes domain
T562 262-270 SO:0001060 denotes isolates
T563 274-284 SP_7 denotes SARS-CoV-2
T564 399-410 CHEBI:5386;CHEBI:5386 denotes ganglioside
T565 419-425 SO:0000417 denotes domain
T566 544-553 SO:0000993 denotes consensus
T567 554-565 CHEBI:5386;CHEBI:5386 denotes ganglioside
T568 574-580 SO:0000417 denotes domain
T569 777-792 MOP:0002162 denotes N-glycosylation
T570 869-880 CHEBI:5386;CHEBI:5386 denotes ganglioside
T571 897-912 CHEBI:50699;CHEBI:50699 denotes oligosaccharide
T572 999-1003 CHEBI:50325;CHEBI:50325 denotes head
T573 1004-1009 CHEBI:24433;CHEBI:24433 denotes group
T574 1013-1025 CHEBI:5386;CHEBI:5386 denotes gangliosides
T575 1073-1084 CHEBI:5386;CHEBI:5386 denotes ganglioside
T576 1093-1099 SO:0000417 denotes domain
T577 1113-1123 SP_7 denotes SARS-CoV-2
T578 1152-1162 SP_7 denotes SARS-CoV-2
T579 1163-1171 SO:0001060 denotes isolates
T580 1354-1359 SO:0000162 denotes sites
T581 1405-1410 SP_6;NCBITaxon:9606 denotes human
T582 1415-1421 NCBITaxon:33208 denotes animal
T583 1422-1429 NCBITaxon:10239 denotes viruses
T584 1444-1454 SP_7 denotes SARS-CoV-2
T585 1562-1573 CHEBI:28892;CHEBI:28892 denotes ganglioside

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T166 105-115 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T167 152-163 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T168 399-410 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T169 464-475 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739
T170 554-565 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T171 869-880 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T172 897-912 Body_part denotes oligosaccharide http://purl.org/sig/ont/fma/fma82742
T173 993-998 Body_part denotes sugar http://purl.org/sig/ont/fma/fma82737
T174 999-1003 Body_part denotes head http://purl.org/sig/ont/fma/fma7154
T175 1013-1025 Body_part denotes gangliosides http://purl.org/sig/ont/fma/fma82816
T176 1035-1045 Body_part denotes Amino acid http://purl.org/sig/ont/fma/fma82739
T177 1073-1084 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816
T178 1130-1137 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T179 1240-1250 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T180 1519-1529 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T181 1562-1573 Body_part denotes ganglioside http://purl.org/sig/ont/fma/fma82816

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T16 999-1003 Body_part denotes head http://purl.obolibrary.org/obo/UBERON_0000033

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T122 46-54 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T123 57-66 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T124 274-282 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T125 1113-1121 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T126 1152-1160 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T127 1444-1452 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T195 105-124 http://purl.obolibrary.org/obo/CHEBI_33708 denotes amino acid residues
T196 105-124 http://purl.obolibrary.org/obo/PR_000036907 denotes amino acid residues
T197 236-239 http://purl.obolibrary.org/obo/CLO_0001002 denotes 162
T198 250-252 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T199 536-537 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T200 582-583 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T201 654-655 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T202 775-776 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T203 999-1003 http://purl.obolibrary.org/obo/UBERON_0000033 denotes head
T204 999-1003 http://www.ebi.ac.uk/efo/EFO_0000964 denotes head
T205 1140-1141 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T206 1230-1233 http://purl.obolibrary.org/obo/CLO_0001002 denotes 162
T207 1240-1259 http://purl.obolibrary.org/obo/CHEBI_33708 denotes amino acid residues
T208 1240-1259 http://purl.obolibrary.org/obo/PR_000036907 denotes amino acid residues
T209 1388-1389 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T210 1405-1410 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T211 1415-1421 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T212 1422-1429 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T213 1477-1480 http://purl.obolibrary.org/obo/CLO_0001002 denotes 162

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T620 105-115 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T621 105-110 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T622 111-115 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T623 152-163 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T624 399-410 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T625 464-475 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T626 464-469 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T627 470-475 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T628 554-565 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T629 641-644 Chemical denotes Phe http://purl.obolibrary.org/obo/CHEBI_17295|http://purl.obolibrary.org/obo/CHEBI_29997
T631 683-686 Chemical denotes Lys http://purl.obolibrary.org/obo/CHEBI_133538|http://purl.obolibrary.org/obo/CHEBI_18019|http://purl.obolibrary.org/obo/CHEBI_29967
T634 695-698 Chemical denotes Arg http://purl.obolibrary.org/obo/CHEBI_16467|http://purl.obolibrary.org/obo/CHEBI_29952
T636 799-802 Chemical denotes Asn http://purl.obolibrary.org/obo/CHEBI_17196|http://purl.obolibrary.org/obo/CHEBI_22653|http://purl.obolibrary.org/obo/CHEBI_50347
T639 811-814 Chemical denotes Asn http://purl.obolibrary.org/obo/CHEBI_17196|http://purl.obolibrary.org/obo/CHEBI_22653|http://purl.obolibrary.org/obo/CHEBI_50347
T642 869-880 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T643 897-912 Chemical denotes oligosaccharide http://purl.obolibrary.org/obo/CHEBI_50699
T644 929-939 Chemical denotes asparagine http://purl.obolibrary.org/obo/CHEBI_22653
T645 1004-1009 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T646 1013-1025 Chemical denotes gangliosides http://purl.obolibrary.org/obo/CHEBI_28892
T647 1035-1045 Chemical denotes Amino acid http://purl.obolibrary.org/obo/CHEBI_33704
T648 1041-1045 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T649 1073-1084 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T650 1130-1137 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T651 1240-1250 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T652 1240-1245 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T653 1246-1250 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T654 1272-1275 Chemical denotes GM1 http://purl.obolibrary.org/obo/CHEBI_18216|http://purl.obolibrary.org/obo/CHEBI_61048|http://purl.obolibrary.org/obo/CHEBI_73110
T657 1310-1320 Chemical denotes asparagine http://purl.obolibrary.org/obo/CHEBI_22653
T658 1519-1529 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T659 1519-1524 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T660 1525-1529 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T661 1562-1573 Chemical denotes ganglioside http://purl.obolibrary.org/obo/CHEBI_28892
T662 1665-1675 Chemical denotes asparagine http://purl.obolibrary.org/obo/CHEBI_22653

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T8 777-792 http://purl.obolibrary.org/obo/GO_0006487 denotes N-glycosylation
T9 779-792 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T10 1340-1353 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation
T11 1695-1708 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T43 1272-1275 GlycoEpitope denotes GM1 http://www.glycoepitope.jp/epitopes/EP0050

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T203 0-210 Sentence denotes As CLQ and CLQ-OH are potential therapies for SARS-CoV-2 infection, it is important to check whether the amino acid residues identified as critical for ganglioside binding are conserved among clinical isolates.
T204 211-363 Sentence denotes The alignment of the 111–162 domain of 11 clinical isolates of SARS-CoV-2 from various geographic origins (including Asia and USA) is shown in Fig. 10 .
T205 364-496 Sentence denotes In this region, which contains the ganglioside-binding domain identified in the present report, all amino acids are fully conserved.
T206 497-704 Sentence denotes Interestingly, the motif is built like a giant consensus ganglioside-binding domain: a central region displaying the critical aromatic residue (Phe-135) and a basic residue at each end (Lys-113 and Arg-158).
T207 705-820 Sentence denotes In the middle of each stretch separating this typical triad, there is a N-glycosylation site (Asn-122 and Asn-149).
T208 821-1026 Sentence denotes These last regions are not directly involved in ganglioside binding, so the oligosaccharide linked to these asparagine residues could be perfectly intercalated between the sugar head group of gangliosides.
T209 1027-1235 Sentence denotes Fig. 10 Amino acid sequence alignments of the ganglioside-binding domain (GBD) of the SARS-CoV-2 spike protein. (a) Clinical SARS-CoV-2 isolates aligned with the reference sequence (6VSB_A, fragment 111–162).
T210 1236-1305 Sentence denotes The amino acid residues involved in GM1 binding are indicated in red.
T211 1306-1482 Sentence denotes Two asparagine residues acting as glycosylation sites are highlighted in yellow. (b) Alignments of human and animal viruses compared with SARS-CoV-2 (6VSB_A, fragment 111–162).
T212 1483-1741 Sentence denotes Deletions are highlighted in green, amino acid changes in residues involved in ganglioside binding are highlighted in blue, conserved residues of the GBD are highlighted in red, and asparagine residues acting as glycosylation sites are highlighted in yellow.