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PMC:7199903 / 10094-10499 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T55 57-64 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T56 66-73 Body_part denotes Protein http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T40 44-52 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T41 388-396 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T101 15-17 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507
T102 57-64 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T103 66-73 Chemical denotes Protein http://purl.obolibrary.org/obo/CHEBI_16541
T104 90-92 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T105 292-294 Chemical denotes EM http://purl.obolibrary.org/obo/CHEBI_73507
T106 329-336 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154

LitCovid-sample-Enju

Id Subject Object Predicate Lexical cue
T30763 0-5 VBG denotes Using
T13476 6-9 DT denotes the
T42306 10-17 NN denotes cryo-EM
T91220 18-27 NN denotes structure
T69994 28-30 IN denotes of
T71591 31-34 DT denotes the
T48558 35-43 JJ denotes trimeric
T23500 44-54 NN denotes SARS-CoV-2
T25885 55-56 NN denotes S
T17500 57-64 NN denotes protein
T82169 65-66 -LRB- denotes [
T26800 66-73 NNP denotes Protein
T88396 74-78 NNP denotes Data
T36507 79-83 NNP denotes Bank
T86203 84-85 -LRB- denotes (
T72606 85-88 NN denotes PDB
T40590 88-89 -RRB- denotes )
T60839 90-92 NN denotes ID
T80673 93-97 NN denotes 6VSB
T76385 97-98 -RRB- denotes ]
T77178 99-100 -LRB- denotes (
T74643 100-101 CD denotes 4
T79252 101-102 -RRB- denotes )
T51300 102-103 -COMMA- denotes ,
T91587 104-106 PRP denotes we
T42207 107-113 VBD denotes mapped
T16134 114-117 DT denotes the
T78920 118-131 NN denotes glycosylation
T91709 132-138 NN denotes status
T64071 139-141 IN denotes of
T39211 142-145 DT denotes the
T28536 146-157 NN denotes coronavirus
T68075 158-163 NN denotes spike
T88891 164-171 NN denotes mimetic
T62553 172-176 IN denotes onto
T78411 177-180 DT denotes the
T93076 181-195 RB denotes experimentally
T78348 196-206 VBN denotes determined
T54540 207-224 JJ denotes three-dimensional
T71501 225-226 -LRB- denotes (
T32249 226-228 NN denotes 3D
T89594 228-229 -RRB- denotes )
T40374 230-239 NN denotes structure
T79174 240-241 -LRB- denotes (
T20422 241-245 NN denotes Fig.
T47865 246-247 CD denotes 3
T15458 247-248 -RRB- denotes )
T90727 250-254 DT denotes This
T31548 255-263 VBN denotes combined
T3218 264-268 NN denotes mass
T91160 269-282 JJ denotes spectrometric
T84264 283-286 CC denotes and
T10034 287-294 NN denotes cryo-EM
T55820 295-303 NN denotes analysis
T68991 304-311 VBZ denotes reveals
T78943 312-315 WRB denotes how
T61661 316-319 DT denotes the
T35615 320-328 JJ denotes N-linked
T51462 329-336 NNS denotes glycans
T99410 337-344 VBP denotes occlude
T96601 345-353 JJ denotes distinct
T82813 354-361 NNS denotes regions
T46834 362-368 IN denotes across
T85354 369-372 DT denotes the
T35997 373-380 NN denotes surface
T91002 381-383 IN denotes of
T22272 384-387 DT denotes the
T59592 388-398 NN denotes SARS-CoV-2
T72733 399-404 NN denotes spike
R63715 T51462 T35615 arg1Of glycans,N-linked
R49893 T51462 T99410 arg1Of glycans,occlude
R87634 T82813 T99410 arg2Of regions,occlude
R53136 T82813 T96601 arg1Of regions,distinct
R95570 T82813 T46834 arg1Of regions,across
R90363 T35997 T46834 arg2Of surface,across
R61667 T35997 T85354 arg1Of surface,the
R11177 T35997 T91002 arg1Of surface,of
R42528 T72733 T91002 arg2Of spike,of
R43403 T72733 T22272 arg1Of spike,the
R65477 T72733 T59592 arg1Of spike,SARS-CoV-2
R10701 T91587 T30763 arg1Of we,Using
R58330 T91220 T30763 arg2Of structure,Using
R37482 T42207 T30763 modOf mapped,Using
R92587 T91220 T13476 arg1Of structure,the
R60849 T91220 T42306 arg1Of structure,cryo-EM
R27705 T91220 T69994 arg1Of structure,of
R62000 T17500 T69994 arg2Of protein,of
R76411 T17500 T71591 arg1Of protein,the
R45653 T17500 T48558 arg1Of protein,trimeric
R35651 T17500 T23500 arg1Of protein,SARS-CoV-2
R21026 T17500 T25885 arg1Of protein,S
R68974 T91220 T82169 arg1Of structure,[
R64132 T80673 T82169 arg2Of 6VSB,[
R3371 T76385 T82169 arg3Of ],[
R10434 T36507 T26800 arg1Of Bank,Protein
R75744 T36507 T88396 arg1Of Bank,Data
R15368 T80673 T36507 arg1Of 6VSB,Bank
R18037 T80673 T86203 arg1Of 6VSB,(
R46036 T72606 T86203 arg2Of PDB,(
R15171 T40590 T86203 arg3Of ),(
R77054 T80673 T60839 arg1Of 6VSB,ID
R63130 T91220 T77178 arg1Of structure,(
R21273 T74643 T77178 arg2Of 4,(
R34656 T79252 T77178 arg3Of ),(
R73862 T42207 T51300 arg1Of mapped,","
R18677 T91587 T42207 arg1Of we,mapped
R36744 T91709 T42207 arg2Of status,mapped
R28670 T91709 T16134 arg1Of status,the
R29042 T91709 T78920 arg1Of status,glycosylation
R64896 T91709 T64071 arg1Of status,of
R66840 T88891 T64071 arg2Of mimetic,of
R10896 T88891 T39211 arg1Of mimetic,the
R39256 T88891 T28536 arg1Of mimetic,coronavirus
R44471 T88891 T68075 arg1Of mimetic,spike
R54708 T42207 T62553 arg1Of mapped,onto
R45086 T40374 T62553 arg2Of structure,onto
R37005 T40374 T78411 arg1Of structure,the
R28431 T78348 T93076 arg1Of determined,experimentally
R2494 T40374 T78348 arg1Of structure,determined
R9781 T40374 T54540 arg1Of structure,three-dimensional
R36781 T40374 T71501 arg1Of structure,(
R87348 T32249 T71501 arg2Of 3D,(
R71528 T89594 T71501 arg3Of ),(
R48064 T40374 T79174 arg1Of structure,(
R78175 T20422 T79174 arg2Of Fig.,(
R48232 T15458 T79174 arg3Of ),(
R4234 T20422 T47865 arg1Of Fig.,3
R74959 T55820 T90727 arg1Of analysis,This
R55220 T55820 T31548 arg2Of analysis,combined
R54515 T55820 T3218 arg1Of analysis,mass
R37750 T55820 T91160 arg1Of analysis,spectrometric
R41327 T91160 T84264 arg1Of spectrometric,and
R51882 T10034 T84264 arg2Of cryo-EM,and
R41695 T55820 T10034 arg1Of analysis,cryo-EM
R9217 T55820 T68991 arg1Of analysis,reveals
R48217 T78943 T68991 arg2Of how,reveals
R83745 T99410 T78943 arg1Of occlude,how
R44554 T51462 T61661 arg1Of glycans,the

LitCovid-sample-PD-FMA

Id Subject Object Predicate Lexical cue fma_id
T54 57-64 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T55 66-73 Body_part denotes Protein http://purl.org/sig/ont/fma/fma67257

LitCovid-sample-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T78 57-64 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T79 66-73 Chemical denotes Protein http://purl.obolibrary.org/obo/CHEBI_16541
T80 329-336 Chemical denotes glycans http://purl.obolibrary.org/obo/CHEBI_18154

LitCovid-sample-PD-NCBITaxon

Id Subject Object Predicate Lexical cue ncbi_taxonomy_id
T39 44-54 Species denotes SARS-CoV-2 NCBItxid:2697049
T40 388-398 Species denotes SARS-CoV-2 NCBItxid:2697049

LitCovid-sample-sentences

Id Subject Object Predicate Lexical cue
T69 0-249 Sentence denotes Using the cryo-EM structure of the trimeric SARS-CoV-2 S protein [Protein Data Bank (PDB) ID 6VSB] (4), we mapped the glycosylation status of the coronavirus spike mimetic onto the experimentally determined three-dimensional (3D) structure (Fig. 3).
T70 250-405 Sentence denotes This combined mass spectrometric and cryo-EM analysis reveals how the N-linked glycans occlude distinct regions across the surface of the SARS-CoV-2 spike.

LitCovid-sample-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T34 44-54 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096
T35 388-398 Disease denotes SARS-CoV-2 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-sample-Pubtator

Id Subject Object Predicate Lexical cue pubann:denotes
335 399-404 Gene denotes spike Gene:43740568
336 158-163 Gene denotes spike Gene:43740568
337 55-64 Gene denotes S protein Gene:43740568
338 44-54 Species denotes SARS-CoV-2 Tax:2697049
339 146-157 Species denotes coronavirus Tax:11118
340 388-398 Species denotes SARS-CoV-2 Tax:2697049
341 320-336 Chemical denotes N-linked glycans

LitCovid-sample-UniProt

Id Subject Object Predicate Lexical cue uniprot_id
T1201 55-64 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

LitCovid-sample-PD-GO-BP-0

Id Subject Object Predicate Lexical cue
T33 118-131 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-sample-GO-BP

Id Subject Object Predicate Lexical cue
T31 118-131 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T36 118-131 http://purl.obolibrary.org/obo/GO_0070085 denotes glycosylation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T69 0-249 Sentence denotes Using the cryo-EM structure of the trimeric SARS-CoV-2 S protein [Protein Data Bank (PDB) ID 6VSB] (4), we mapped the glycosylation status of the coronavirus spike mimetic onto the experimentally determined three-dimensional (3D) structure (Fig. 3).
T70 250-405 Sentence denotes This combined mass spectrometric and cryo-EM analysis reveals how the N-linked glycans occlude distinct regions across the surface of the SARS-CoV-2 spike.

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
335 399-404 Gene denotes spike Gene:43740568
336 158-163 Gene denotes spike Gene:43740568
337 55-64 Gene denotes S protein Gene:43740568
338 44-54 Species denotes SARS-CoV-2 Tax:2697049
339 146-157 Species denotes coronavirus Tax:11118
340 388-398 Species denotes SARS-CoV-2 Tax:2697049
341 320-336 Chemical denotes N-linked glycans