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sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-87 Sentence denotes Roles of glycans in interactions between gp120 and HIV broadly neutralizing antibodies.
TextSentencer_T2 88-299 Sentence denotes Many novel broadly neutralizing antibodies against human immunodeficiency virus (HIV) have been identified during the past decade, providing promising templates for the development of an effective HIV-1 vaccine.
TextSentencer_T3 300-459 Sentence denotes Structural studies reveal that the epitopes of some of these antibodies involve one or more crucial glycans, without which the binding is completely abolished.
TextSentencer_T4 460-710 Sentence denotes In this study, we have investigated the critical roles of glycans in interactions between HIV-1 gp120 and two broadly neutralizing antibodies PG9 (targeting V1/V2) and PGT128 (targeting V3) that are able to neutralize more than 70% of HIV-1 isolates.
TextSentencer_T5 711-908 Sentence denotes We have performed molecular dynamics simulations of a number of systems including antibody-gp120 complex with and without glycans, antibody, gp120 with and without glycans, and glycan-only systems.
TextSentencer_T6 909-1115 Sentence denotes The simulation results show that the complex structures are stabilized by the glycans, and the multivalent interactions between the antibody and gp120 promote cooperativities to further enhance the binding.
TextSentencer_T7 1116-1267 Sentence denotes In the free gp120, the glycans increase the flexibility of the V1/V2 and V3 loops, which likely increases the entropy cost of the antibody recognition.
TextSentencer_T8 1268-1522 Sentence denotes However, the antibodies are able to bind the flexible interface by recognizing the preexisting glycan conformation, and penetrating the glycan shield with flexible complementarity determining region loops that sample the bound conformations occasionally.
T1 0-87 Sentence denotes Roles of glycans in interactions between gp120 and HIV broadly neutralizing antibodies.
T2 88-299 Sentence denotes Many novel broadly neutralizing antibodies against human immunodeficiency virus (HIV) have been identified during the past decade, providing promising templates for the development of an effective HIV-1 vaccine.
T3 300-459 Sentence denotes Structural studies reveal that the epitopes of some of these antibodies involve one or more crucial glycans, without which the binding is completely abolished.
T4 460-710 Sentence denotes In this study, we have investigated the critical roles of glycans in interactions between HIV-1 gp120 and two broadly neutralizing antibodies PG9 (targeting V1/V2) and PGT128 (targeting V3) that are able to neutralize more than 70% of HIV-1 isolates.
T5 711-908 Sentence denotes We have performed molecular dynamics simulations of a number of systems including antibody-gp120 complex with and without glycans, antibody, gp120 with and without glycans, and glycan-only systems.
T6 909-1115 Sentence denotes The simulation results show that the complex structures are stabilized by the glycans, and the multivalent interactions between the antibody and gp120 promote cooperativities to further enhance the binding.
T7 1116-1267 Sentence denotes In the free gp120, the glycans increase the flexibility of the V1/V2 and V3 loops, which likely increases the entropy cost of the antibody recognition.
T8 1268-1522 Sentence denotes However, the antibodies are able to bind the flexible interface by recognizing the preexisting glycan conformation, and penetrating the glycan shield with flexible complementarity determining region loops that sample the bound conformations occasionally.
T1 0-87 Sentence denotes Roles of glycans in interactions between gp120 and HIV broadly neutralizing antibodies.
T2 88-299 Sentence denotes Many novel broadly neutralizing antibodies against human immunodeficiency virus (HIV) have been identified during the past decade, providing promising templates for the development of an effective HIV-1 vaccine.
T3 300-459 Sentence denotes Structural studies reveal that the epitopes of some of these antibodies involve one or more crucial glycans, without which the binding is completely abolished.
T4 460-710 Sentence denotes In this study, we have investigated the critical roles of glycans in interactions between HIV-1 gp120 and two broadly neutralizing antibodies PG9 (targeting V1/V2) and PGT128 (targeting V3) that are able to neutralize more than 70% of HIV-1 isolates.
T5 711-908 Sentence denotes We have performed molecular dynamics simulations of a number of systems including antibody-gp120 complex with and without glycans, antibody, gp120 with and without glycans, and glycan-only systems.
T6 909-1115 Sentence denotes The simulation results show that the complex structures are stabilized by the glycans, and the multivalent interactions between the antibody and gp120 promote cooperativities to further enhance the binding.
T7 1116-1267 Sentence denotes In the free gp120, the glycans increase the flexibility of the V1/V2 and V3 loops, which likely increases the entropy cost of the antibody recognition.
T8 1268-1522 Sentence denotes However, the antibodies are able to bind the flexible interface by recognizing the preexisting glycan conformation, and penetrating the glycan shield with flexible complementarity determining region loops that sample the bound conformations occasionally.

GlycoBiology-PACDB

Id Subject Object Predicate Lexical cue
_T1 139-172 http://acgg.asia/db/diseases/pacdb/lec?ids=LEC512 denotes human immunodeficiency virus (HIV

ICD10

Id Subject Object Predicate Lexical cue
T1 139-172 http://purl.bioontology.org/ontology/ICD10/B24 denotes human immunodeficiency virus (HIV
T2 139-172 http://purl.bioontology.org/ontology/ICD10/Z71.7 denotes human immunodeficiency virus (HIV
T3 139-172 http://purl.bioontology.org/ontology/ICD10/B20-B24.9 denotes human immunodeficiency virus (HIV
T4 145-161 http://purl.bioontology.org/ontology/ICD10/D84.9 denotes immunodeficiency

GlycoBiology-FMA

Id Subject Object Predicate Lexical cue
_T1 76-86 FMAID:167180 denotes antibodies
_T2 120-130 FMAID:167180 denotes antibodies
_T3 361-371 FMAID:167180 denotes antibodies
_T4 591-601 FMAID:167180 denotes antibodies
_T5 617-619 FMAID:102839 denotes V1
_T6 617-619 FMAID:272444 denotes V1
_T7 617-619 FMAID:280823 denotes V1
_T8 620-622 FMAID:102837 denotes V2
_T9 620-622 FMAID:280824 denotes V2
_T10 646-648 FMAID:102835 denotes V3
_T11 793-801 FMAID:167180 denotes antibody
_T12 842-850 FMAID:167180 denotes antibody
_T13 1041-1049 FMAID:167180 denotes antibody
_T14 1179-1181 FMAID:102839 denotes V1
_T15 1179-1181 FMAID:280823 denotes V1
_T16 1179-1181 FMAID:272444 denotes V1
_T17 1182-1184 FMAID:102837 denotes V2
_T18 1182-1184 FMAID:280824 denotes V2
_T19 1189-1191 FMAID:102835 denotes V3
_T20 1246-1254 FMAID:167180 denotes antibody
_T21 1281-1291 FMAID:167180 denotes antibodies

uniprot-human

Id Subject Object Predicate Lexical cue
T1 41-46 http://www.uniprot.org/uniprot/Q14624 denotes gp120
T2 556-561 http://www.uniprot.org/uniprot/Q14624 denotes gp120
T3 802-807 http://www.uniprot.org/uniprot/Q14624 denotes gp120
T4 852-857 http://www.uniprot.org/uniprot/Q14624 denotes gp120
T5 1054-1059 http://www.uniprot.org/uniprot/Q14624 denotes gp120
T6 1128-1133 http://www.uniprot.org/uniprot/Q14624 denotes gp120

GlycoBiology-NCBITAXON

Id Subject Object Predicate Lexical cue
T1 88-92 http://purl.bioontology.org/ontology/NCBITAXON/9973 denotes Many
T2 139-167 http://purl.bioontology.org/ontology/NCBITAXON/11676 denotes human immunodeficiency virus
T3 139-167 http://purl.bioontology.org/ontology/NCBITAXON/12721 denotes human immunodeficiency virus
T4 139-167 http://purl.bioontology.org/ontology/NCBITAXON/11723 denotes human immunodeficiency virus
T5 139-167 http://purl.bioontology.org/ontology/NCBITAXON/11709 denotes human immunodeficiency virus
T6 145-167 http://purl.bioontology.org/ontology/NCBITAXON/11673 denotes immunodeficiency virus
T7 162-167 http://purl.bioontology.org/ontology/NCBITAXON/184751 denotes virus

GO-BP

Id Subject Object Predicate Lexical cue
T1 257-268 http://purl.obolibrary.org/obo/GO_0032502 denotes development

GO-MF

Id Subject Object Predicate Lexical cue
T1 76-86 http://purl.obolibrary.org/obo/GO_0003823 denotes antibodies
T2 120-130 http://purl.obolibrary.org/obo/GO_0003823 denotes antibodies
T3 361-371 http://purl.obolibrary.org/obo/GO_0003823 denotes antibodies
T4 591-601 http://purl.obolibrary.org/obo/GO_0003823 denotes antibodies
T5 793-801 http://purl.obolibrary.org/obo/GO_0003823 denotes antibody
T6 842-850 http://purl.obolibrary.org/obo/GO_0003823 denotes antibody
T7 1041-1049 http://purl.obolibrary.org/obo/GO_0003823 denotes antibody
T8 1246-1254 http://purl.obolibrary.org/obo/GO_0003823 denotes antibody
T9 427-434 http://purl.obolibrary.org/obo/GO_0070026 denotes binding
T10 1107-1114 http://purl.obolibrary.org/obo/GO_0070026 denotes binding
T11 1304-1308 http://purl.obolibrary.org/obo/GO_0070026 denotes bind
T12 427-434 http://purl.obolibrary.org/obo/GO_0003680 denotes binding
T13 1107-1114 http://purl.obolibrary.org/obo/GO_0003680 denotes binding
T14 1304-1308 http://purl.obolibrary.org/obo/GO_0003680 denotes bind
T15 427-434 http://purl.obolibrary.org/obo/GO_0017091 denotes binding
T16 1107-1114 http://purl.obolibrary.org/obo/GO_0017091 denotes binding
T17 1304-1308 http://purl.obolibrary.org/obo/GO_0017091 denotes bind
T18 427-434 http://purl.obolibrary.org/obo/GO_0005488 denotes binding
T19 1107-1114 http://purl.obolibrary.org/obo/GO_0005488 denotes binding
T20 1304-1308 http://purl.obolibrary.org/obo/GO_0005488 denotes bind
T21 1095-1114 http://purl.obolibrary.org/obo/GO_0035326 denotes enhance the binding

EDAM-topics

Id Subject Object Predicate Lexical cue
T1 20-32 http://edamontology.org/topic_0602 denotes interactions
T2 139-144 http://edamontology.org/topic_2815 denotes human
T3 311-318 http://edamontology.org/topic_3678 denotes studies
T4 468-473 http://edamontology.org/topic_3678 denotes study
T5 529-541 http://edamontology.org/topic_0602 denotes interactions
T6 607-616 http://edamontology.org/topic_0154 denotes targeting
T7 636-645 http://edamontology.org/topic_0154 denotes targeting
T8 729-747 http://edamontology.org/topic_0176 denotes molecular dynamics
T9 1016-1028 http://edamontology.org/topic_0602 denotes interactions
T10 1060-1067 http://edamontology.org/topic_0749 denotes promote
T11 1060-1067 http://edamontology.org/topic_1312 denotes promote
T12 1060-1067 http://edamontology.org/topic_0111 denotes promote
T13 1478-1484 http://edamontology.org/topic_3277 denotes sample

EDAM-DFO

Id Subject Object Predicate Lexical cue
T1 184-194 http://edamontology.org/data_2611 denotes identified
T2 184-194 http://edamontology.org/data_0842 denotes identified
T3 300-310 http://edamontology.org/data_0883 denotes Structural
T4 729-759 http://edamontology.org/operation_2476 denotes molecular dynamics simulations
T5 954-964 http://edamontology.org/data_0883 denotes structures
T6 1255-1266 http://edamontology.org/operation_2423 denotes recognition

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 145-161 Phenotype denotes immunodeficiency HP:0002721

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 145-161 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 139-144 OrganismTaxon denotes human 9606

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 1411-1417 Body_part denotes shield http://purl.obolibrary.org/obo/UBERON_0003062