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1.0alpha7.train.1000
6725038
[ { "id": "1.0alpha7.train.1000.sent", "type": "sentence", "text": [ "Because DNase I footprinting revealed protein binding to all five dfd-related elements, the dfd-1 site was chosen to characterize the DNA-protein interactions in more detail." ], "offsets": [ [ 0, 177 ] ] } ]
[ { "id": "1.0alpha7.train.1000.ent0_0", "type": "assay", "text": [ "DNase I footprinting" ], "offsets": [ [ 9, 29 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1000.ent1_0", "type": "DNA", "text": [ "dfd-1 site" ], "offsets": [ [ 95, 105 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1000.ent2_0", "type": "DNA", "text": [ "dfd-related elements" ], "offsets": [ [ 68, 88 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1000.ent3_0", "type": "protein", "text": [ "DNase I" ], "offsets": [ [ 9, 16 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1773" }, { "db_name": "hgnc", "db_id": "DNASE1" }, { "db_name": "uniprot", "db_id": "P24855" } ] } ]
[]
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[]
1.0alpha7.train.1001
24587162
[ { "id": "1.0alpha7.train.1001.sent", "type": "sentence", "text": [ "Binding of U1 snRNP to F1, in conjunction with a direct interaction between dU1-70K and the PSI AB motif, might preclude binding of a second U1 snRNP particle to the accurate 5 splice site, perhaps by steric interference." ], "offsets": [ [ 0, 227 ] ] } ]
[ { "id": "1.0alpha7.train.1001.ent0_0", "type": "DNA", "text": [ "PSI AB motif" ], "offsets": [ [ 96, 108 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1001.ent1_0", "type": "DNA", "text": [ "F1" ], "offsets": [ [ 25, 27 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1001.ent2_0", "type": "protein", "text": [ "dU1-70K" ], "offsets": [ [ 79, 86 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "M9PC89" } ] }, { "id": "1.0alpha7.train.1001.ent3_0", "type": "DNA", "text": [ "5 splice site" ], "offsets": [ [ 180, 194 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1001.ent4_0", "type": "protein-complex", "text": [ "U1 snRNP" ], "offsets": [ [ 12, 20 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1001.ent5_1", "type": "protein-complex", "text": [ "U1 snRNP" ], "offsets": [ [ 146, 154 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1002
1464882
[ { "id": "1.0alpha7.train.1002.sent", "type": "sentence", "text": [ "Alternatively, it is possible that there are subtle differences in the binding of Sp1 oligonucleotide to the same nuclear protein in the two different cell types that are reflected in the differential antibody response." ], "offsets": [ [ 0, 221 ] ] } ]
[ { "id": "1.0alpha7.train.1002.ent0_0", "type": "reagent", "text": [ "Sp1 oligonucleotide" ], "offsets": [ [ 83, 102 ] ], "normalized": [] } ]
[]
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[]
1.0alpha7.train.1003
9252832
[ { "id": "1.0alpha7.train.1003.sent", "type": "sentence", "text": [ "The binding of raptor to mTOR is necessary for the mTOR-catalyzed phosphorylation of 4EBP1 in vitro, and it strongly enhances the mTOR kinase activity toward p70alpha." ], "offsets": [ [ 0, 173 ] ] } ]
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[]
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1.0alpha7.train.1004
1464878
[ { "id": "1.0alpha7.train.1004.sent", "type": "sentence", "text": [ "This conclusion is based on studies carried out with consensus Sp1 oligonucleotide showing that (i) Sp1 binding activity was present in nuclear extracts from all three cell types studied; (ii) Sp1 binding was 2–3-fold greater in nuclear extracts from chondrocytes dedifferentiated into fibroblast-like cells by passage in monolayer culture on plastic substrate than in freshly isolated chondrocytes or in chondrocytes allowed to maintain their phenotype by culture on polyHEMA-coated dishes; (iii) Sp1 binding was specific, since it was competed by unlabeled Sp1 and not by AP1; (iv) Sp1 binding was enhanced by KCl and inhibited by the addition of EDTA; (v) A polyclonal antibody against Sp1 decreased the binding of Sp1 by 85% in chondrocytes dedifferentiated into fibroblast-like cells but caused only a very slight inhibition in freshly isolated chondrocytes or in chondrocytes cultured in suspension on polyHEMA." ], "offsets": [ [ 0, 917 ] ] } ]
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[]
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[]
1.0alpha7.train.1005
12455149
[ { "id": "1.0alpha7.train.1005.sent", "type": "sentence", "text": [ "Thus, it appears that tRNA binding by GCN2 is absolutely required for its activation by rapamycin, as observed previously for amino acid limitation (Wek et al. 1995 )." ], "offsets": [ [ 0, 170 ] ] } ]
[ { "id": "1.0alpha7.train.1005.ent0_0", "type": "RNA", "text": [ "tRNA" ], "offsets": [ [ 23, 27 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1005.ent1_0", "type": "protein", "text": [ "GCN2" ], "offsets": [ [ 40, 44 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "440275" }, { "db_name": "hgnc", "db_id": "EIF2AK4" }, { "db_name": "uniprot", "db_id": "Q9P2K8" } ] }, { "id": "1.0alpha7.train.1005.ent2_0", "type": "drug", "text": [ "rapamycin" ], "offsets": [ [ 90, 99 ] ], "normalized": [ { "db_name": "DrugBank", "db_id": "DB00877" } ] } ]
[]
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1.0alpha7.train.1006
12017941
[ { "id": "1.0alpha7.train.1006.sent", "type": "sentence", "text": [ "Indeed, the replacement of RalA Asp49 with the isosteric Asn residue does not affect binding of Ral to Sec5, while a mutation to a larger glutamic acid residue disrupts binding ( Moskalenko et al., 2002)." ], "offsets": [ [ 0, 210 ] ] } ]
[ { "id": "1.0alpha7.train.1006.ent0_0", "type": "amino-acid", "text": [ "RalA Asp49" ], "offsets": [ [ 28, 38 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1006.ent1_0", "type": "protein-family", "text": [ "Ral" ], "offsets": [ [ 99, 102 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR028412" } ] }, { "id": "1.0alpha7.train.1006.ent2_0", "type": "amino-acid", "text": [ "glutamic acid" ], "offsets": [ [ 143, 156 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "33032" } ] }, { "id": "1.0alpha7.train.1006.ent3_0", "type": "protein", "text": [ "Sec5" ], "offsets": [ [ 107, 111 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "55770" }, { "db_name": "hgnc", "db_id": "EXOC2" }, { "db_name": "uniprot", "db_id": "Q96KP1" } ] }, { "id": "1.0alpha7.train.1006.ent4_0", "type": "amino-acid", "text": [ "Asn" ], "offsets": [ [ 59, 62 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "6267" } ] }, { "id": "1.0alpha7.train.1006.ent5_0", "type": "protein", "text": [ "RalA" ], "offsets": [ [ 28, 32 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5898" }, { "db_name": "hgnc", "db_id": "RALA" }, { "db_name": "uniprot", "db_id": "P11233" } ] } ]
[]
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1.0alpha7.train.1007
1778385
[ { "id": "1.0alpha7.train.1007.sent", "type": "sentence", "text": [ "GST-STVII, -STVIII, -STIX, and - STXI-C2B had strong IP4 binding activity like synaptotagmin II, but GST-STVI-C2B showed weak IP4 binding activity (<20% of that of GST-STII-C2B)." ], "offsets": [ [ 0, 183 ] ] } ]
[ { "id": "1.0alpha7.train.1007.ent0_0", "type": "experimental-construct", "text": [ "- STXI-C2B" ], "offsets": [ [ 31, 41 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent1_0", "type": "experimental-construct", "text": [ "GST-STVII" ], "offsets": [ [ 0, 9 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent2_0", "type": "protein", "text": [ "synaptotagmin II" ], "offsets": [ [ 81, 97 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "127833" }, { "db_name": "hgnc", "db_id": "SYT2" }, { "db_name": "uniprot", "db_id": "Q8N9I0" } ] }, { "id": "1.0alpha7.train.1007.ent3_0", "type": "experimental-construct", "text": [ "-STIX" ], "offsets": [ [ 20, 25 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent4_0", "type": "experimental-construct", "text": [ "GST-STVI-C2B" ], "offsets": [ [ 104, 116 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent5_0", "type": "experimental-construct", "text": [ "-STVIII" ], "offsets": [ [ 11, 18 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent6_0", "type": "chemical", "text": [ "IP4" ], "offsets": [ [ 54, 57 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1007.ent7_1", "type": "chemical", "text": [ "IP4" ], "offsets": [ [ 130, 133 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1007.coref0", "entity_ids": [ "1.0alpha7.train.1007.ent0_0" ] }, { "id": "1.0alpha7.train.1007.coref1", "entity_ids": [ "1.0alpha7.train.1007.ent1_0" ] }, { "id": "1.0alpha7.train.1007.coref2", "entity_ids": [ "1.0alpha7.train.1007.ent2_0" ] }, { "id": "1.0alpha7.train.1007.coref3", "entity_ids": [ "1.0alpha7.train.1007.ent3_0" ] }, { "id": "1.0alpha7.train.1007.coref4", "entity_ids": [ "1.0alpha7.train.1007.ent4_0" ] }, { "id": "1.0alpha7.train.1007.coref5", "entity_ids": [ "1.0alpha7.train.1007.ent5_0" ] }, { "id": "1.0alpha7.train.1007.coref6", "entity_ids": [ "1.0alpha7.train.1007.ent6_0", "1.0alpha7.train.1007.ent7_1" ] } ]
[]
1.0alpha7.train.1008
9239374
[ { "id": "1.0alpha7.train.1008.sent", "type": "sentence", "text": [ "However, when the upstream AG is mutated, eliminating the binding of SPF45 to the pre-mRNA, SXL still binds to the RNA, but is no longer able to inhibit the second step of splicing." ], "offsets": [ [ 0, 185 ] ] } ]
[ { "id": "1.0alpha7.train.1008.ent0_0", "type": "protein", "text": [ "SPF45" ], "offsets": [ [ 71, 76 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "84991" }, { "db_name": "hgnc", "db_id": "RBM17" }, { "db_name": "uniprot", "db_id": "Q96I25" } ] }, { "id": "1.0alpha7.train.1008.ent1_0", "type": "RNA", "text": [ "RNA" ], "offsets": [ [ 119, 122 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1008.ent2_0", "type": "RNA", "text": [ "pre-mRNA" ], "offsets": [ [ 85, 93 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1008.ent3_0", "type": "protein", "text": [ "SXL" ], "offsets": [ [ 96, 99 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P19339" } ] }, { "id": "1.0alpha7.train.1008.ent4_0", "type": "chemical", "text": [ "AG" ], "offsets": [ [ 28, 30 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1008.coref0", "entity_ids": [ "1.0alpha7.train.1008.ent0_0" ] }, { "id": "1.0alpha7.train.1008.coref1", "entity_ids": [ "1.0alpha7.train.1008.ent1_0", "1.0alpha7.train.1008.ent2_0" ] }, { "id": "1.0alpha7.train.1008.coref2", "entity_ids": [ "1.0alpha7.train.1008.ent3_0" ] }, { "id": "1.0alpha7.train.1008.coref3", "entity_ids": [ "1.0alpha7.train.1008.ent4_0" ] } ]
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1.0alpha7.train.1009
3555022
[ { "id": "1.0alpha7.train.1009.sent", "type": "sentence", "text": [ "The interaction between synthetic peptides and AtCaM isoforms was analyzed by applying of synthetic peptides to a nitrocellulose membrane in a slot blot apparatus, and incubating the membrane with 35S-labeled AtCaM isoforms individually using the method described above (see “Calmodulin Binding to Fusion Proteins”)." ], "offsets": [ [ 0, 316 ] ] } ]
[ { "id": "1.0alpha7.train.1009.ent0_0", "type": "protein", "text": [ "AtCaM" ], "offsets": [ [ 47, 52 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1009.ent1_1", "type": "protein", "text": [ "AtCaM" ], "offsets": [ [ 209, 214 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1009.ent2_0", "type": "experiment-tag", "text": [ "35S" ], "offsets": [ [ 197, 200 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1009.ent3_0", "type": "fusion-protein", "text": [ "35S-labeled AtCaM" ], "offsets": [ [ 197, 214 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1009.coref0", "entity_ids": [ "1.0alpha7.train.1009.ent0_0", "1.0alpha7.train.1009.ent1_1" ] }, { "id": "1.0alpha7.train.1009.coref1", "entity_ids": [ "1.0alpha7.train.1009.ent2_0" ] }, { "id": "1.0alpha7.train.1009.coref2", "entity_ids": [ "1.0alpha7.train.1009.ent3_0" ] } ]
[]
1.0alpha7.train.1010
16547274
[ { "id": "1.0alpha7.train.1010.sent", "type": "sentence", "text": [ "Chrivia, J.C., R.P.S. Kwok, N. Lamb, M. Hagiwara, M.R. Montminy, and R.H. Goodman (1993) Phosphorylated CREB binds specifically to the nuclear protein CBP." ], "offsets": [ [ 0, 160 ] ] } ]
[ { "id": "1.0alpha7.train.1010.ent0_0", "type": "protein", "text": [ "CREB" ], "offsets": [ [ 108, 112 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1385" }, { "db_name": "hgnc", "db_id": "CREB1" }, { "db_name": "uniprot", "db_id": "P16220" } ] }, { "id": "1.0alpha7.train.1010.ent1_0", "type": "protein", "text": [ "Phosphorylated CREB" ], "offsets": [ [ 93, 112 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1010.ent2_0", "type": "protein", "text": [ "CBP" ], "offsets": [ [ 156, 159 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1387" }, { "db_name": "hgnc", "db_id": "CREBBP" }, { "db_name": "uniprot", "db_id": "Q92793" } ] } ]
[]
[ { "id": "1.0alpha7.train.1010.coref0", "entity_ids": [ "1.0alpha7.train.1010.ent0_0" ] }, { "id": "1.0alpha7.train.1010.coref1", "entity_ids": [ "1.0alpha7.train.1010.ent1_0" ] }, { "id": "1.0alpha7.train.1010.coref2", "entity_ids": [ "1.0alpha7.train.1010.ent2_0" ] } ]
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1.0alpha7.train.1011
2101537
[ { "id": "1.0alpha7.train.1011.sent", "type": "sentence", "text": [ "Although multiple transcription factors bind to CBP, there is a striking difference in the role of CBP depending on the transcriptional activator." ], "offsets": [ [ 0, 149 ] ] } ]
[ { "id": "1.0alpha7.train.1011.ent0_0", "type": "protein", "text": [ "CBP" ], "offsets": [ [ 50, 53 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1387" }, { "db_name": "hgnc", "db_id": "CREBBP" }, { "db_name": "uniprot", "db_id": "Q92793" } ] }, { "id": "1.0alpha7.train.1011.ent1_1", "type": "protein", "text": [ "CBP" ], "offsets": [ [ 102, 105 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1387" }, { "db_name": "hgnc", "db_id": "CREBBP" }, { "db_name": "uniprot", "db_id": "Q92793" } ] } ]
[]
[ { "id": "1.0alpha7.train.1011.coref0", "entity_ids": [ "1.0alpha7.train.1011.ent0_0", "1.0alpha7.train.1011.ent1_1" ] } ]
[]
1.0alpha7.train.1012
4034448
[ { "id": "1.0alpha7.train.1012.sent", "type": "sentence", "text": [ "The related MAGUKs SAP90/PSD95, PSD93/chapsyn-110, SAP97, and SAP102 all bound to the COOH-terminal tail of PMCA4b, whereas only the first three bound to the tail of PMCA2b." ], "offsets": [ [ 0, 180 ] ] } ]
[ { "id": "1.0alpha7.train.1012.ent0_0", "type": "protein", "text": [ "SAP97" ], "offsets": [ [ 54, 59 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1739" }, { "db_name": "hgnc", "db_id": "DLG1" }, { "db_name": "uniprot", "db_id": "Q12959" } ] }, { "id": "1.0alpha7.train.1012.ent1_0", "type": "protein", "text": [ "PSD93/chapsyn-110" ], "offsets": [ [ 34, 51 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1740" }, { "db_name": "hgnc", "db_id": "DLG2" }, { "db_name": "uniprot", "db_id": "Q15700" } ] }, { "id": "1.0alpha7.train.1012.ent2_0", "type": "protein", "text": [ "SAP102" ], "offsets": [ [ 66, 72 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1741" }, { "db_name": "hgnc", "db_id": "DLG3" }, { "db_name": "uniprot", "db_id": "Q92796" } ] }, { "id": "1.0alpha7.train.1012.ent3_0", "type": "protein", "text": [ "SAP90/PSD95" ], "offsets": [ [ 20, 31 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1742" }, { "db_name": "hgnc", "db_id": "DLG4" }, { "db_name": "uniprot", "db_id": "P78352" } ] }, { "id": "1.0alpha7.train.1012.ent4_0", "type": "protein-family", "text": [ "MAGUKs" ], "offsets": [ [ 13, 19 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1012.ent5_0", "type": "protein", "text": [ "PMCA2b" ], "offsets": [ [ 173, 179 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "491" }, { "db_name": "hgnc", "db_id": "ATP2B2" }, { "db_name": "uniprot", "db_id": "Q01814" } ] }, { "id": "1.0alpha7.train.1012.ent6_0", "type": "protein", "text": [ "PMCA4b" ], "offsets": [ [ 114, 120 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1012.coref0", "entity_ids": [ "1.0alpha7.train.1012.ent0_0" ] }, { "id": "1.0alpha7.train.1012.coref1", "entity_ids": [ "1.0alpha7.train.1012.ent1_0" ] }, { "id": "1.0alpha7.train.1012.coref2", "entity_ids": [ "1.0alpha7.train.1012.ent2_0" ] }, { "id": "1.0alpha7.train.1012.coref3", "entity_ids": [ "1.0alpha7.train.1012.ent3_0" ] }, { "id": "1.0alpha7.train.1012.coref4", "entity_ids": [ "1.0alpha7.train.1012.ent4_0" ] }, { "id": "1.0alpha7.train.1012.coref5", "entity_ids": [ "1.0alpha7.train.1012.ent5_0" ] }, { "id": "1.0alpha7.train.1012.coref6", "entity_ids": [ "1.0alpha7.train.1012.ent6_0" ] } ]
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1.0alpha7.train.1013
15595968
[ { "id": "1.0alpha7.train.1013.sent", "type": "sentence", "text": [ "Furthermore, PTB binding downstream of N1 affects its ability to bind upstream, suggesting that PTB cooperativity plays a role in repression ( 12)." ], "offsets": [ [ 0, 150 ] ] } ]
[ { "id": "1.0alpha7.train.1013.ent0_0", "type": "DNA", "text": [ "N1" ], "offsets": [ [ 41, 43 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1013.ent1_0", "type": "protein-family", "text": [ "PTB" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR006020" } ] }, { "id": "1.0alpha7.train.1013.ent2_1", "type": "protein-family", "text": [ "PTB" ], "offsets": [ [ 99, 102 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR006020" } ] } ]
[]
[ { "id": "1.0alpha7.train.1013.coref0", "entity_ids": [ "1.0alpha7.train.1013.ent0_0" ] }, { "id": "1.0alpha7.train.1013.coref1", "entity_ids": [ "1.0alpha7.train.1013.ent1_0", "1.0alpha7.train.1013.ent2_1" ] } ]
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1.0alpha7.train.1014
23282644
[ { "id": "1.0alpha7.train.1014.sent", "type": "sentence", "text": [ "Thus, we conclude that the gamma2257-297 region contains structural determinants required for coupling BZD binding to BZD potentiation of IGABA." ], "offsets": [ [ 0, 147 ] ] } ]
[ { "id": "1.0alpha7.train.1014.ent0_0", "type": "protein-region", "text": [ "gamma2257-297 region" ], "offsets": [ [ 27, 47 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1014.ent1_0", "type": "chemical", "text": [ "BZD" ], "offsets": [ [ 104, 107 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "49827292" } ] }, { "id": "1.0alpha7.train.1014.ent2_1", "type": "chemical", "text": [ "BZD" ], "offsets": [ [ 120, 123 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "49827292" } ] }, { "id": "1.0alpha7.train.1014.ent3_0", "type": "process", "text": [ "IGABA" ], "offsets": [ [ 141, 146 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1014.coref0", "entity_ids": [ "1.0alpha7.train.1014.ent0_0" ] }, { "id": "1.0alpha7.train.1014.coref1", "entity_ids": [ "1.0alpha7.train.1014.ent1_0", "1.0alpha7.train.1014.ent2_1" ] }, { "id": "1.0alpha7.train.1014.coref2", "entity_ids": [ "1.0alpha7.train.1014.ent3_0" ] } ]
[]
1.0alpha7.train.1015
19076160
[ { "id": "1.0alpha7.train.1015.sent", "type": "sentence", "text": [ "Canonical YY1 binding sites were found in several PREs, suggesting that Pho binds to all of these PREs." ], "offsets": [ [ 0, 107 ] ] } ]
[ { "id": "1.0alpha7.train.1015.ent0_0", "type": "protein", "text": [ "Pho" ], "offsets": [ [ 75, 78 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q8ST83" } ] }, { "id": "1.0alpha7.train.1015.ent1_0", "type": "protein", "text": [ "YY1" ], "offsets": [ [ 11, 14 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7528" }, { "db_name": "hgnc", "db_id": "YY1" }, { "db_name": "uniprot", "db_id": "P25490" } ] }, { "id": "1.0alpha7.train.1015.ent2_0", "type": "DNA", "text": [ "PREs" ], "offsets": [ [ 52, 56 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1015.ent3_1", "type": "DNA", "text": [ "PREs" ], "offsets": [ [ 102, 106 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1015.coref0", "entity_ids": [ "1.0alpha7.train.1015.ent0_0" ] }, { "id": "1.0alpha7.train.1015.coref1", "entity_ids": [ "1.0alpha7.train.1015.ent1_0" ] }, { "id": "1.0alpha7.train.1015.coref2", "entity_ids": [ "1.0alpha7.train.1015.ent2_0", "1.0alpha7.train.1015.ent3_1" ] } ]
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1.0alpha7.train.1016
16358557
[ { "id": "1.0alpha7.train.1016.sent", "type": "sentence", "text": [ "( B) Binding of JNK1 to GST and GST-JIP-1 (residues 127 to 281) was examined in the absence and presence of synthetic peptides (64 mug/ml)." ], "offsets": [ [ 0, 143 ] ] } ]
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[]
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[]
1.0alpha7.train.1017
3026671
[ { "id": "1.0alpha7.train.1017.sent", "type": "sentence", "text": [ "The function of the GUK domain, which lacks kinase activity in the MAGUK proteins analyzed so far, is not known but has been suggested to be important for binding of ZO-1 to occludin ( 5)." ], "offsets": [ [ 0, 192 ] ] } ]
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[]
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1.0alpha7.train.1018
16440596
[ { "id": "1.0alpha7.train.1018.sent", "type": "sentence", "text": [ "( C) Binding of Sp1 to the D2 promoter is inhibited in the caudate of the human HD postmortem brain." ], "offsets": [ [ 0, 103 ] ] } ]
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[]
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1.0alpha7.train.1019
1084341
[ { "id": "1.0alpha7.train.1019.sent", "type": "sentence", "text": [ "It is thought that binding of E1A to the p300/CBP inactivates the p300/CBP complex and represses the p300/CBP-responsive gene(s)." ], "offsets": [ [ 0, 133 ] ] } ]
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[]
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1.0alpha7.train.1020
4397495
[ { "id": "1.0alpha7.train.1020.sent", "type": "sentence", "text": [ "This observation demonstrates that Ubc9 binding to Mdm2 is under a dynamic regulation and affected by changes elicited upon stress and DNA damage, as shown here for UV irradiation." ], "offsets": [ [ 0, 182 ] ] } ]
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[]
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1.0alpha7.train.1021
4516495
[ { "id": "1.0alpha7.train.1021.sent", "type": "sentence", "text": [ "Evidence also was obtained for regions within PCNA, i.e. 47-86 and 150-223 aa, that compromised the binding of these PCNA domains to CR6 (Fig. 2)." ], "offsets": [ [ 0, 151 ] ] } ]
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[]
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1.0alpha7.train.1022
5992306
[ { "id": "1.0alpha7.train.1022.sent", "type": "sentence", "text": [ "Most flavin-containing proteins have a highly conserved motif located at the N terminus of the protein and involved in binding of the ADP moiety of FAD ( 35-37)." ], "offsets": [ [ 0, 163 ] ] } ]
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[]
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[]
1.0alpha7.train.1023
9783013
[ { "id": "1.0alpha7.train.1023.sent", "type": "sentence", "text": [ "Talin binds directly to actin (Muguruma et al., 1990 ), vinculin (Burridge and Mangeat, 1984 ), and beta integrins (Horwitz et al., 1986 ; Knezevic et al., 1996 )." ], "offsets": [ [ 0, 173 ] ] } ]
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[]
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1.0alpha7.train.1024
6974943
[ { "id": "1.0alpha7.train.1024.sent", "type": "sentence", "text": [ "Both forms of Axin bound to endogenous GSK-3beta in SW480 cells (Fig. 2)." ], "offsets": [ [ 0, 76 ] ] } ]
[ { "id": "1.0alpha7.train.1024.ent0_0", "type": "protein-family", "text": [ "Axin" ], "offsets": [ [ 15, 19 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR029797" } ] }, { "id": "1.0alpha7.train.1024.ent1_0", "type": "protein", "text": [ "GSK-3beta" ], "offsets": [ [ 41, 50 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2932" }, { "db_name": "hgnc", "db_id": "GSK3B" }, { "db_name": "uniprot", "db_id": "P49841" } ] }, { "id": "1.0alpha7.train.1024.ent2_0", "type": "cell", "text": [ "SW480 cells" ], "offsets": [ [ 54, 65 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1025
19576938
[ { "id": "1.0alpha7.train.1025.sent", "type": "sentence", "text": [ "The 21 mer is weakly bound by Sd (lane 8), while the Vg-Sd complex forms nearly as efficiently as on the longer templates." ], "offsets": [ [ 0, 125 ] ] } ]
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[]
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1.0alpha7.train.1026
1559195
[ { "id": "1.0alpha7.train.1026.sent", "type": "sentence", "text": [ "Endogenous JNK/SAPK Isoforms Bind to MEKK1 Peptides" ], "offsets": [ [ 0, 51 ] ] } ]
[ { "id": "1.0alpha7.train.1026.ent0_0", "type": "protein", "text": [ "JNK/SAPK" ], "offsets": [ [ 11, 19 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5599" }, { "db_name": "hgnc", "db_id": "MAPK8" }, { "db_name": "uniprot", "db_id": "P45983" } ] }, { "id": "1.0alpha7.train.1026.ent1_0", "type": "peptide", "text": [ "MEKK1 Peptides" ], "offsets": [ [ 37, 51 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1027
12722427
[ { "id": "1.0alpha7.train.1027.sent", "type": "sentence", "text": [ "This loss of binding of Cyclin A to Cdc2 in embryos is observed relatively soon after transfer of the mothers to the restrictive temperature (not shown) at a time when there is still a sizable amount of CAK activity in embryonic extracts." ], "offsets": [ [ 0, 241 ] ] } ]
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[]
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1.0alpha7.train.1028
9291137
[ { "id": "1.0alpha7.train.1028.sent", "type": "sentence", "text": [ "TFIIB is thought to bridge the binding of TBP to the RNA pol II complex; thus, this could be a potential key for interfering with activation." ], "offsets": [ [ 0, 143 ] ] } ]
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[]
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1.0alpha7.train.1029
18405813
[ { "id": "1.0alpha7.train.1029.sent", "type": "sentence", "text": [ "A bacterially expressed POP-1 fragment containing the HMG domain specifically binds the optimal Tcf target site, but not a sequence that lacks the core Tcf target motif ( Fig. 1a)." ], "offsets": [ [ 0, 183 ] ] } ]
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[]
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1.0alpha7.train.1030
20350544
[ { "id": "1.0alpha7.train.1030.sent", "type": "sentence", "text": [ "In addition, similar SF2/ASF mutant proteins lacking either RRM1 or RRM2 were still able to facilitate U1 snRNP binding to a pre-mRNA containing a functional 5' splice site ( 63)." ], "offsets": [ [ 0, 179 ] ] } ]
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[]
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1.0alpha7.train.1031
2143449
[ { "id": "1.0alpha7.train.1031.sent", "type": "sentence", "text": [ "GST alone did not bind calmodulin in the presence of Ca2+ or EGTA and neither GST-dUNC13 or any other fusion protein described below bound to agarose beads under any Ca2+ conditions (data not shown; Ref. 21)." ], "offsets": [ [ 0, 212 ] ] } ]
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[]
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1.0alpha7.train.1032
9826954
[ { "id": "1.0alpha7.train.1032.sent", "type": "sentence", "text": [ "They considered whether this result might be explained if both kinesin II and dynein bound to dynactin and thereby docked onto membranes." ], "offsets": [ [ 0, 140 ] ] } ]
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[]
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1.0alpha7.train.1033
12728704
[ { "id": "1.0alpha7.train.1033.sent", "type": "sentence", "text": [ "Deletion of the last 157 amino acids of Staufen, the region that binds Miranda, eliminates both the apical and basal cortical crescents." ], "offsets": [ [ 0, 138 ] ] } ]
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[]
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1.0alpha7.train.1034
12518164
[ { "id": "1.0alpha7.train.1034.sent", "type": "sentence", "text": [ "Because full-length Gli3 can bind to both CBP and Ski, there may exist a regulatory mechanism that determines the specificity of Gli3 binding to these factors, depending on the nature of the signal." ], "offsets": [ [ 0, 201 ] ] } ]
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[]
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1.0alpha7.train.1035
11270876
[ { "id": "1.0alpha7.train.1035.sent", "type": "sentence", "text": [ "Third, the preferential binding of AEF-1 to the proximal Inr further destabilizes interactions with the pre-initiation complex." ], "offsets": [ [ 0, 130 ] ] } ]
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[]
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1.0alpha7.train.1036
4360558
[ { "id": "1.0alpha7.train.1036.sent", "type": "sentence", "text": [ "PS1 is known to have multiple binding partners, including β-catenin (reviewed in Ref. 26). " ], "offsets": [ [ 0, 91 ] ] } ]
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[]
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1.0alpha7.train.1037
15820843
[ { "id": "1.0alpha7.train.1037.sent", "type": "sentence", "text": [ "In p300deltaSRC, there is a deletion of the C-terminal segment of p300 that binds to the SRC/ p160 family of coactivator proteins." ], "offsets": [ [ 0, 133 ] ] } ]
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[]
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1.0alpha7.train.1038
9490708
[ { "id": "1.0alpha7.train.1038.sent", "type": "sentence", "text": [ "TRP Binds Directly to INAD through the COOH Terminus" ], "offsets": [ [ 0, 52 ] ] } ]
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[]
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1.0alpha7.train.1039
9490708
[ { "id": "1.0alpha7.train.1039.sent", "type": "sentence", "text": [ "Most PDZ-containing proteins bind to their targets via a COOH-terminal sequence that conforms to an S/T-X-V/I motif or that consists of aromatic and/or hydrophobic residues (Kim et al. 1995; Kornau et al. 1995; Songyang et al. 1997; Daniels et al. 1998)." ], "offsets": [ [ 0, 254 ] ] } ]
[ { "id": "1.0alpha7.train.1039.ent0_0", "type": "protein-motif", "text": [ "S/T-X-V/I motif" ], "offsets": [ [ 100, 115 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1039.ent1_0", "type": "protein-domain", "text": [ "PDZ" ], "offsets": [ [ 5, 8 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001478" } ] } ]
[]
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[]
1.0alpha7.train.1040
2011984
[ { "id": "1.0alpha7.train.1040.sent", "type": "sentence", "text": [ "Therefore, the CPD are involved in the binding of HMG1 to the irradiated TT probe." ], "offsets": [ [ 0, 85 ] ] } ]
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[]
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[]
1.0alpha7.train.1041
9541791
[ { "id": "1.0alpha7.train.1041.sent", "type": "sentence", "text": [ "GSK-3 functions as part of a multiprotein complex in which Axin directly binds GSK-3, beta-catenin, and APC ( Hart et al. 1998 ; Ikeda et al. 1998 Itoh ; et al. 1998 ; Nakamura et al. 1998 ; Sakanaka et al. 1998 ; Yamamoto et al. " ], "offsets": [ [ 0, 255 ] ] } ]
[ { "id": "1.0alpha7.train.1041.ent0_0", "type": "protein-family", "text": [ "beta-catenin" ], "offsets": [ [ 89, 101 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR013284" } ] }, { "id": "1.0alpha7.train.1041.ent1_0", "type": "protein-family", "text": [ "Axin" ], "offsets": [ [ 60, 64 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR029797" } ] }, { "id": "1.0alpha7.train.1041.ent2_0", "type": "protein", "text": [ "GSK-3" ], "offsets": [ [ 0, 5 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2931" }, { "db_name": "hgnc", "db_id": "GSK3A" }, { "db_name": "uniprot", "db_id": "P49840" } ] }, { "id": "1.0alpha7.train.1041.ent3_1", "type": "protein", "text": [ "GSK-3" ], "offsets": [ [ 81, 86 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2931" }, { "db_name": "hgnc", "db_id": "GSK3A" }, { "db_name": "uniprot", "db_id": "P49840" } ] }, { "id": "1.0alpha7.train.1041.ent4_0", "type": "protein", "text": [ "APC" ], "offsets": [ [ 108, 111 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "324" }, { "db_name": "hgnc", "db_id": "APC" } ] } ]
[]
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1.0alpha7.train.1042
18252196
[ { "id": "1.0alpha7.train.1042.sent", "type": "sentence", "text": [ "In Saccharomyces cerevisiae, Hsf1 binds HSEs as a trimeric complex: constitutively to high-affinity sites (Gross et al., 1990) and inducibly to low-affinity sites (Giardina and Lis, 1995; Erkine et al., 1999)." ], "offsets": [ [ 0, 209 ] ] } ]
[ { "id": "1.0alpha7.train.1042.ent0_0", "type": "protein", "text": [ "Hsf1" ], "offsets": [ [ 29, 33 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3297" }, { "db_name": "hgnc", "db_id": "HSF1" }, { "db_name": "uniprot", "db_id": "Q00613" } ] }, { "id": "1.0alpha7.train.1042.ent1_0", "type": "DNA", "text": [ "HSEs" ], "offsets": [ [ 40, 44 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1043
2343642
[ { "id": "1.0alpha7.train.1043.sent", "type": "sentence", "text": [ "These experiments demonstrated that the fusion protein bound to PKC at a concentration as low as 0.1 mug/ml." ], "offsets": [ [ 0, 111 ] ] } ]
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[]
[ { "id": "1.0alpha7.train.1043.coref0", "entity_ids": [ "1.0alpha7.train.1043.ent0_0" ] } ]
[]
1.0alpha7.train.1044
9596728
[ { "id": "1.0alpha7.train.1044.sent", "type": "sentence", "text": [ "Inactivation of GSK-3 in dorsal cells appears to require the presence of a recently identified protein, GBP, that can bind and suppress GSK-3 activity in vivo ( Yost et al. 1998 )." ], "offsets": [ [ 0, 186 ] ] } ]
[ { "id": "1.0alpha7.train.1044.ent0_0", "type": "protein", "text": [ "GSK-3" ], "offsets": [ [ 17, 22 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2931" }, { "db_name": "hgnc", "db_id": "GSK3A" }, { "db_name": "uniprot", "db_id": "P49840" } ] }, { "id": "1.0alpha7.train.1044.ent1_1", "type": "protein", "text": [ "GSK-3" ], "offsets": [ [ 139, 144 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2931" }, { "db_name": "hgnc", "db_id": "GSK3A" }, { "db_name": "uniprot", "db_id": "P49840" } ] }, { "id": "1.0alpha7.train.1044.ent2_0", "type": "protein", "text": [ "GBP" ], "offsets": [ [ 106, 109 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2633" }, { "db_name": "hgnc", "db_id": "GBP1" }, { "db_name": "uniprot", "db_id": "P32455" } ] } ]
[]
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1.0alpha7.train.1045
6872727
[ { "id": "1.0alpha7.train.1045.sent", "type": "sentence", "text": [ "The amplified DNA was isolated, digested, and cloned into the T7 RNA polymerase-based ( 30) pCAL bacterial expression vector (Stratagene) as a translational fusion to the calmodulin binding peptide ( CBP)." ], "offsets": [ [ 0, 208 ] ] } ]
[ { "id": "1.0alpha7.train.1045.ent0_0", "type": "protein", "text": [ "T7 RNA polymerase" ], "offsets": [ [ 63, 80 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1045.ent1_0", "type": "experimental-construct", "text": [ "pCAL" ], "offsets": [ [ 94, 98 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1045.ent2_0", "type": "DNA", "text": [ "DNA" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "25782" }, { "db_name": "hgnc", "db_id": "RAB3GAP2" }, { "db_name": "uniprot", "db_id": "Q9H2M9" } ] }, { "id": "1.0alpha7.train.1045.ent3_0", "type": "peptide", "text": [ "CBP" ], "offsets": [ [ 203, 206 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1045.ent4_0", "type": "peptide", "text": [ "calmodulin binding peptide" ], "offsets": [ [ 174, 200 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1045.ent5_0", "type": "brand", "text": [ "Stratagene" ], "offsets": [ [ 128, 138 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1045.ent6_0", "type": "protein-family", "text": [ "calmodulin" ], "offsets": [ [ 174, 184 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR039030" } ] } ]
[]
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1.0alpha7.train.1046
24662101
[ { "id": "1.0alpha7.train.1046.sent", "type": "sentence", "text": [ "Consistent with the structural data, a Trp22 Ala mutation abolishes binding of SF1 to U2AF65-RRM3, whereas binding of a Trp22 Phe mutant is not affected (Figure 3D)." ], "offsets": [ [ 0, 169 ] ] } ]
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[]
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1.0alpha7.train.1047
1845509
[ { "id": "1.0alpha7.train.1047.sent", "type": "sentence", "text": [ "Binding of PR domain protein to RIZ1 and RIZ2 proteins." ], "offsets": [ [ 0, 58 ] ] } ]
[ { "id": "1.0alpha7.train.1047.ent0_0", "type": "protein", "text": [ "RIZ1" ], "offsets": [ [ 34, 38 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7799" }, { "db_name": "hgnc", "db_id": "PRDM2" }, { "db_name": "uniprot", "db_id": "Q13029" } ] }, { "id": "1.0alpha7.train.1047.ent1_0", "type": "protein", "text": [ "PR domain protein" ], "offsets": [ [ 12, 29 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "639" }, { "db_name": "hgnc", "db_id": "PRDM1" }, { "db_name": "uniprot", "db_id": "O75626" } ] }, { "id": "1.0alpha7.train.1047.ent2_0", "type": "protein", "text": [ "RIZ2" ], "offsets": [ [ 44, 48 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7799" }, { "db_name": "hgnc", "db_id": "PRDM2" }, { "db_name": "uniprot", "db_id": "Q13029" } ] } ]
[]
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1.0alpha7.train.1048
2723514
[ { "id": "1.0alpha7.train.1048.sent", "type": "sentence", "text": [ "V-ATPase binding to actin approaches saturation at 1 mol of V-ATPase per 8 mol of F-actin." ], "offsets": [ [ 0, 96 ] ] } ]
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[]
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1.0alpha7.train.1049
9607800
[ { "id": "1.0alpha7.train.1049.sent", "type": "sentence", "text": [ "Yeast two-hybrid liquid assays, affinity chromatography, and coimmunoprecipitation experiments confirm binding between PS2 and calmyrin." ], "offsets": [ [ 0, 139 ] ] } ]
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[]
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1.0alpha7.train.1050
11639630
[ { "id": "1.0alpha7.train.1050.sent", "type": "sentence", "text": [ "The studies with the ERalpha and p300 mutants in the acetylation assay emphasize the requirement for the simultaneous binding of SRC to both p300 and ERalpha for acetylation." ], "offsets": [ [ 0, 179 ] ] } ]
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[]
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1.0alpha7.train.1051
22694834
[ { "id": "1.0alpha7.train.1051.sent", "type": "sentence", "text": [ "TL directly binds to the CD8αα homodimer with a significantly stronger affinity than to the CD8αβ heterodimer (Kd ∼10 μM versus 100 μM), an affinity that surpasses that of MHCIa molecules to either the CD8αβ or CD8αα Leishman et al. 2001, Moody et al. 2001." ], "offsets": [ [ 0, 257 ] ] } ]
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[]
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1.0alpha7.train.1052
15861185
[ { "id": "1.0alpha7.train.1052.sent", "type": "sentence", "text": [ "For processing of both c- src and gamma amino-butyric acid type A receptor (GABAA) gamma2, PTB binds to pyrimidine tracts adjacent to the regulated exon necessary for exon exclusion in nonneuronal cells ( 3, 8)." ], "offsets": [ [ 0, 217 ] ] } ]
[ { "id": "1.0alpha7.train.1052.ent0_0", "type": "RNA", "text": [ "pyrimidine tracts" ], "offsets": [ [ 107, 124 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1052.ent1_0", "type": "protein", "text": [ "c- src" ], "offsets": [ [ 23, 30 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6714" }, { "db_name": "hgnc", "db_id": "SRC" }, { "db_name": "uniprot", "db_id": "P12931" } ] }, { "id": "1.0alpha7.train.1052.ent2_0", "type": "protein", "text": [ "PTB" ], "offsets": [ [ 94, 97 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5725" }, { "db_name": "hgnc", "db_id": "PTBP1" }, { "db_name": "uniprot", "db_id": "P26599" } ] }, { "id": "1.0alpha7.train.1052.ent3_0", "type": "chemical", "text": [ "gamma amino-butyric acid" ], "offsets": [ [ 36, 60 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "119" } ] }, { "id": "1.0alpha7.train.1052.ent4_0", "type": "chemical", "text": [ "GABAA" ], "offsets": [ [ 78, 83 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "119" } ] }, { "id": "1.0alpha7.train.1052.ent5_0", "type": "protein", "text": [ "gamma amino-butyric acid type A receptor (GABAA) gamma2" ], "offsets": [ [ 36, 91 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2566" }, { "db_name": "hgnc", "db_id": "GABRG2" }, { "db_name": "uniprot", "db_id": "P18507" } ] } ]
[]
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1.0alpha7.train.1053
4077338
[ { "id": "1.0alpha7.train.1053.sent", "type": "sentence", "text": [ "It is hypothesized that heparin binds to both PCI and APC during PCI-mediated inhibition of APC, thus guiding the encounter of these proteins via a template mechanism ( 9, 10)." ], "offsets": [ [ 0, 182 ] ] } ]
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[]
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1.0alpha7.train.1054
17536458
[ { "id": "1.0alpha7.train.1054.sent", "type": "sentence", "text": [ "We conclude from this data that Abeta decreased apoE-mediated binding to the cell surface by competition of Abeta with apoE-loaded betaVLDL rather than by displacement of apoE from betaVLDL or by direct binding of Abeta to apoE-containing betaVLDL." ], "offsets": [ [ 0, 255 ] ] } ]
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[]
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[]
1.0alpha7.train.1055
15164659
[ { "id": "1.0alpha7.train.1055.sent", "type": "sentence", "text": [ "To demonstrate that the alpha-UBF antibody used here can specifically recognize UBF bound to rDNA, we performed combined immunofluorescence and FISH analysis of metaphase chromosomes isolated from Xenopus cells (Fig. 2)." ], "offsets": [ [ 0, 226 ] ] } ]
[ { "id": "1.0alpha7.train.1055.ent0_0", "type": "reagent", "text": [ "alpha-UBF antibody" ], "offsets": [ [ 24, 42 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1055.ent1_0", "type": "protein", "text": [ "UBF" ], "offsets": [ [ 30, 33 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7343" }, { "db_name": "hgnc", "db_id": "UBTF" }, { "db_name": "uniprot", "db_id": "P17480" } ] }, { "id": "1.0alpha7.train.1055.ent2_1", "type": "protein", "text": [ "UBF" ], "offsets": [ [ 81, 84 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7343" }, { "db_name": "hgnc", "db_id": "UBTF" }, { "db_name": "uniprot", "db_id": "P17480" } ] }, { "id": "1.0alpha7.train.1055.ent3_0", "type": "DNA", "text": [ "rDNA" ], "offsets": [ [ 95, 99 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1055.ent4_0", "type": "assay", "text": [ "FISH" ], "offsets": [ [ 147, 151 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1056
17606221
[ { "id": "1.0alpha7.train.1056.sent", "type": "sentence", "text": [ "Transcription factors which bind to Sp1 and AP1 have been implicated in the transcriptional regulation of other genes involved in lipid metabolism including apoA-II (31), apoC-III (32), chicken vitellogenin II (34), fatty acid synthase (35–37), stearoyl-CoA desaturase 1 (38), the LDL receptor (39), and the LDL receptor related protein (LRP) (40)." ], "offsets": [ [ 0, 348 ] ] } ]
[ { "id": "1.0alpha7.train.1056.ent0_0", "type": "gene", "text": [ "apoC-III" ], "offsets": [ [ 171, 179 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "345" }, { "db_name": "hgnc", "db_id": "APOC3" } ] }, { "id": "1.0alpha7.train.1056.ent1_0", "type": "gene", "text": [ "fatty acid synthase" ], "offsets": [ [ 216, 235 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2194" }, { "db_name": "hgnc", "db_id": "FASN" } ] }, { "id": "1.0alpha7.train.1056.ent2_0", "type": "gene", "text": [ "apoA-II" ], "offsets": [ [ 157, 164 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "336" }, { "db_name": "hgnc", "db_id": "APOA2" } ] }, { "id": "1.0alpha7.train.1056.ent3_0", "type": "gene", "text": [ "Sp1" ], "offsets": [ [ 36, 39 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6667" }, { "db_name": "hgnc", "db_id": "SP1" } ] }, { "id": "1.0alpha7.train.1056.ent4_0", "type": "gene", "text": [ "AP1" ], "offsets": [ [ 44, 47 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1056.ent5_0", "type": "gene", "text": [ "stearoyl-CoA desaturase 1" ], "offsets": [ [ 245, 270 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6319" }, { "db_name": "hgnc", "db_id": "SCD" } ] }, { "id": "1.0alpha7.train.1056.ent6_0", "type": "gene", "text": [ "LDL receptor related protein" ], "offsets": [ [ 308, 336 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1056.ent7_0", "type": "gene", "text": [ "LRP" ], "offsets": [ [ 338, 341 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1056.ent8_0", "type": "gene", "text": [ "chicken vitellogenin II" ], "offsets": [ [ 186, 209 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1056.ent9_0", "type": "gene", "text": [ "LDL receptor" ], "offsets": [ [ 281, 293 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3949" }, { "db_name": "hgnc", "db_id": "LDLR" } ] }, { "id": "1.0alpha7.train.1056.ent10_1", "type": "gene", "text": [ "LDL receptor" ], "offsets": [ [ 308, 320 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3949" }, { "db_name": "hgnc", "db_id": "LDLR" } ] } ]
[]
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[]
1.0alpha7.train.1057
5135314
[ { "id": "1.0alpha7.train.1057.sent", "type": "sentence", "text": [ "Mutational Analysis of BAG4 Binding to Hsc70" ], "offsets": [ [ 0, 44 ] ] } ]
[ { "id": "1.0alpha7.train.1057.ent0_0", "type": "protein", "text": [ "Hsc70" ], "offsets": [ [ 39, 44 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3312" }, { "db_name": "hgnc", "db_id": "HSPA8" }, { "db_name": "uniprot", "db_id": "P11142" } ] }, { "id": "1.0alpha7.train.1057.ent1_0", "type": "protein", "text": [ "BAG4" ], "offsets": [ [ 23, 27 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "9530" }, { "db_name": "hgnc", "db_id": "BAG4" } ] } ]
[]
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1.0alpha7.train.1058
20466302
[ { "id": "1.0alpha7.train.1058.sent", "type": "sentence", "text": [ "GTP binding to RECQ5/QE is needed for stimulation of the helicase activity GTPgammaS neither supported the helicase reaction itself (Fig. 6, lane 12) nor induced the DNA helicase activity in the presence of GTP (Fig. 6, lane 9)." ], "offsets": [ [ 0, 237 ] ] } ]
[ { "id": "1.0alpha7.train.1058.ent0_0", "type": "chemical", "text": [ "GTP" ], "offsets": [ [ 0, 3 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "135398633" } ] }, { "id": "1.0alpha7.train.1058.ent1_1", "type": "chemical", "text": [ "GTP" ], "offsets": [ [ 215, 218 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "135398633" } ] }, { "id": "1.0alpha7.train.1058.ent2_0", "type": "protein", "text": [ "RECQ5/QE" ], "offsets": [ [ 16, 24 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "9400" }, { "db_name": "hgnc", "db_id": "RECQL5" }, { "db_name": "uniprot", "db_id": "O94762" } ] }, { "id": "1.0alpha7.train.1058.ent3_0", "type": "chemical", "text": [ "GTPgammaS" ], "offsets": [ [ 79, 88 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "135476260" } ] }, { "id": "1.0alpha7.train.1058.ent4_0", "type": "protein-family", "text": [ "DNA helicase" ], "offsets": [ [ 173, 185 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1059
24648756
[ { "id": "1.0alpha7.train.1059.sent", "type": "sentence", "text": [ "Binding of CUGBP2 to AU-Rich Sequences in 3′UTR of COX-2 mRNA Increases Luciferase mRNA Stability." ], "offsets": [ [ 0, 98 ] ] } ]
[ { "id": "1.0alpha7.train.1059.ent0_0", "type": "protein-family", "text": [ "Luciferase" ], "offsets": [ [ 72, 82 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1059.ent1_0", "type": "RNA", "text": [ "AU-Rich Sequences in 3′UTR of COX-2 mRNA" ], "offsets": [ [ 21, 61 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1059.ent2_0", "type": "gene", "text": [ "COX-2" ], "offsets": [ [ 51, 56 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5743" }, { "db_name": "hgnc", "db_id": "PTGS2" } ] }, { "id": "1.0alpha7.train.1059.ent3_0", "type": "RNA", "text": [ "3′UTR" ], "offsets": [ [ 42, 47 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1059.ent4_0", "type": "protein", "text": [ "CUGBP2" ], "offsets": [ [ 11, 17 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "10659" }, { "db_name": "hgnc", "db_id": "CELF2" }, { "db_name": "uniprot", "db_id": "O95319" } ] }, { "id": "1.0alpha7.train.1059.ent5_0", "type": "RNA", "text": [ "COX-2 mRNA" ], "offsets": [ [ 51, 61 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1059.ent6_0", "type": "RNA", "text": [ "Luciferase mRNA" ], "offsets": [ [ 72, 87 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1060
15475241
[ { "id": "1.0alpha7.train.1060.sent", "type": "sentence", "text": [ "In our efforts to clarify further the roles of Dvl in the Wnt signaling pathway, we isolated a novel protein which binds to the PDZ domain of Dvl by the yeast two-hybrid screening." ], "offsets": [ [ 0, 186 ] ] } ]
[ { "id": "1.0alpha7.train.1060.ent0_0", "type": "protein", "text": [ "Dvl" ], "offsets": [ [ 48, 51 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1855" }, { "db_name": "hgnc", "db_id": "DVL1" }, { "db_name": "uniprot", "db_id": "O14640" } ] }, { "id": "1.0alpha7.train.1060.ent1_1", "type": "protein", "text": [ "Dvl" ], "offsets": [ [ 147, 150 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1855" }, { "db_name": "hgnc", "db_id": "DVL1" }, { "db_name": "uniprot", "db_id": "O14640" } ] }, { "id": "1.0alpha7.train.1060.ent2_0", "type": "process", "text": [ "Wnt signaling pathway" ], "offsets": [ [ 60, 81 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1060.ent3_0", "type": "protein-domain", "text": [ "PDZ domain" ], "offsets": [ [ 132, 142 ] ], "normalized": [] } ]
[]
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[]
1.0alpha7.train.1061
17597506
[ { "id": "1.0alpha7.train.1061.sent", "type": "sentence", "text": [ "Studies have shown that LRP, gp330, and LR8B/apoER2 can bind similar cytosolic binding proteins, a result that may reflect potential redundancy for signaling ( 67)." ], "offsets": [ [ 0, 169 ] ] } ]
[ { "id": "1.0alpha7.train.1061.ent0_0", "type": "protein", "text": [ "gp330" ], "offsets": [ [ 31, 36 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4036" }, { "db_name": "hgnc", "db_id": "LRP2" }, { "db_name": "uniprot", "db_id": "P98164" } ] }, { "id": "1.0alpha7.train.1061.ent1_0", "type": "protein-family", "text": [ "LRP" ], "offsets": [ [ 25, 28 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1061.ent2_0", "type": "protein", "text": [ "LR8B" ], "offsets": [ [ 43, 47 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7804" }, { "db_name": "hgnc", "db_id": "LRP8" }, { "db_name": "uniprot", "db_id": "Q14114" } ] }, { "id": "1.0alpha7.train.1061.ent3_0", "type": "protein", "text": [ "apoER2" ], "offsets": [ [ 48, 54 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7804" }, { "db_name": "hgnc", "db_id": "LRP8" }, { "db_name": "uniprot", "db_id": "Q14114" } ] } ]
[]
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[]
1.0alpha7.train.1062
9700786
[ { "id": "1.0alpha7.train.1062.sent", "type": "sentence", "text": [ "If neuroglian were phosphorylated on tyrosine residues in S2 cells, and phosphorylation was responsible for the lack of ankyrin binding to neuroglian at noncontact sites of aggregated S2 cells, then the mutation of tyrosine residue 1234 in Drosophila neuroglian would be expected to cause ankyrin binding indiscriminately at all regions of the plasma membrane." ], "offsets": [ [ 0, 360 ] ] } ]
[ { "id": "1.0alpha7.train.1062.ent0_0", "type": "protein", "text": [ "neuroglian" ], "offsets": [ [ 3, 13 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P20241" } ] }, { "id": "1.0alpha7.train.1062.ent1_1", "type": "protein", "text": [ "neuroglian" ], "offsets": [ [ 139, 149 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P20241" } ] }, { "id": "1.0alpha7.train.1062.ent2_2", "type": "protein", "text": [ "neuroglian" ], "offsets": [ [ 251, 261 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P20241" } ] }, { "id": "1.0alpha7.train.1062.ent3_0", "type": "protein-family", "text": [ "ankyrin" ], "offsets": [ [ 120, 127 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR036770" } ] }, { "id": "1.0alpha7.train.1062.ent4_1", "type": "protein-family", "text": [ "ankyrin" ], "offsets": [ [ 289, 296 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR036770" } ] }, { "id": "1.0alpha7.train.1062.ent5_0", "type": "cell", "text": [ "S2 cells" ], "offsets": [ [ 58, 66 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1062.ent6_1", "type": "cell", "text": [ "S2 cells" ], "offsets": [ [ 184, 192 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1062.ent7_0", "type": "amino-acid", "text": [ "tyrosine" ], "offsets": [ [ 37, 45 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "6057" } ] }, { "id": "1.0alpha7.train.1062.ent8_1", "type": "amino-acid", "text": [ "tyrosine" ], "offsets": [ [ 215, 223 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "6057" } ] } ]
[]
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1.0alpha7.train.1063
15771492
[ { "id": "1.0alpha7.train.1063.sent", "type": "sentence", "text": [ "We interpreted these data to reflect the existence of a ternary protein complex in which MEIS1 binds to a PBX-HOXA9 dimer bound to DNA." ], "offsets": [ [ 0, 137 ] ] } ]
[ { "id": "1.0alpha7.train.1063.ent0_0", "type": "protein-complex", "text": [ "PBX-HOXA9" ], "offsets": [ [ 108, 117 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1063.ent1_0", "type": "DNA", "text": [ "DNA" ], "offsets": [ [ 133, 136 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "25782" }, { "db_name": "hgnc", "db_id": "RAB3GAP2" }, { "db_name": "uniprot", "db_id": "Q9H2M9" } ] }, { "id": "1.0alpha7.train.1063.ent2_0", "type": "protein-family", "text": [ "PBX" ], "offsets": [ [ 108, 111 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR005542" } ] }, { "id": "1.0alpha7.train.1063.ent3_0", "type": "protein", "text": [ "MEIS1" ], "offsets": [ [ 90, 95 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4211" }, { "db_name": "hgnc", "db_id": "MEIS1" }, { "db_name": "uniprot", "db_id": "U3KPR8" } ] }, { "id": "1.0alpha7.train.1063.ent4_0", "type": "protein", "text": [ "HOXA9" ], "offsets": [ [ 112, 117 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3205" }, { "db_name": "hgnc", "db_id": "HOXA9" }, { "db_name": "uniprot", "db_id": "P31269" } ] } ]
[]
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1.0alpha7.train.1064
1731626
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[]
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[]
1.0alpha7.train.1065
1015113
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[]
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1.0alpha7.train.1066
19761906
[ { "id": "1.0alpha7.train.1066.sent", "type": "sentence", "text": [ "Direct binding of Dlt with Par-6" ], "offsets": [ [ 0, 32 ] ] } ]
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[]
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1.0alpha7.train.1067
25318880
[ { "id": "1.0alpha7.train.1067.sent", "type": "sentence", "text": [ "A different region of PlexB binds to RhoA." ], "offsets": [ [ 0, 44 ] ] } ]
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[]
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1.0alpha7.train.1068
7556670
[ { "id": "1.0alpha7.train.1068.sent", "type": "sentence", "text": [ "Initial studies of ORC found that stable DNA binding by ORC required the addition of ATP to the binding reaction." ], "offsets": [ [ 0, 116 ] ] } ]
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[]
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1.0alpha7.train.1069
18006046
[ { "id": "1.0alpha7.train.1069.sent", "type": "sentence", "text": [ "The motility studies show that this interaction is functionally important and indicate that binding of type VI collagen to NG2 triggers signaling mechanisms that lead to enhanced cell migration." ], "offsets": [ [ 0, 196 ] ] } ]
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[]
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1.0alpha7.train.1070
659310
[ { "id": "1.0alpha7.train.1070.sent", "type": "sentence", "text": [ "First, the actin binding affinity of fascin is not affected by the pH range from 7.5 to 6.0." ], "offsets": [ [ 0, 95 ] ] } ]
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[]
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1.0alpha7.train.1071
22867037
[ { "id": "1.0alpha7.train.1071.sent", "type": "sentence", "text": [ "Rather, it indicates that the MT binding of dynactin is stimulated by a factor found in brain that is lacking in axons; presumably this factor is located either in cell bodies or synapses." ], "offsets": [ [ 0, 190 ] ] } ]
[ { "id": "1.0alpha7.train.1071.ent0_0", "type": "organelle", "text": [ "MT" ], "offsets": [ [ 31, 33 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1071.ent1_0", "type": "protein-complex", "text": [ "dynactin" ], "offsets": [ [ 46, 54 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1072
9541686
[ { "id": "1.0alpha7.train.1072.sent", "type": "sentence", "text": [ "However, studies in a mammalian system have shown that kinase dead GSK-3 does not bind Axin ( Ikeda et al. 1998 ), indicating that the kinase dead dnXgsk-3 might stabilize beta-catenin by an alternative mechanism." ], "offsets": [ [ 0, 217 ] ] } ]
[ { "id": "1.0alpha7.train.1072.ent0_0", "type": "protein-family", "text": [ "beta-catenin" ], "offsets": [ [ 176, 188 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR013284" } ] }, { "id": "1.0alpha7.train.1072.ent1_0", "type": "protein", "text": [ "Axin" ], "offsets": [ [ 88, 92 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "8312" }, { "db_name": "hgnc", "db_id": "AXIN1" }, { "db_name": "uniprot", "db_id": "O15169" } ] }, { "id": "1.0alpha7.train.1072.ent2_0", "type": "protein", "text": [ "kinase dead GSK-3" ], "offsets": [ [ 55, 72 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1072.ent3_0", "type": "protein", "text": [ "GSK-3" ], "offsets": [ [ 67, 72 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2931" }, { "db_name": "hgnc", "db_id": "GSK3A" }, { "db_name": "uniprot", "db_id": "P49840" } ] }, { "id": "1.0alpha7.train.1072.ent4_0", "type": "protein", "text": [ "kinase dead dnXgsk-3" ], "offsets": [ [ 138, 158 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1073
9541562
[ { "id": "1.0alpha7.train.1073.sent", "type": "sentence", "text": [ "To demonstrate that the reduction in the amount of Axin bound to Xgsk-3 is specifically dependent on GBP binding to Xgsk-3, the coimmunoprecipitation experiment was repeated using a high dose of HA-tagged GBP (GBPwt) or an equivalent amount of the HA-tagged GBP mutant that does not bind Xgsk-3 (Yost et al. 1998) (GBPmut)." ], "offsets": [ [ 0, 323 ] ] } ]
[ { "id": "1.0alpha7.train.1073.ent0_0", "type": "protein", "text": [ "Axin" ], "offsets": [ [ 51, 55 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "8312" }, { "db_name": "hgnc", "db_id": "AXIN1" }, { "db_name": "uniprot", "db_id": "O15169" } ] }, { "id": "1.0alpha7.train.1073.ent1_0", "type": "fusion-protein", "text": [ "GBPwt" ], "offsets": [ [ 210, 215 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1073.ent2_0", "type": "fusion-protein", "text": [ "HA-tagged GBP" ], "offsets": [ [ 195, 208 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1073.ent3_1", "type": "fusion-protein", "text": [ "HA-tagged GBP" ], "offsets": [ [ 248, 261 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1073.ent4_0", "type": "protein", "text": [ "Xgsk-3" ], "offsets": [ [ 65, 71 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q91757" } ] }, { "id": "1.0alpha7.train.1073.ent5_1", "type": "protein", "text": [ "Xgsk-3" ], "offsets": [ [ 116, 122 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q91757" } ] }, { "id": "1.0alpha7.train.1073.ent6_2", "type": "protein", "text": [ "Xgsk-3" ], "offsets": [ [ 288, 294 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q91757" } ] }, { "id": "1.0alpha7.train.1073.ent7_0", "type": "fusion-protein", "text": [ "GBPmut" ], "offsets": [ [ 315, 321 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1073.ent8_0", "type": "fusion-protein", "text": [ "HA-tagged GBP mutant" ], "offsets": [ [ 248, 268 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1073.ent9_0", "type": "protein-family", "text": [ "GBP" ], "offsets": [ [ 101, 104 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR015894" } ] }, { "id": "1.0alpha7.train.1073.ent10_1", "type": "protein-family", "text": [ "GBP" ], "offsets": [ [ 205, 208 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR015894" } ] }, { "id": "1.0alpha7.train.1073.ent11_2", "type": "protein-family", "text": [ "GBP" ], "offsets": [ [ 258, 261 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR015894" } ] } ]
[]
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1.0alpha7.train.1074
4052795
[ { "id": "1.0alpha7.train.1074.sent", "type": "sentence", "text": [ "The cytoplasmic tail of E-cadherin is bound directly to beta-catenin or plakoglobin, and thereby to alpha-catenin and actin (reviewed in Ref. 2)." ], "offsets": [ [ 0, 151 ] ] } ]
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[]
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1.0alpha7.train.1075
5708225
[ { "id": "1.0alpha7.train.1075.sent", "type": "sentence", "text": [ "The new results also indicate that the IAP binding motif of Omi/HtrA2 is important for efficient cleavage of IAPs at distinct sites and for disruption of the association between caspases and the IAP fragments." ], "offsets": [ [ 0, 209 ] ] } ]
[ { "id": "1.0alpha7.train.1075.ent0_0", "type": "protein-family", "text": [ "caspases" ], "offsets": [ [ 178, 186 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR002398" } ] }, { "id": "1.0alpha7.train.1075.ent1_0", "type": "protein-family", "text": [ "IAPs" ], "offsets": [ [ 109, 113 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1075.ent2_0", "type": "protein-motif", "text": [ "IAP binding motif" ], "offsets": [ [ 39, 56 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1075.ent3_0", "type": "protein", "text": [ "Omi/HtrA2" ], "offsets": [ [ 60, 69 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "27429" }, { "db_name": "hgnc", "db_id": "HTRA2" }, { "db_name": "uniprot", "db_id": "O43464" } ] }, { "id": "1.0alpha7.train.1075.ent4_0", "type": "protein-family", "text": [ "IAP" ], "offsets": [ [ 39, 42 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1075.ent5_1", "type": "protein-family", "text": [ "IAP" ], "offsets": [ [ 195, 198 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1075.coref0", "entity_ids": [ "1.0alpha7.train.1075.ent0_0" ] }, { "id": "1.0alpha7.train.1075.coref1", "entity_ids": [ "1.0alpha7.train.1075.ent1_0" ] }, { "id": "1.0alpha7.train.1075.coref2", "entity_ids": [ "1.0alpha7.train.1075.ent2_0" ] }, { "id": "1.0alpha7.train.1075.coref3", "entity_ids": [ "1.0alpha7.train.1075.ent3_0" ] }, { "id": "1.0alpha7.train.1075.coref4", "entity_ids": [ "1.0alpha7.train.1075.ent4_0", "1.0alpha7.train.1075.ent5_1" ] } ]
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1.0alpha7.train.1076
9260253
[ { "id": "1.0alpha7.train.1076.sent", "type": "sentence", "text": [ "SRF bound to GST-Hop (lane 2) but not to GST alone (lane 1)." ], "offsets": [ [ 0, 62 ] ] } ]
[ { "id": "1.0alpha7.train.1076.ent0_0", "type": "protein", "text": [ "SRF" ], "offsets": [ [ 0, 3 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6722" }, { "db_name": "hgnc", "db_id": "SRF" }, { "db_name": "uniprot", "db_id": "P11831" } ] }, { "id": "1.0alpha7.train.1076.ent1_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "intenz", "db_id": "2.5.1.18" } ] }, { "id": "1.0alpha7.train.1076.ent2_1", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 43, 46 ] ], "normalized": [ { "db_name": "intenz", "db_id": "2.5.1.18" } ] }, { "id": "1.0alpha7.train.1076.ent3_0", "type": "protein", "text": [ "Hop" ], "offsets": [ [ 18, 21 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1076.ent4_0", "type": "experimental-construct", "text": [ "GST-Hop" ], "offsets": [ [ 14, 21 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1076.coref0", "entity_ids": [ "1.0alpha7.train.1076.ent0_0" ] }, { "id": "1.0alpha7.train.1076.coref1", "entity_ids": [ "1.0alpha7.train.1076.ent1_0", "1.0alpha7.train.1076.ent2_1" ] }, { "id": "1.0alpha7.train.1076.coref2", "entity_ids": [ "1.0alpha7.train.1076.ent3_0" ] }, { "id": "1.0alpha7.train.1076.coref3", "entity_ids": [ "1.0alpha7.train.1076.ent4_0" ] } ]
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1.0alpha7.train.1077
8906698
[ { "id": "1.0alpha7.train.1077.sent", "type": "sentence", "text": [ "Swinholide A sequesters G-actin as dimers and can sever F-actin (10, 24, 37); cytochalasin D induces dimerization of G-actin, promotes ATP hydrolysis, and caps filament barbed ends (see Sampath and Pollard 1991); and binding of profilin to actin promotes nucleotide exchange (Schluter et al. 1997)." ], "offsets": [ [ 0, 298 ] ] } ]
[ { "id": "1.0alpha7.train.1077.ent0_0", "type": "chemical", "text": [ "cytochalasin D" ], "offsets": [ [ 78, 92 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5458428" } ] }, { "id": "1.0alpha7.train.1077.ent1_0", "type": "protein-family", "text": [ "profilin" ], "offsets": [ [ 228, 236 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR005455" } ] }, { "id": "1.0alpha7.train.1077.ent2_0", "type": "chemical", "text": [ "Swinholide A" ], "offsets": [ [ 0, 12 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "131864043" } ] }, { "id": "1.0alpha7.train.1077.ent3_0", "type": "protein", "text": [ "F-actin" ], "offsets": [ [ 56, 63 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1077.ent4_0", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 26, 31 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1077.ent5_1", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 58, 63 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1077.ent6_2", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 119, 124 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1077.ent7_3", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 240, 245 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1077.ent8_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 135, 138 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1077.ent9_0", "type": "protein", "text": [ "G-actin" ], "offsets": [ [ 24, 31 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1077.ent10_1", "type": "protein", "text": [ "G-actin" ], "offsets": [ [ 117, 124 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1078
6756703
[ { "id": "1.0alpha7.train.1078.sent", "type": "sentence", "text": [ "Previous models ( 6, 8) assumed that any interaction between Snf and Sxl occurred with Snf acting as part of U1 or U2 snRNPs and that this interaction was preceded by Sxl binding to pre-mRNA between exons 3 and 4 to block the male splice." ], "offsets": [ [ 0, 246 ] ] } ]
[ { "id": "1.0alpha7.train.1078.ent0_0", "type": "protein-family", "text": [ "Snf" ], "offsets": [ [ 63, 66 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000330" } ] }, { "id": "1.0alpha7.train.1078.ent1_1", "type": "protein-family", "text": [ "Snf" ], "offsets": [ [ 91, 94 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000330" } ] }, { "id": "1.0alpha7.train.1078.ent2_0", "type": "protein-RNA-complex", "text": [ "U1" ], "offsets": [ [ 114, 116 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1078.ent3_0", "type": "protein", "text": [ "Sxl" ], "offsets": [ [ 72, 75 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P19339" } ] }, { "id": "1.0alpha7.train.1078.ent4_1", "type": "protein", "text": [ "Sxl" ], "offsets": [ [ 174, 177 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P19339" } ] }, { "id": "1.0alpha7.train.1078.ent5_0", "type": "RNA", "text": [ "pre-mRNA" ], "offsets": [ [ 190, 198 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1078.ent6_0", "type": "protein-RNA-complex", "text": [ "U2 snRNPs" ], "offsets": [ [ 121, 130 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1079
15768194
[ { "id": "1.0alpha7.train.1079.sent", "type": "sentence", "text": [ "GST-TFE3 retained full-length Ets-1 (labeled 1-440) and the first two deletion mutants but not the smallest Ets-1 derivative (delta286) which bound to the GST-containing column as well (Fig. 8A)." ], "offsets": [ [ 0, 199 ] ] } ]
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[]
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1.0alpha7.train.1080
11402153
[ { "id": "1.0alpha7.train.1080.sent", "type": "sentence", "text": [ "The role of NIK binding to Nck in NIK regulation and NIK activation of the JNK/ SAPK pathway is most intriguing." ], "offsets": [ [ 0, 117 ] ] } ]
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[]
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1.0alpha7.train.1081
2381462
[ { "id": "1.0alpha7.train.1081.sent", "type": "sentence", "text": [ "However, the interaction between the mutated CtIP and GST-BRCT was unaffected (Fig. 4 A, compare lanes 3 and 7), suggesting that CtIP binds to CtBP and the BRCT repeats of BRCA1 using different motifs." ], "offsets": [ [ 0, 209 ] ] } ]
[ { "id": "1.0alpha7.train.1081.ent0_0", "type": "protein", "text": [ "BRCA1" ], "offsets": [ [ 180, 185 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "672" }, { "db_name": "hgnc", "db_id": "BRCA1" } ] }, { "id": "1.0alpha7.train.1081.ent1_0", "type": "protein-domain", "text": [ "BRCT repeats" ], "offsets": [ [ 163, 175 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001357" } ] }, { "id": "1.0alpha7.train.1081.ent2_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 55, 58 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1081.ent3_0", "type": "protein", "text": [ "CtBP" ], "offsets": [ [ 149, 153 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1487" }, { "db_name": "hgnc", "db_id": "CTBP1" }, { "db_name": "uniprot", "db_id": "Q13363" } ] }, { "id": "1.0alpha7.train.1081.ent4_0", "type": "protein-family", "text": [ "BRCT" ], "offsets": [ [ 59, 63 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR036420" } ] }, { "id": "1.0alpha7.train.1081.ent5_1", "type": "protein-family", "text": [ "BRCT" ], "offsets": [ [ 163, 167 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR036420" } ] }, { "id": "1.0alpha7.train.1081.ent6_0", "type": "protein", "text": [ "CtIP" ], "offsets": [ [ 45, 49 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5932" }, { "db_name": "hgnc", "db_id": "RBBP8" }, { "db_name": "uniprot", "db_id": "Q99708" } ] }, { "id": "1.0alpha7.train.1081.ent7_1", "type": "protein", "text": [ "CtIP" ], "offsets": [ [ 134, 138 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5932" }, { "db_name": "hgnc", "db_id": "RBBP8" }, { "db_name": "uniprot", "db_id": "Q99708" } ] }, { "id": "1.0alpha7.train.1081.ent8_0", "type": "protein", "text": [ "mutated CtIP" ], "offsets": [ [ 37, 49 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1081.ent9_0", "type": "experimental-construct", "text": [ "GST-BRCT" ], "offsets": [ [ 55, 63 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1082
19558778
[ { "id": "1.0alpha7.train.1082.sent", "type": "sentence", "text": [ "Recent work has shown that Hth binding allows nuclear transport of Exd by simultaneously inhibiting its nuclear export signal (NES) while activating its NLS ( Abu-Shaar et al., 1999; Berthelsen et al., 1999)." ], "offsets": [ [ 0, 213 ] ] } ]
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[]
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[ { "id": "1.0alpha7.train.1082.rel0s1.0alpha7.train.1082.ent0_0.o1.0alpha7.train.1082.ent4_0", "type": "bind", "arg1_id": "1.0alpha7.train.1082.ent0_0", "arg2_id": "1.0alpha7.train.1082.ent4_0", "normalized": [] } ]
1.0alpha7.train.1083
19576956
[ { "id": "1.0alpha7.train.1083.sent", "type": "sentence", "text": [ "Neither the Vg-Sd complex nor Sd alone bound to the shorter 18 mer." ], "offsets": [ [ 0, 70 ] ] } ]
[ { "id": "1.0alpha7.train.1083.ent0_0", "type": "protein", "text": [ "Vg" ], "offsets": [ [ 13, 15 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1083.ent1_0", "type": "protein-complex", "text": [ "Vg-Sd complex" ], "offsets": [ [ 13, 26 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1083.ent2_0", "type": "protein", "text": [ "Sd" ], "offsets": [ [ 16, 18 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "26503" }, { "db_name": "hgnc", "db_id": "SLC17A5" }, { "db_name": "uniprot", "db_id": "Q9NRA2" } ] }, { "id": "1.0alpha7.train.1083.ent3_1", "type": "protein", "text": [ "Sd" ], "offsets": [ [ 32, 34 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "26503" }, { "db_name": "hgnc", "db_id": "SLC17A5" }, { "db_name": "uniprot", "db_id": "Q9NRA2" } ] } ]
[]
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[ { "id": "1.0alpha7.train.1083.rel0s1.0alpha7.train.1083.ent0_0.o1.0alpha7.train.1083.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1083.ent0_0", "arg2_id": "1.0alpha7.train.1083.ent2_0", "normalized": [] }, { "id": "1.0alpha7.train.1083.rel0s1.0alpha7.train.1083.ent0_0.o1.0alpha7.train.1083.ent3_1", "type": "bind", "arg1_id": "1.0alpha7.train.1083.ent0_0", "arg2_id": "1.0alpha7.train.1083.ent3_1", "normalized": [] } ]
1.0alpha7.train.1084
19535186
[ { "id": "1.0alpha7.train.1084.sent", "type": "sentence", "text": [ "Using purified glutathione S-transferase (GST)-fused wild-type (WT) Aurora B, GST-fused kinase-defective (KD) mutant of Aurora B, or GST alone against purified maltose binding protein (MBP)-fused MgcRacGAP, GST pull-down assays were performed in buffer A (25 mM Tris [pH 7.5], 2 mM MgCl2, 200 μM ATP, 0.1 μM calyculin A, 1% Nonidet P-40)." ], "offsets": [ [ 0, 338 ] ] } ]
[ { "id": "1.0alpha7.train.1084.ent0_0", "type": "assay", "text": [ "GST pull-down" ], "offsets": [ [ 207, 220 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent1_0", "type": "reagent", "text": [ "Nonidet P-40" ], "offsets": [ [ 324, 336 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent2_0", "type": "protein", "text": [ "kinase-defective (KD) mutant of Aurora B" ], "offsets": [ [ 88, 128 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent3_0", "type": "experimental-construct", "text": [ "GST-fused kinase-defective (KD) mutant of Aurora B" ], "offsets": [ [ 78, 128 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent4_0", "type": "protein", "text": [ "Aurora B" ], "offsets": [ [ 68, 76 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "9212" }, { "db_name": "hgnc", "db_id": "AURKB" }, { "db_name": "uniprot", "db_id": "Q96GD4" } ] }, { "id": "1.0alpha7.train.1084.ent5_1", "type": "protein", "text": [ "Aurora B" ], "offsets": [ [ 120, 128 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "9212" }, { "db_name": "hgnc", "db_id": "AURKB" }, { "db_name": "uniprot", "db_id": "Q96GD4" } ] }, { "id": "1.0alpha7.train.1084.ent6_0", "type": "protein", "text": [ "MgcRacGAP" ], "offsets": [ [ 196, 205 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "29127" }, { "db_name": "hgnc", "db_id": "RACGAP1" }, { "db_name": "uniprot", "db_id": "Q9H0H5" } ] }, { "id": "1.0alpha7.train.1084.ent7_0", "type": "protein", "text": [ "MBP" ], "offsets": [ [ 185, 188 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4153" }, { "db_name": "hgnc", "db_id": "MBL2" }, { "db_name": "uniprot", "db_id": "P11226" } ] }, { "id": "1.0alpha7.train.1084.ent8_0", "type": "protein", "text": [ "maltose binding protein" ], "offsets": [ [ 160, 183 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4153" }, { "db_name": "hgnc", "db_id": "MBL2" }, { "db_name": "uniprot", "db_id": "P11226" } ] }, { "id": "1.0alpha7.train.1084.ent9_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 42, 45 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent10_1", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 78, 81 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent11_2", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 133, 136 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent12_3", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 207, 210 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent13_0", "type": "experiment-tag", "text": [ "glutathione S-transferase" ], "offsets": [ [ 15, 40 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent14_0", "type": "chemical", "text": [ "calyculin A" ], "offsets": [ [ 308, 319 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5311365" } ] }, { "id": "1.0alpha7.train.1084.ent15_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 296, 299 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1084.ent16_0", "type": "experimental-construct", "text": [ "maltose binding protein (MBP)-fused MgcRacGAP" ], "offsets": [ [ 160, 205 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent17_0", "type": "reagent", "text": [ "Tris" ], "offsets": [ [ 262, 266 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1084.ent18_0", "type": "experimental-construct", "text": [ "glutathione S-transferase (GST)-fused wild-type (WT) Aurora B" ], "offsets": [ [ 15, 76 ] ], "normalized": [] } ]
[]
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[]
1.0alpha7.train.1085
4330349
[ { "id": "1.0alpha7.train.1085.sent", "type": "sentence", "text": [ "Our results suggest that ATP-BD binds AMP and ATP at two separate sites (see above)." ], "offsets": [ [ 0, 86 ] ] } ]
[ { "id": "1.0alpha7.train.1085.ent0_0", "type": "chemical", "text": [ "AMP" ], "offsets": [ [ 39, 42 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "6083" } ] }, { "id": "1.0alpha7.train.1085.ent1_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 26, 29 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1085.ent2_1", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 48, 51 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1085.ent3_0", "type": "protein-domain", "text": [ "ATP-BD" ], "offsets": [ [ 26, 32 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1085.coref0", "entity_ids": [ "1.0alpha7.train.1085.ent0_0" ] }, { "id": "1.0alpha7.train.1085.coref1", "entity_ids": [ "1.0alpha7.train.1085.ent1_0", "1.0alpha7.train.1085.ent2_1" ] }, { "id": "1.0alpha7.train.1085.coref2", "entity_ids": [ "1.0alpha7.train.1085.ent3_0" ] } ]
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1.0alpha7.train.1086
9047217
[ { "id": "1.0alpha7.train.1086.sent", "type": "sentence", "text": [ "The apparent lack of stoichiometric binding of ORC to ATP may be attributable to several factors." ], "offsets": [ [ 0, 100 ] ] } ]
[ { "id": "1.0alpha7.train.1086.ent0_0", "type": "protein-complex", "text": [ "ORC" ], "offsets": [ [ 48, 51 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1086.ent1_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 57, 60 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] } ]
[]
[ { "id": "1.0alpha7.train.1086.coref0", "entity_ids": [ "1.0alpha7.train.1086.ent0_0" ] }, { "id": "1.0alpha7.train.1086.coref1", "entity_ids": [ "1.0alpha7.train.1086.ent1_0" ] } ]
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1.0alpha7.train.1087
11389367
[ { "id": "1.0alpha7.train.1087.sent", "type": "sentence", "text": [ "Previous studies have indicated that Ras binding localizes Raf-1 to the plasma membrane where it becomes activated and that artificially targeting Raf-1 to the plasma membrane results in constitutive activation of the kinase (Leevers et al., 1994; Stokoe et al., 1994). " ], "offsets": [ [ 0, 270 ] ] } ]
[ { "id": "1.0alpha7.train.1087.ent0_0", "type": "protein", "text": [ "Raf-1" ], "offsets": [ [ 59, 64 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5894" }, { "db_name": "hgnc", "db_id": "RAF1" }, { "db_name": "uniprot", "db_id": "P04049" } ] }, { "id": "1.0alpha7.train.1087.ent1_1", "type": "protein", "text": [ "Raf-1" ], "offsets": [ [ 147, 152 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5894" }, { "db_name": "hgnc", "db_id": "RAF1" }, { "db_name": "uniprot", "db_id": "P04049" } ] }, { "id": "1.0alpha7.train.1087.ent2_0", "type": "protein-family", "text": [ "Ras" ], "offsets": [ [ 37, 40 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR020849" } ] } ]
[]
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1.0alpha7.train.1088
7249808
[ { "id": "1.0alpha7.train.1088.sent", "type": "sentence", "text": [ "In comparing DNA binding of Dm and MGTs, it should be noted that the substitution of the amino-terminal formyl and the carboxyl-terminal amidine groups of Dm by acetamido and -CH2CH2N+H(CH3)2 groups, respectively, yields compound 2 along with a three-order of magnitude decrease in binding affinity (K1K2) compared with Dm." ], "offsets": [ [ 0, 323 ] ] } ]
[ { "id": "1.0alpha7.train.1088.ent0_0", "type": "drug", "text": [ "Dm" ], "offsets": [ [ 28, 30 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1088.ent1_1", "type": "drug", "text": [ "Dm" ], "offsets": [ [ 155, 157 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1088.ent2_2", "type": "drug", "text": [ "Dm" ], "offsets": [ [ 320, 322 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1088.ent3_0", "type": "DNA", "text": [ "DNA" ], "offsets": [ [ 13, 16 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "25782" }, { "db_name": "hgnc", "db_id": "RAB3GAP2" }, { "db_name": "uniprot", "db_id": "Q9H2M9" } ] }, { "id": "1.0alpha7.train.1088.ent4_0", "type": "drug", "text": [ "MGTs" ], "offsets": [ [ 35, 39 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1088.ent5_0", "type": "chemical", "text": [ "-CH2CH2N+H(CH3)2" ], "offsets": [ [ 175, 191 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1089
15373301
[ { "id": "1.0alpha7.train.1089.sent", "type": "sentence", "text": [ "It has been shown that the interaction between U2AF35 and the 3' splice site AG can stabilize U2AF65 binding to weak Py tracts characteristic of so-called AG-dependent pre-mRNAs." ], "offsets": [ [ 0, 183 ] ] } ]
[ { "id": "1.0alpha7.train.1089.ent0_0", "type": "RNA", "text": [ "3' splice site AG" ], "offsets": [ [ 64, 81 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1089.ent1_0", "type": "RNA", "text": [ "AG-dependent pre-mRNAs" ], "offsets": [ [ 160, 182 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1089.ent2_0", "type": "protein", "text": [ "U2AF65" ], "offsets": [ [ 97, 103 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "11338" }, { "db_name": "hgnc", "db_id": "U2AF2" }, { "db_name": "uniprot", "db_id": "P26368" } ] }, { "id": "1.0alpha7.train.1089.ent3_0", "type": "protein", "text": [ "U2AF35" ], "offsets": [ [ 48, 54 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7307" }, { "db_name": "hgnc", "db_id": "U2AF1" }, { "db_name": "uniprot", "db_id": "Q01081" } ] }, { "id": "1.0alpha7.train.1089.ent4_0", "type": "DNA", "text": [ "Py tracts" ], "offsets": [ [ 121, 130 ] ], "normalized": [] } ]
[]
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[ { "id": "1.0alpha7.train.1089.rel0s1.0alpha7.train.1089.ent0_0.o1.0alpha7.train.1089.ent3_0", "type": "bind", "arg1_id": "1.0alpha7.train.1089.ent0_0", "arg2_id": "1.0alpha7.train.1089.ent3_0", "normalized": [] }, { "id": "1.0alpha7.train.1089.rel1s1.0alpha7.train.1089.ent2_0.o1.0alpha7.train.1089.ent4_0", "type": "bind", "arg1_id": "1.0alpha7.train.1089.ent2_0", "arg2_id": "1.0alpha7.train.1089.ent4_0", "normalized": [] } ]
1.0alpha7.train.1090
9106838
[ { "id": "1.0alpha7.train.1090.sent", "type": "sentence", "text": [ "In contrast, hPAK65 interacts strongly with the GTP-bound forms of both Rac1 and CDC42Hs." ], "offsets": [ [ 0, 94 ] ] } ]
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[]
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1.0alpha7.train.1091
16329547
[ { "id": "1.0alpha7.train.1091.sent", "type": "sentence", "text": [ "For example, AKAP79 colocalizes PKC with PKA and calcineurin; gravin binds PKC and PKA; and the InaD clusters PKC with phospholipase-C beta, G proteins, and calmodulin (Fig. 3)." ], "offsets": [ [ 0, 187 ] ] } ]
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[]
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1.0alpha7.train.1092
888198
[ { "id": "1.0alpha7.train.1092.sent", "type": "sentence", "text": [ "Calmodulin binding activities of the adducin recombinant polypeptides and the MARCKS-related domain peptide were inhibited by PKA and PKC phosphorylation." ], "offsets": [ [ 0, 158 ] ] } ]
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[]
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1.0alpha7.train.1093
8949381
[ { "id": "1.0alpha7.train.1093.sent", "type": "sentence", "text": [ "We delineated the region of LIN-7 that binds to LIN-2 by generating a series of LIN-7 fusion proteins that contained successively larger N-terminal truncations." ], "offsets": [ [ 0, 165 ] ] } ]
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[]
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1.0alpha7.train.1094
1106224
[ { "id": "1.0alpha7.train.1094.sent", "type": "sentence", "text": [ "Characterization of rC Domain Binding to Fibronectin, Laminin, SPARC, and Tenascin" ], "offsets": [ [ 0, 82 ] ] } ]
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[]
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1.0alpha7.train.1095
4176167
[ { "id": "1.0alpha7.train.1095.sent", "type": "sentence", "text": [ "The introduction of a glutamic acid residue at position 12 in place of the tyrosine residue similarly reduced the binding of alpha-actinin to actin." ], "offsets": [ [ 0, 151 ] ] } ]
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[]
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1.0alpha7.train.1096
4626814
[ { "id": "1.0alpha7.train.1096.sent", "type": "sentence", "text": [ "As a negative control, we found that GST alone did not bind MBP-Sec3p under the same reaction conditions." ], "offsets": [ [ 0, 107 ] ] } ]
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[]
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1.0alpha7.train.1097
11580554
[ { "id": "1.0alpha7.train.1097.sent", "type": "sentence", "text": [ "Interestingly, Abl binds to the proline-rich sequences found in formin proteins ( Ren et al., 1993) and to Ena ( Gertler et al., 1995), which also bind to profilin." ], "offsets": [ [ 0, 171 ] ] } ]
[ { "id": "1.0alpha7.train.1097.ent0_0", "type": "protein-motif", "text": [ "proline-rich sequences" ], "offsets": [ [ 34, 56 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1097.ent1_0", "type": "protein-family", "text": [ "Abl" ], "offsets": [ [ 16, 19 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR033221" } ] }, { "id": "1.0alpha7.train.1097.ent2_0", "type": "protein-family", "text": [ "formin" ], "offsets": [ [ 67, 73 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001265" } ] } ]
[]
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[ { "id": "1.0alpha7.train.1097.rel0s1.0alpha7.train.1097.ent0_0.o1.0alpha7.train.1097.ent1_0", "type": "bind", "arg1_id": "1.0alpha7.train.1097.ent0_0", "arg2_id": "1.0alpha7.train.1097.ent1_0", "normalized": [] }, { "id": "1.0alpha7.train.1097.rel1s1.0alpha7.train.1097.ent1_0.o1.0alpha7.train.1097.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1097.ent1_0", "arg2_id": "1.0alpha7.train.1097.ent2_0", "normalized": [] } ]
1.0alpha7.train.1098
9252669
[ { "id": "1.0alpha7.train.1098.sent", "type": "sentence", "text": [ "Overexpression of wild-type raptor, but not of a mutant that cannot interact with mTOR (mut 1 in Figure 4), resulted in an increased amount of raptor bound to mTOR and a decrease in its in vitro kinase activity (Figure 6E)." ], "offsets": [ [ 0, 236 ] ] } ]
[ { "id": "1.0alpha7.train.1098.ent0_0", "type": "protein", "text": [ "mTOR" ], "offsets": [ [ 84, 88 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2475" }, { "db_name": "hgnc", "db_id": "MTOR" }, { "db_name": "uniprot", "db_id": "P42345" } ] }, { "id": "1.0alpha7.train.1098.ent1_1", "type": "protein", "text": [ "mTOR" ], "offsets": [ [ 167, 171 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2475" }, { "db_name": "hgnc", "db_id": "MTOR" }, { "db_name": "uniprot", "db_id": "P42345" } ] }, { "id": "1.0alpha7.train.1098.ent2_0", "type": "protein", "text": [ "raptor" ], "offsets": [ [ 29, 35 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "57521" }, { "db_name": "hgnc", "db_id": "RPTOR" }, { "db_name": "uniprot", "db_id": "Q8N122" } ] }, { "id": "1.0alpha7.train.1098.ent3_1", "type": "protein", "text": [ "raptor" ], "offsets": [ [ 150, 156 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "57521" }, { "db_name": "hgnc", "db_id": "RPTOR" }, { "db_name": "uniprot", "db_id": "Q8N122" } ] } ]
[]
[ { "id": "1.0alpha7.train.1098.coref0", "entity_ids": [ "1.0alpha7.train.1098.ent0_0", "1.0alpha7.train.1098.ent1_1" ] }, { "id": "1.0alpha7.train.1098.coref1", "entity_ids": [ "1.0alpha7.train.1098.ent2_0", "1.0alpha7.train.1098.ent3_1" ] } ]
[ { "id": "1.0alpha7.train.1098.rel0s1.0alpha7.train.1098.ent0_0.o1.0alpha7.train.1098.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1098.ent0_0", "arg2_id": "1.0alpha7.train.1098.ent2_0", "normalized": [] }, { "id": "1.0alpha7.train.1098.rel0s1.0alpha7.train.1098.ent0_0.o1.0alpha7.train.1098.ent3_1", "type": "bind", "arg1_id": "1.0alpha7.train.1098.ent0_0", "arg2_id": "1.0alpha7.train.1098.ent3_1", "normalized": [] }, { "id": "1.0alpha7.train.1098.rel0s1.0alpha7.train.1098.ent1_1.o1.0alpha7.train.1098.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1098.ent1_1", "arg2_id": "1.0alpha7.train.1098.ent2_0", "normalized": [] }, { "id": "1.0alpha7.train.1098.rel0s1.0alpha7.train.1098.ent1_1.o1.0alpha7.train.1098.ent3_1", "type": "bind", "arg1_id": "1.0alpha7.train.1098.ent1_1", "arg2_id": "1.0alpha7.train.1098.ent3_1", "normalized": [] } ]
1.0alpha7.train.1099
3616077
[ { "id": "1.0alpha7.train.1099.sent", "type": "sentence", "text": [ "Finally, footprinting analyses using the -73 to +13 promoter sequence did not reveal any protected nucleotides in the wild-type and mutated promoter sequences, under conditions which detected strong c-Jun binding to the AP-1 binding site (data not shown)." ], "offsets": [ [ 0, 255 ] ] } ]
[ { "id": "1.0alpha7.train.1099.ent0_0", "type": "protein-complex", "text": [ "AP-1" ], "offsets": [ [ 220, 224 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1099.ent1_0", "type": "DNA", "text": [ "AP-1 binding site" ], "offsets": [ [ 220, 237 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1099.ent2_0", "type": "protein", "text": [ "c-Jun" ], "offsets": [ [ 199, 204 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3725" }, { "db_name": "hgnc", "db_id": "JUN" }, { "db_name": "uniprot", "db_id": "P05412" } ] } ]
[]
[ { "id": "1.0alpha7.train.1099.coref0", "entity_ids": [ "1.0alpha7.train.1099.ent0_0" ] }, { "id": "1.0alpha7.train.1099.coref1", "entity_ids": [ "1.0alpha7.train.1099.ent1_0" ] }, { "id": "1.0alpha7.train.1099.coref2", "entity_ids": [ "1.0alpha7.train.1099.ent2_0" ] } ]
[ { "id": "1.0alpha7.train.1099.rel0s1.0alpha7.train.1099.ent1_0.o1.0alpha7.train.1099.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1099.ent1_0", "arg2_id": "1.0alpha7.train.1099.ent2_0", "normalized": [] }, { "id": "1.0alpha7.train.1099.rel1s1.0alpha7.train.1099.ent0_0.o1.0alpha7.train.1099.ent1_0", "type": "bind", "arg1_id": "1.0alpha7.train.1099.ent0_0", "arg2_id": "1.0alpha7.train.1099.ent1_0", "normalized": [] } ]