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1.0alpha7.train.1200
20326653
[ { "id": "1.0alpha7.train.1200.sent", "type": "sentence", "text": [ "Importantly, the photocrosslinking pattern of the three DmPBP polypeptides to the DNA was different depending upon whether DmPBP was bound to a U1 or U6 PSEA sequence (32)." ], "offsets": [ [ 0, 172 ] ] } ]
[ { "id": "1.0alpha7.train.1200.ent0_0", "type": "protein", "text": [ "DmPBP" ], "offsets": [ [ 56, 61 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1200.ent1_1", "type": "protein", "text": [ "DmPBP" ], "offsets": [ [ 123, 128 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1200.ent2_0", "type": "DNA", "text": [ "U1" ], "offsets": [ [ 144, 146 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1200.ent3_0", "type": "gene", "text": [ "U6" ], "offsets": [ [ 150, 152 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1200.ent4_0", "type": "DNA", "text": [ "DNA" ], "offsets": [ [ 82, 85 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "25782" }, { "db_name": "hgnc", "db_id": "RAB3GAP2" }, { "db_name": "uniprot", "db_id": "Q9H2M9" } ] }, { "id": "1.0alpha7.train.1200.ent5_0", "type": "DNA", "text": [ "U6 PSEA sequence" ], "offsets": [ [ 150, 166 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1201
5301557
[ { "id": "1.0alpha7.train.1201.sent", "type": "sentence", "text": [ "Moreover, the observed Mg2+-dependent binding of GTP suggests that menin binds GTP as a complex with Mg2+, like many GTPases ( 28)." ], "offsets": [ [ 0, 134 ] ] } ]
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[]
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1.0alpha7.train.1202
9655981
[ { "id": "1.0alpha7.train.1202.sent", "type": "sentence", "text": [ "This kinase is also known to bind and become activated by the GTP-bound (activated) form of Rac (Manser et al., 1994 )." ], "offsets": [ [ 0, 124 ] ] } ]
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[]
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1.0alpha7.train.1203
12609567
[ { "id": "1.0alpha7.train.1203.sent", "type": "sentence", "text": [ "We show that Cos2 binds Ci, prevents its nuclear import, and inhibits its activity via this domain." ], "offsets": [ [ 0, 101 ] ] } ]
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[]
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1.0alpha7.train.1204
1570635
[ { "id": "1.0alpha7.train.1204.sent", "type": "sentence", "text": [ "The fact that, in the presence of cofilin, the amount of S2-3 bound to F-actin is lower, compared with samples containing equal concentrations of S2-3 but no cofilin (and vice versa), and that the reduction in the F-actin bound S2-3 is compensated by an increase in bound cofilin of about similar size indicates that cofilin and S2-3 displace each other and therefore suggests that both proteins compete for the same or an overlapping site on F-actin." ], "offsets": [ [ 0, 451 ] ] } ]
[ { "id": "1.0alpha7.train.1204.ent0_0", "type": "protein-family", "text": [ "cofilin" ], "offsets": [ [ 34, 41 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR027234" } ] }, { "id": "1.0alpha7.train.1204.ent1_1", "type": "protein-family", "text": [ "cofilin" ], "offsets": [ [ 158, 165 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR027234" } ] }, { "id": "1.0alpha7.train.1204.ent2_2", "type": "protein-family", "text": [ "cofilin" ], "offsets": [ [ 272, 279 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR027234" } ] }, { "id": "1.0alpha7.train.1204.ent3_3", "type": "protein-family", "text": [ "cofilin" ], "offsets": [ [ 317, 324 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR027234" } ] }, { "id": "1.0alpha7.train.1204.ent4_0", "type": "protein-domain", "text": [ "S2-3" ], "offsets": [ [ 57, 61 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent5_1", "type": "protein-domain", "text": [ "S2-3" ], "offsets": [ [ 146, 150 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent6_2", "type": "protein-domain", "text": [ "S2-3" ], "offsets": [ [ 228, 232 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent7_3", "type": "protein-domain", "text": [ "S2-3" ], "offsets": [ [ 329, 333 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent8_0", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 73, 78 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1204.ent9_1", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 216, 221 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1204.ent10_2", "type": "protein-family", "text": [ "actin" ], "offsets": [ [ 445, 450 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00022" } ] }, { "id": "1.0alpha7.train.1204.ent11_0", "type": "protein", "text": [ "F-actin" ], "offsets": [ [ 71, 78 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent12_1", "type": "protein", "text": [ "F-actin" ], "offsets": [ [ 214, 221 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1204.ent13_2", "type": "protein", "text": [ "F-actin" ], "offsets": [ [ 443, 450 ] ], "normalized": [] } ]
[]
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"1.0alpha7.train.1204.ent5_1", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel0s1.0alpha7.train.1204.ent5_1.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent5_1", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel0s1.0alpha7.train.1204.ent6_2.o1.0alpha7.train.1204.ent11_0", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent6_2", "arg2_id": "1.0alpha7.train.1204.ent11_0", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel0s1.0alpha7.train.1204.ent6_2.o1.0alpha7.train.1204.ent12_1", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent6_2", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel0s1.0alpha7.train.1204.ent6_2.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent6_2", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] }, { "id": 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"1.0alpha7.train.1204.ent0_0", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent0_0.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent0_0", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent1_1.o1.0alpha7.train.1204.ent11_0", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent1_1", "arg2_id": "1.0alpha7.train.1204.ent11_0", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent1_1.o1.0alpha7.train.1204.ent12_1", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent1_1", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent1_1.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent1_1", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent2_2.o1.0alpha7.train.1204.ent11_0", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent2_2", "arg2_id": "1.0alpha7.train.1204.ent11_0", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent2_2.o1.0alpha7.train.1204.ent12_1", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent2_2", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent2_2.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent2_2", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent3_3.o1.0alpha7.train.1204.ent11_0", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent3_3", "arg2_id": "1.0alpha7.train.1204.ent11_0", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent3_3.o1.0alpha7.train.1204.ent12_1", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent3_3", "arg2_id": "1.0alpha7.train.1204.ent12_1", "normalized": [] }, { "id": "1.0alpha7.train.1204.rel1s1.0alpha7.train.1204.ent3_3.o1.0alpha7.train.1204.ent13_2", "type": "bind", "arg1_id": "1.0alpha7.train.1204.ent3_3", "arg2_id": "1.0alpha7.train.1204.ent13_2", "normalized": [] } ]
1.0alpha7.train.1205
3105025
[ { "id": "1.0alpha7.train.1205.sent", "type": "sentence", "text": [ "Taken together, the Schneider cell transfection studies and the gel mobility shift analyses demonstrate DREF binding to the DRE sites present in the mtSSB promoter and the importance of these sites in Drosophila mtSSB promoter function." ], "offsets": [ [ 0, 244 ] ] } ]
[ { "id": "1.0alpha7.train.1205.ent0_0", "type": "gene", "text": [ "mtSSB" ], "offsets": [ [ 154, 159 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1205.ent1_1", "type": "gene", "text": [ "mtSSB" ], "offsets": [ [ 220, 225 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1205.ent2_0", "type": "DNA", "text": [ "mtSSB promoter" ], "offsets": [ [ 154, 168 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1205.ent3_1", "type": "DNA", "text": [ "mtSSB promoter" ], "offsets": [ [ 220, 234 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1205.ent4_0", "type": "DNA", "text": [ "DRE" ], "offsets": [ [ 127, 130 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1205.ent5_0", "type": "protein", "text": [ "DREF" ], "offsets": [ [ 106, 110 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "9189" }, { "db_name": "hgnc", "db_id": "ZBED1" }, { "db_name": "uniprot", "db_id": "O96006" } ] } ]
[]
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1.0alpha7.train.1206
1368961
[ { "id": "1.0alpha7.train.1206.sent", "type": "sentence", "text": [ "Exchange of the GDP bound to eIF2 with GTP is catalyzed by eIF2B." ], "offsets": [ [ 0, 69 ] ] } ]
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[]
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1.0alpha7.train.1207
24575595
[ { "id": "1.0alpha7.train.1207.sent", "type": "sentence", "text": [ "Upon accumulation, beta-catenin binds and activates Tcf/LEF-family transcription factors (Peifer and Polakis, 2000)." ], "offsets": [ [ 0, 116 ] ] } ]
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[]
[ { "id": "1.0alpha7.train.1207.coref0", "entity_ids": [ "1.0alpha7.train.1207.ent0_0" ] }, { "id": "1.0alpha7.train.1207.coref1", "entity_ids": [ "1.0alpha7.train.1207.ent1_0" ] } ]
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1.0alpha7.train.1208
627815
[ { "id": "1.0alpha7.train.1208.sent", "type": "sentence", "text": [ "It has been proposed that the Elav-like proteins specifically bind to the short AU-rich segments (AREs or ``` Shaw-Kamen elements) that regulate mRNA turnover( 16) ." ], "offsets": [ [ 0, 170 ] ] } ]
[ { "id": "1.0alpha7.train.1208.ent0_0", "type": "protein-family", "text": [ "Elav-like proteins" ], "offsets": [ [ 32, 50 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1208.ent1_0", "type": "DNA", "text": [ "Shaw-Kamen elements" ], "offsets": [ [ 114, 133 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1208.ent2_0", "type": "DNA", "text": [ "AU-rich segments" ], "offsets": [ [ 83, 99 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1208.ent3_0", "type": "DNA", "text": [ "AREs" ], "offsets": [ [ 102, 106 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1208.ent4_0", "type": "RNA", "text": [ "mRNA" ], "offsets": [ [ 149, 153 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1208.coref0", "entity_ids": [ "1.0alpha7.train.1208.ent0_0" ] }, { "id": "1.0alpha7.train.1208.coref1", "entity_ids": [ "1.0alpha7.train.1208.ent1_0", "1.0alpha7.train.1208.ent2_0", "1.0alpha7.train.1208.ent3_0" ] }, { "id": "1.0alpha7.train.1208.coref2", "entity_ids": [ "1.0alpha7.train.1208.ent4_0" ] } ]
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1.0alpha7.train.1209
7557541
[ { "id": "1.0alpha7.train.1209.sent", "type": "sentence", "text": [ "Src can bind to activated Neu in vivo, and an interaction between the Src SH2 domain and Neu has been shown in vitro ( 351Muthuswamy & Muller 1995)." ], "offsets": [ [ 0, 151 ] ] } ]
[ { "id": "1.0alpha7.train.1209.ent0_0", "type": "protein", "text": [ "Src" ], "offsets": [ [ 0, 3 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6714" }, { "db_name": "hgnc", "db_id": "SRC" }, { "db_name": "uniprot", "db_id": "P12931" } ] }, { "id": "1.0alpha7.train.1209.ent1_1", "type": "protein", "text": [ "Src" ], "offsets": [ [ 72, 75 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6714" }, { "db_name": "hgnc", "db_id": "SRC" }, { "db_name": "uniprot", "db_id": "P12931" } ] }, { "id": "1.0alpha7.train.1209.ent2_0", "type": "protein-domain", "text": [ "SH2" ], "offsets": [ [ 76, 79 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000980" } ] }, { "id": "1.0alpha7.train.1209.ent3_0", "type": "protein", "text": [ "Neu" ], "offsets": [ [ 27, 30 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2064" }, { "db_name": "hgnc", "db_id": "ERBB2" }, { "db_name": "uniprot", "db_id": "P04626" } ] }, { "id": "1.0alpha7.train.1209.ent4_1", "type": "protein", "text": [ "Neu" ], "offsets": [ [ 92, 95 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2064" }, { "db_name": "hgnc", "db_id": "ERBB2" }, { "db_name": "uniprot", "db_id": "P04626" } ] } ]
[]
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1.0alpha7.train.1210
1067081
[ { "id": "1.0alpha7.train.1210.sent", "type": "sentence", "text": [ "The complex of TnC, TnI, and residues 159-259 of TnT is known to bind to TM in the region of Cys-190, referred to as the Ca2+-sensitive binding site, and has not been considered to bind to the extreme COOH terminus of TM(17, 48, 49, 50, 51)." ], "offsets": [ [ 0, 241 ] ] } ]
[ { "id": "1.0alpha7.train.1210.ent0_0", "type": "protein", "text": [ "TnT" ], "offsets": [ [ 49, 52 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7138" }, { "db_name": "hgnc", "db_id": "TNNT1" }, { "db_name": "uniprot", "db_id": "P13805" } ] }, { "id": "1.0alpha7.train.1210.ent1_0", "type": "amino-acid", "text": [ "Cys-190" ], "offsets": [ [ 93, 100 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1210.ent2_0", "type": "chemical", "text": [ "Ca2+" ], "offsets": [ [ 121, 125 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5460341" } ] }, { "id": "1.0alpha7.train.1210.ent3_0", "type": "protein-complex", "text": [ "complex" ], "offsets": [ [ 4, 11 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1210.ent4_0", "type": "protein", "text": [ "TnC" ], "offsets": [ [ 15, 18 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3371" }, { "db_name": "hgnc", "db_id": "TNC" }, { "db_name": "uniprot", "db_id": "P24821" } ] }, { "id": "1.0alpha7.train.1210.ent5_0", "type": "protein", "text": [ "TnI" ], "offsets": [ [ 20, 23 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7135" }, { "db_name": "hgnc", "db_id": "TNNI1" }, { "db_name": "uniprot", "db_id": "P19237" } ] }, { "id": "1.0alpha7.train.1210.ent6_0", "type": "protein-family", "text": [ "TM" ], "offsets": [ [ 73, 75 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000533" } ] }, { "id": "1.0alpha7.train.1210.ent7_1", "type": "protein-family", "text": [ "TM" ], "offsets": [ [ 218, 220 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000533" } ] } ]
[]
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1.0alpha7.train.1211
15588154
[ { "id": "1.0alpha7.train.1211.sent", "type": "sentence", "text": [ "Biochemical evidence further supports the proposal that Spt3 and Spt8 inhibit TBP function, since wild-type SAGA negatively affected TBP binding to the HIS3 TATA box in vitro, while SAGA complexes prepared from either spt3Δ or spt8Δ strains no longer inhibited TBP binding to the TATA box. " ], "offsets": [ [ 0, 290 ] ] } ]
[ { "id": "1.0alpha7.train.1211.ent0_0", "type": "DNA", "text": [ "TATA box" ], "offsets": [ [ 157, 165 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent1_1", "type": "DNA", "text": [ "TATA box" ], "offsets": [ [ 280, 288 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent2_0", "type": "protein-complex", "text": [ "SAGA" ], "offsets": [ [ 108, 112 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent3_1", "type": "protein-complex", "text": [ "SAGA" ], "offsets": [ [ 182, 186 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent4_0", "type": "protein", "text": [ "TBP" ], "offsets": [ [ 78, 81 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6908" }, { "db_name": "hgnc", "db_id": "TBP" }, { "db_name": "uniprot", "db_id": "P20226" } ] }, { "id": "1.0alpha7.train.1211.ent5_1", "type": "protein", "text": [ "TBP" ], "offsets": [ [ 133, 136 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6908" }, { "db_name": "hgnc", "db_id": "TBP" }, { "db_name": "uniprot", "db_id": "P20226" } ] }, { "id": "1.0alpha7.train.1211.ent6_2", "type": "protein", "text": [ "TBP" ], "offsets": [ [ 261, 264 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6908" }, { "db_name": "hgnc", "db_id": "TBP" }, { "db_name": "uniprot", "db_id": "P20226" } ] }, { "id": "1.0alpha7.train.1211.ent7_0", "type": "protein", "text": [ "spt3Δ" ], "offsets": [ [ 218, 223 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent8_0", "type": "protein", "text": [ "spt8Δ" ], "offsets": [ [ 227, 232 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1211.ent9_0", "type": "protein", "text": [ "Spt8" ], "offsets": [ [ 65, 69 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P38915" } ] }, { "id": "1.0alpha7.train.1211.ent10_0", "type": "gene", "text": [ "HIS3" ], "offsets": [ [ 152, 156 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3347" }, { "db_name": "hgnc", "db_id": "HTN3" } ] }, { "id": "1.0alpha7.train.1211.ent11_0", "type": "protein", "text": [ "Spt3" ], "offsets": [ [ 56, 60 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P06844" } ] } ]
[]
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1.0alpha7.train.1212
4500388
[ { "id": "1.0alpha7.train.1212.sent", "type": "sentence", "text": [ "We next measured PP1 activity bound to endogenous STK15 derived from interphase and mitotic extracts." ], "offsets": [ [ 0, 104 ] ] } ]
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[]
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1.0alpha7.train.1213
20158019
[ { "id": "1.0alpha7.train.1213.sent", "type": "sentence", "text": [ "A Wnt signal induces an increase in the cytoplasmic pool of β-catenin which binds to a Tcf protein and localizes the complex to the nucleus where transcription of prospective target genes are activated (Huber et al., 1996)." ], "offsets": [ [ 0, 223 ] ] } ]
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[]
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1.0alpha7.train.1214
4672535
[ { "id": "1.0alpha7.train.1214.sent", "type": "sentence", "text": [ "Actopaxin localizes to focal adhesions and binds actin in addition to binding paxillin ( 9)." ], "offsets": [ [ 0, 94 ] ] } ]
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[]
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1.0alpha7.train.1215
15911130
[ { "id": "1.0alpha7.train.1215.sent", "type": "sentence", "text": [ "It is located at the heart of the p53-binding cleft of Mdm2 ( 34), within the N-terminal region which also mediates hNumb binding." ], "offsets": [ [ 0, 132 ] ] } ]
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[]
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1.0alpha7.train.1216
6631685
[ { "id": "1.0alpha7.train.1216.sent", "type": "sentence", "text": [ "The triply mutant protein binds FAD and supports aerotaxis." ], "offsets": [ [ 0, 60 ] ] } ]
[ { "id": "1.0alpha7.train.1216.ent0_0", "type": "process", "text": [ "aerotaxis" ], "offsets": [ [ 50, 59 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1216.ent1_0", "type": "chemical", "text": [ "FAD" ], "offsets": [ [ 33, 36 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "643975" } ] } ]
[]
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[]
1.0alpha7.train.1217
4677183
[ { "id": "1.0alpha7.train.1217.sent", "type": "sentence", "text": [ "The importance of the loop sequence for molecular recognition is also demonstrated by an artificially engineered FnIIID with altered sequences on the BC and FG loops that binds ubiquitin with high affinity (41)." ], "offsets": [ [ 0, 211 ] ] } ]
[ { "id": "1.0alpha7.train.1217.ent0_0", "type": "experimental-construct", "text": [ "artificially engineered FnIIID" ], "offsets": [ [ 89, 119 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1217.ent1_0", "type": "protein-region", "text": [ "BC" ], "offsets": [ [ 150, 152 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1217.ent2_0", "type": "protein-region", "text": [ "FG loops" ], "offsets": [ [ 157, 165 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1217.ent3_0", "type": "protein-domain", "text": [ "FnIIID" ], "offsets": [ [ 113, 119 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1217.ent4_0", "type": "protein-family", "text": [ "ubiquitin" ], "offsets": [ [ 177, 186 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000626" } ] } ]
[]
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1.0alpha7.train.1218
1544673
[ { "id": "1.0alpha7.train.1218.sent", "type": "sentence", "text": [ "The actin binding of A-fascin was the same as that of unphosphorylated r-fascin regardless of the treatment of A-fascin with PKC, indicating that Ser-39 is responsible for the phosphorylation-dependent regulation of fascin-actin binding." ], "offsets": [ [ 0, 244 ] ] } ]
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[]
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1.0alpha7.train.1219
4847198
[ { "id": "1.0alpha7.train.1219.sent", "type": "sentence", "text": [ "GST fusion protein or GST (5 mug each) were bound to GT-agarose beads and incubated with HEK293 cell extracts." ], "offsets": [ [ 0, 112 ] ] } ]
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[]
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1.0alpha7.train.1220
15438539
[ { "id": "1.0alpha7.train.1220.sent", "type": "sentence", "text": [ "pRB remains hypophosphorylated and bound to E2Fs, and E2F-responsive genes remain repressed in early G1 phase of p16-minus tumor cells." ], "offsets": [ [ 0, 138 ] ] } ]
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[]
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1.0alpha7.train.1221
9737592
[ { "id": "1.0alpha7.train.1221.sent", "type": "sentence", "text": [ "Together with the results obtained from immunoprecipitation analysis, we concluded that the in vitro moesin–binding ability of a.a.62-78 of the CD43- cytoplasmic domain was not indispensable in the cells, and that the juxta-membrane 20-30-amino acid sequence of the cytoplasmic domains of CD44, CD43, and ICAM-2 can bind to ERM proteins and recruit these integral membrane proteins to microvilli together with ERM proteins." ], "offsets": [ [ 0, 423 ] ] } ]
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[]
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1.0alpha7.train.1222
4183654
[ { "id": "1.0alpha7.train.1222.sent", "type": "sentence", "text": [ "Binding of p53 and Sp1 to their cognate sites is required for their functional cooperation." ], "offsets": [ [ 0, 95 ] ] } ]
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[]
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[]
1.0alpha7.train.1223
11695992
[ { "id": "1.0alpha7.train.1223.sent", "type": "sentence", "text": [ "The putative target proteins for RhoA include protein kinase N (Amano et al., 1996b), rhophilin (Watanabe et al., 1996), citron (Madaule et al., 1995), rhotekin (Reid et al., 1996), myosin-binding subunit of myosin phosphatase (Kimura et al., 1996), p140mDia (Watanabe et al., 1997) and Rho-associated kinase (Matsui et al., 1996)." ], "offsets": [ [ 0, 331 ] ] } ]
[ { "id": "1.0alpha7.train.1223.ent0_0", "type": "protein", "text": [ "myosin-binding subunit" ], "offsets": [ [ 182, 204 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent1_0", "type": "protein", "text": [ "Rho-associated kinase" ], "offsets": [ [ 287, 308 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent2_0", "type": "protein", "text": [ "citron" ], "offsets": [ [ 121, 127 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "11113" }, { "db_name": "hgnc", "db_id": "CIT" }, { "db_name": "uniprot", "db_id": "O14578" } ] }, { "id": "1.0alpha7.train.1223.ent3_0", "type": "protein-complex", "text": [ "myosin" ], "offsets": [ [ 182, 188 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent4_1", "type": "protein-complex", "text": [ "myosin" ], "offsets": [ [ 208, 214 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent5_0", "type": "protein", "text": [ "rhotekin" ], "offsets": [ [ 152, 160 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6242" }, { "db_name": "hgnc", "db_id": "RTKN" }, { "db_name": "uniprot", "db_id": "Q9BST9" } ] }, { "id": "1.0alpha7.train.1223.ent6_0", "type": "protein", "text": [ "p140mDia" ], "offsets": [ [ 250, 258 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "O08808" } ] }, { "id": "1.0alpha7.train.1223.ent7_0", "type": "protein-family", "text": [ "protein kinase N" ], "offsets": [ [ 46, 62 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent8_0", "type": "protein", "text": [ "RhoA" ], "offsets": [ [ 33, 37 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "387" }, { "db_name": "hgnc", "db_id": "RHOA" }, { "db_name": "uniprot", "db_id": "P61586" } ] }, { "id": "1.0alpha7.train.1223.ent9_0", "type": "protein-family", "text": [ "myosin phosphatase" ], "offsets": [ [ 208, 226 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1223.ent10_0", "type": "protein", "text": [ "rhophilin" ], "offsets": [ [ 86, 95 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "54763" }, { "db_name": "hgnc", "db_id": "ROPN1" }, { "db_name": "uniprot", "db_id": "Q9HAT0" } ] } ]
[]
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1.0alpha7.train.1224
21928751
[ { "id": "1.0alpha7.train.1224.sent", "type": "sentence", "text": [ "Tyr177 lies within a Grb2 binding motif (Y-X-N-X) in BCR, and is essential for Grb2 binding to BCR/ABL (Pendergast et al., 1993 ; Puil et al., 1994 )." ], "offsets": [ [ 0, 158 ] ] } ]
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[]
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1.0alpha7.train.1225
6579591
[ { "id": "1.0alpha7.train.1225.sent", "type": "sentence", "text": [ "Truncated MDC lost binding to CCR4, the only characterized receptor for this chemokine ( 30), although it maintained chemotactic activity likely via interaction with an undefined cell surface molecule ( 22)." ], "offsets": [ [ 0, 209 ] ] } ]
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[]
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1.0alpha7.train.1226
3973972
[ { "id": "1.0alpha7.train.1226.sent", "type": "sentence", "text": [ "B, identification of SRF as a beta-TM CArG box binding transcription factor." ], "offsets": [ [ 0, 78 ] ] } ]
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[]
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1.0alpha7.train.1227
11736820
[ { "id": "1.0alpha7.train.1227.sent", "type": "sentence", "text": [ "Thus, the earlier observed increase in eIF4G phosphorylation in response to mitogen treatment probably reflected an augmentation in the quantity of eIF4G bound to eIF4E." ], "offsets": [ [ 0, 172 ] ] } ]
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[]
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1.0alpha7.train.1228
15851933
[ { "id": "1.0alpha7.train.1228.sent", "type": "sentence", "text": [ "The TCFs bind with SRF to the serum response element and mediate the response to ERK (extracellular signal-regulated kinases), JNK (c-Jun N-terminal kinase), and p38 MAP kinases, through phosphorylation of their C domains." ], "offsets": [ [ 0, 228 ] ] } ]
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[]
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1.0alpha7.train.1229
1650721
[ { "id": "1.0alpha7.train.1229.sent", "type": "sentence", "text": [ "The differential binding of beta cytoplasmic domains to talin and filamin suggests functionally different linkages of integrins with the cytoskeleton." ], "offsets": [ [ 0, 153 ] ] } ]
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[]
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1.0alpha7.train.1230
640004
[ { "id": "1.0alpha7.train.1230.sent", "type": "sentence", "text": [ "After a chase of 25 min, the number of gp160 molecules bound to calreticulin was reduced by 50%, and after 90 min only trace amounts of gp160 were still associated with calreticulin as described in a preceding section." ], "offsets": [ [ 0, 225 ] ] } ]
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[]
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1.0alpha7.train.1231
12017835
[ { "id": "1.0alpha7.train.1231.sent", "type": "sentence", "text": [ "Furthermore, Sec5 binds a Ral protein, which is not present in yeast ( Brymora et al., 2001; Moskalenko et al., 2002; Sugihara et al., 2002)." ], "offsets": [ [ 0, 149 ] ] } ]
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[]
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1.0alpha7.train.1232
694827
[ { "id": "1.0alpha7.train.1232.sent", "type": "sentence", "text": [ "Phosphorylated CREB protein then binds to CREB-binding protein (27, 28), and this complex is thought to induce transcription of genes containing CRE sequences such as c-fos (7), tyrosine hydroxylase (29), enkephalin (18), somatostatin (17), and vasoactive intestinal peptide (30)." ], "offsets": [ [ 0, 280 ] ] } ]
[ { "id": "1.0alpha7.train.1232.ent0_0", "type": "protein", "text": [ "vasoactive intestinal peptide" ], "offsets": [ [ 245, 274 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7432" }, { "db_name": "hgnc", "db_id": "VIP" }, { "db_name": "uniprot", "db_id": "P01282" } ] }, { "id": "1.0alpha7.train.1232.ent1_0", "type": "protein", "text": [ "tyrosine hydroxylase" ], "offsets": [ [ 178, 198 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7054" }, { "db_name": "hgnc", "db_id": "TH" }, { "db_name": "uniprot", "db_id": "P07101" } ] }, { "id": "1.0alpha7.train.1232.ent2_0", "type": "protein", "text": [ "enkephalin" ], "offsets": [ [ 205, 215 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5179" }, { "db_name": "hgnc", "db_id": "PENK" }, { "db_name": "uniprot", "db_id": "P01210" } ] }, { "id": "1.0alpha7.train.1232.ent3_0", "type": "protein", "text": [ "somatostatin" ], "offsets": [ [ 222, 234 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6750" }, { "db_name": "hgnc", "db_id": "SST" }, { "db_name": "uniprot", "db_id": "P61278" } ] }, { "id": "1.0alpha7.train.1232.ent4_0", "type": "protein", "text": [ "CREB-binding protein" ], "offsets": [ [ 42, 62 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1387" }, { "db_name": "hgnc", "db_id": "CREBBP" }, { "db_name": "uniprot", "db_id": "Q92793" } ] }, { "id": "1.0alpha7.train.1232.ent5_0", "type": "DNA", "text": [ "CRE" ], "offsets": [ [ 145, 148 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1232.ent6_0", "type": "protein-family", "text": [ "CREB" ], "offsets": [ [ 15, 19 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001630" } ] }, { "id": "1.0alpha7.train.1232.ent7_1", "type": "protein-family", "text": [ "CREB" ], "offsets": [ [ 42, 46 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001630" } ] }, { "id": "1.0alpha7.train.1232.ent8_0", "type": "protein", "text": [ "c-fos" ], "offsets": [ [ 167, 172 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2353" }, { "db_name": "hgnc", "db_id": "FOS" }, { "db_name": "uniprot", "db_id": "P01100" } ] } ]
[]
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1.0alpha7.train.1233
24764806
[ { "id": "1.0alpha7.train.1233.sent", "type": "sentence", "text": [ "In addition, these studies suggested that Arg175 functions as a phosphorylation-sensitive trigger because charge neutralization enabled an R175N mutant arrestin to bind to Rh* as well as wild-type arrestin binds to P-Rh*." ], "offsets": [ [ 0, 225 ] ] } ]
[ { "id": "1.0alpha7.train.1233.ent0_0", "type": "protein-family", "text": [ "arrestin" ], "offsets": [ [ 153, 161 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000698" } ] }, { "id": "1.0alpha7.train.1233.ent1_1", "type": "protein-family", "text": [ "arrestin" ], "offsets": [ [ 200, 208 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000698" } ] }, { "id": "1.0alpha7.train.1233.ent2_0", "type": "protein", "text": [ "P-Rh" ], "offsets": [ [ 219, 223 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1233.ent3_0", "type": "protein", "text": [ "Rh*" ], "offsets": [ [ 174, 177 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1233.ent4_1", "type": "protein", "text": [ "Rh*" ], "offsets": [ [ 221, 224 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1233.ent5_0", "type": "protein", "text": [ "P-Rh*" ], "offsets": [ [ 219, 224 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1233.ent6_0", "type": "protein", "text": [ "Rh" ], "offsets": [ [ 174, 176 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6010" }, { "db_name": "hgnc", "db_id": "RHO" }, { "db_name": "uniprot", "db_id": "P08100" } ] }, { "id": "1.0alpha7.train.1233.ent7_1", "type": "protein", "text": [ "Rh" ], "offsets": [ [ 221, 223 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6010" }, { "db_name": "hgnc", "db_id": "RHO" }, { "db_name": "uniprot", "db_id": "P08100" } ] }, { "id": "1.0alpha7.train.1233.ent8_0", "type": "protein", "text": [ "R175N mutant arrestin" ], "offsets": [ [ 140, 161 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1234
9328714
[ { "id": "1.0alpha7.train.1234.sent", "type": "sentence", "text": [ "Phosphorylation of L1 Y1176 inhibits L1 binding to AP-2" ], "offsets": [ [ 0, 55 ] ] } ]
[ { "id": "1.0alpha7.train.1234.ent0_0", "type": "protein-complex", "text": [ "AP-2" ], "offsets": [ [ 51, 55 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1234.ent1_0", "type": "protein", "text": [ "L1" ], "offsets": [ [ 19, 21 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3897" }, { "db_name": "hgnc", "db_id": "L1CAM" }, { "db_name": "uniprot", "db_id": "P32004" } ] }, { "id": "1.0alpha7.train.1234.ent2_1", "type": "protein", "text": [ "L1" ], "offsets": [ [ 37, 39 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3897" }, { "db_name": "hgnc", "db_id": "L1CAM" }, { "db_name": "uniprot", "db_id": "P32004" } ] } ]
[]
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1.0alpha7.train.1235
9328714
[ { "id": "1.0alpha7.train.1235.sent", "type": "sentence", "text": [ "We have shown previously, using an in vitro peptide competition assay, that the peptide FGEYRSLESDNEE blocks binding of a biotin-labeled TGN38 peptide to AP-2 purified from rat brain (Kamiguchi et al., 1998b)." ], "offsets": [ [ 0, 209 ] ] } ]
[ { "id": "1.0alpha7.train.1235.ent0_0", "type": "protein-complex", "text": [ "AP-2" ], "offsets": [ [ 154, 158 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1235.ent1_0", "type": "peptide", "text": [ "FGEYRSLESDNEE" ], "offsets": [ [ 88, 101 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1235.ent2_0", "type": "protein", "text": [ "TGN38" ], "offsets": [ [ 137, 142 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "10618" }, { "db_name": "hgnc", "db_id": "TGOLN2" }, { "db_name": "uniprot", "db_id": "O43493" } ] } ]
[]
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[ { "id": "1.0alpha7.train.1235.rel0s1.0alpha7.train.1235.ent0_0.o1.0alpha7.train.1235.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1235.ent0_0", "arg2_id": "1.0alpha7.train.1235.ent2_0", "normalized": [] } ]
1.0alpha7.train.1236
2445774
[ { "id": "1.0alpha7.train.1236.sent", "type": "sentence", "text": [ "TAP proteins (21), and their cytosolic ATP binding cassettes (17, 18), bind di- and trinucleotides and are thought to hydrolyze ATP during peptide transport, although direct evidence for ATP hydrolysis by TAP or its fragments has so far not been obtained." ], "offsets": [ [ 0, 255 ] ] } ]
[ { "id": "1.0alpha7.train.1236.ent0_0", "type": "protein-domain", "text": [ "ATP binding cassettes" ], "offsets": [ [ 39, 60 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1236.ent1_0", "type": "protein-family", "text": [ "TAP proteins" ], "offsets": [ [ 0, 12 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1236.ent2_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 39, 42 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1236.ent3_1", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 128, 131 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1236.ent4_2", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 187, 190 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] } ]
[]
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[ { "id": "1.0alpha7.train.1236.rel0s1.0alpha7.train.1236.ent1_0.o1.0alpha7.train.1236.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1236.ent1_0", "arg2_id": "1.0alpha7.train.1236.ent2_0", "normalized": [] }, { "id": "1.0alpha7.train.1236.rel0s1.0alpha7.train.1236.ent1_0.o1.0alpha7.train.1236.ent3_1", "type": "bind", "arg1_id": "1.0alpha7.train.1236.ent1_0", "arg2_id": "1.0alpha7.train.1236.ent3_1", "normalized": [] }, { "id": "1.0alpha7.train.1236.rel0s1.0alpha7.train.1236.ent1_0.o1.0alpha7.train.1236.ent4_2", "type": "bind", "arg1_id": "1.0alpha7.train.1236.ent1_0", "arg2_id": "1.0alpha7.train.1236.ent4_2", "normalized": [] } ]
1.0alpha7.train.1237
19543464
[ { "id": "1.0alpha7.train.1237.sent", "type": "sentence", "text": [ "The next question is whether Jmj binds to the cyclin D1 promoter." ], "offsets": [ [ 0, 68 ] ] } ]
[ { "id": "1.0alpha7.train.1237.ent0_0", "type": "protein", "text": [ "Jmj" ], "offsets": [ [ 30, 33 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3720" }, { "db_name": "hgnc", "db_id": "JARID2" }, { "db_name": "uniprot", "db_id": "Q92833" } ] }, { "id": "1.0alpha7.train.1237.ent1_0", "type": "protein", "text": [ "cyclin D1" ], "offsets": [ [ 49, 58 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "595" }, { "db_name": "hgnc", "db_id": "CCND1" }, { "db_name": "uniprot", "db_id": "P24385" } ] }, { "id": "1.0alpha7.train.1237.ent2_0", "type": "DNA", "text": [ "cyclin D1 promoter" ], "offsets": [ [ 49, 67 ] ], "normalized": [] } ]
[]
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[ { "id": "1.0alpha7.train.1237.rel0s1.0alpha7.train.1237.ent0_0.o1.0alpha7.train.1237.ent2_0", "type": "bind", "arg1_id": "1.0alpha7.train.1237.ent0_0", "arg2_id": "1.0alpha7.train.1237.ent2_0", "normalized": [] } ]
1.0alpha7.train.1238
12587149
[ { "id": "1.0alpha7.train.1238.sent", "type": "sentence", "text": [ "MOR bound to BRM and itself, as was previously reported (Crosby et al. 1999 ), as well as to BAP111, BAP60 and to either BAP47 or BAP45." ], "offsets": [ [ 0, 142 ] ] } ]
[ { "id": "1.0alpha7.train.1238.ent0_0", "type": "protein", "text": [ "BAP45" ], "offsets": [ [ 136, 141 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q24090" } ] }, { "id": "1.0alpha7.train.1238.ent1_0", "type": "protein", "text": [ "BAP47" ], "offsets": [ [ 126, 131 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q7K012" } ] }, { "id": "1.0alpha7.train.1238.ent2_0", "type": "protein", "text": [ "MOR" ], "offsets": [ [ 0, 3 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4988" }, { "db_name": "hgnc", "db_id": "OPRM1" }, { "db_name": "uniprot", "db_id": "P35372" } ] }, { "id": "1.0alpha7.train.1238.ent3_0", "type": "protein", "text": [ "BRM" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6595" }, { "db_name": "hgnc", "db_id": "SMARCA2" }, { "db_name": "uniprot", "db_id": "P51531" } ] }, { "id": "1.0alpha7.train.1238.ent4_0", "type": "protein", "text": [ "BAP111" ], "offsets": [ [ 96, 102 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q9W384" } ] }, { "id": "1.0alpha7.train.1238.ent5_0", "type": "protein", "text": [ "BAP60" ], "offsets": [ [ 105, 110 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q9VYG2" } ] } ]
[]
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1.0alpha7.train.1239
25182784
[ { "id": "1.0alpha7.train.1239.sent", "type": "sentence", "text": [ "CRIPT, a novel postsynaptic protein that binds to the third PDZ domain of PSD-95/SAP90." ], "offsets": [ [ 0, 87 ] ] } ]
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[]
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1.0alpha7.train.1240
7511302
[ { "id": "1.0alpha7.train.1240.sent", "type": "sentence", "text": [ "The ability to gain access to a lesion is facilitated by the binding of pols II ( 74, 75, 76), IV ( 26, 77), and V ( 26) to the beta processivity clamp." ], "offsets": [ [ 0, 158 ] ] } ]
[ { "id": "1.0alpha7.train.1240.ent0_0", "type": "protein-complex", "text": [ "V" ], "offsets": [ [ 118, 119 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1240.ent1_0", "type": "protein-complex", "text": [ "pols II" ], "offsets": [ [ 73, 80 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1240.ent2_0", "type": "protein", "text": [ "beta processivity clamp" ], "offsets": [ [ 134, 157 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1240.ent3_0", "type": "protein-complex", "text": [ "IV" ], "offsets": [ [ 99, 101 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1241
20588868
[ { "id": "1.0alpha7.train.1241.sent", "type": "sentence", "text": [ "[In new window] Inspection of the residues surrounding the deamido-NAD+ moiety (as observed in the bound NAD-ad) reveals a new deamido-NAD+ binding mode." ], "offsets": [ [ 0, 156 ] ] } ]
[ { "id": "1.0alpha7.train.1241.ent0_0", "type": "chemical", "text": [ "deamido-NAD+" ], "offsets": [ [ 60, 72 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "165491" } ] }, { "id": "1.0alpha7.train.1241.ent1_1", "type": "chemical", "text": [ "deamido-NAD+" ], "offsets": [ [ 130, 142 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "165491" } ] }, { "id": "1.0alpha7.train.1241.ent2_0", "type": "chemical", "text": [ "NAD-ad" ], "offsets": [ [ 107, 113 ] ], "normalized": [] } ]
[]
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[]
1.0alpha7.train.1242
6661873
[ { "id": "1.0alpha7.train.1242.sent", "type": "sentence", "text": [ "The GST-Ena8 P → A fusion protein and wild-type GST-Ena pulled down approximately equivalent amounts of chickadee (Fig. 6), suggesting that distinct amino acids may be important for Ena binding to profilin and the Abl-SH3 domain, despite the overlap observed in some of their putative binding sites." ], "offsets": [ [ 0, 299 ] ] } ]
[ { "id": "1.0alpha7.train.1242.ent0_0", "type": "protein", "text": [ "Ena" ], "offsets": [ [ 52, 55 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q8T4F7" } ] }, { "id": "1.0alpha7.train.1242.ent1_1", "type": "protein", "text": [ "Ena" ], "offsets": [ [ 182, 185 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q8T4F7" } ] }, { "id": "1.0alpha7.train.1242.ent2_0", "type": "experimental-construct", "text": [ "GST-Ena8 P → A" ], "offsets": [ [ 4, 18 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1242.ent3_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 4, 7 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1242.ent4_1", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 48, 51 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1242.ent5_0", "type": "protein-family", "text": [ "profilin" ], "offsets": [ [ 197, 205 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR005455" } ] }, { "id": "1.0alpha7.train.1242.ent6_0", "type": "protein-domain", "text": [ "Abl-SH3" ], "offsets": [ [ 214, 221 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1242.ent7_0", "type": "protein", "text": [ "Abl" ], "offsets": [ [ 214, 217 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P00522" } ] }, { "id": "1.0alpha7.train.1242.ent8_0", "type": "protein", "text": [ "chickadee" ], "offsets": [ [ 104, 113 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P25843" } ] }, { "id": "1.0alpha7.train.1242.ent9_0", "type": "protein", "text": [ "Ena8 P → A" ], "offsets": [ [ 8, 18 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1243
11661122
[ { "id": "1.0alpha7.train.1243.sent", "type": "sentence", "text": [ "Since binding of NorpA to InaD is critical for phototransduction, we were interested in elucidating the structural determinants of NorpA - InaD interaction through the structure of InaD PDZ1 in complex with the C-terminus of NorpA." ], "offsets": [ [ 0, 236 ] ] } ]
[ { "id": "1.0alpha7.train.1243.ent0_0", "type": "protein", "text": [ "NorpA" ], "offsets": [ [ 18, 23 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P13217" } ] }, { "id": "1.0alpha7.train.1243.ent1_1", "type": "protein", "text": [ "NorpA" ], "offsets": [ [ 134, 139 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P13217" } ] }, { "id": "1.0alpha7.train.1243.ent2_2", "type": "protein", "text": [ "NorpA" ], "offsets": [ [ 230, 235 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P13217" } ] }, { "id": "1.0alpha7.train.1243.ent3_0", "type": "protein", "text": [ "InaD" ], "offsets": [ [ 28, 32 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q24008" } ] }, { "id": "1.0alpha7.train.1243.ent4_1", "type": "protein", "text": [ "InaD" ], "offsets": [ [ 142, 146 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q24008" } ] }, { "id": "1.0alpha7.train.1243.ent5_2", "type": "protein", "text": [ "InaD" ], "offsets": [ [ 185, 189 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q24008" } ] }, { "id": "1.0alpha7.train.1243.ent6_0", "type": "protein-domain", "text": [ "PDZ1" ], "offsets": [ [ 190, 194 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1244
3438085
[ { "id": "1.0alpha7.train.1244.sent", "type": "sentence", "text": [ "However, following treatment of GFP-overexpressing cells with 100 ng/ml EGF for 2 min, a dramatic increase in Ras binding to GST-Raf-1 was observed, indicative of an increase in the cellular levels of the GTP-bound form of Ras (Fig. 1 A)." ], "offsets": [ [ 0, 245 ] ] } ]
[ { "id": "1.0alpha7.train.1244.ent0_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 129, 132 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent1_0", "type": "experiment-tag", "text": [ "GFP" ], "offsets": [ [ 33, 36 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent2_0", "type": "chemical", "text": [ "GTP" ], "offsets": [ [ 210, 213 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "135398633" } ] }, { "id": "1.0alpha7.train.1244.ent3_0", "type": "protein-family", "text": [ "Ras" ], "offsets": [ [ 113, 116 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent4_1", "type": "protein-family", "text": [ "Ras" ], "offsets": [ [ 229, 232 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent5_0", "type": "protein", "text": [ "GTP-bound form of Ras" ], "offsets": [ [ 210, 232 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent6_0", "type": "protein", "text": [ "Raf-1" ], "offsets": [ [ 133, 138 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent7_0", "type": "experimental-construct", "text": [ "GST-Raf-1" ], "offsets": [ [ 129, 138 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1244.ent8_0", "type": "protein", "text": [ "EGF" ], "offsets": [ [ 74, 77 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1950" }, { "db_name": "hgnc", "db_id": "EGF" }, { "db_name": "uniprot", "db_id": "P01133" } ] } ]
[]
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1.0alpha7.train.1245
5071898
[ { "id": "1.0alpha7.train.1245.sent", "type": "sentence", "text": [ "C, increase of AP-1 binding activity by ad-MKK6 in MCF/Vect but not in MCF/Tam cells." ], "offsets": [ [ 0, 88 ] ] } ]
[ { "id": "1.0alpha7.train.1245.ent0_0", "type": "protein-complex", "text": [ "AP-1" ], "offsets": [ [ 16, 20 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1245.ent1_0", "type": "cell", "text": [ "MCF/Vect" ], "offsets": [ [ 53, 61 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1245.ent2_0", "type": "protein", "text": [ "ad-MKK6" ], "offsets": [ [ 41, 48 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1245.ent3_0", "type": "cell", "text": [ "MCF/Tam" ], "offsets": [ [ 74, 81 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1246
22191798
[ { "id": "1.0alpha7.train.1246.sent", "type": "sentence", "text": [ "The Km values for EGFR peptide and GST-ATF2 binding to activated p38 at saturating ATP were similar, 313 and 254 M, respectively ( Table 1)." ], "offsets": [ [ 0, 148 ] ] } ]
[ { "id": "1.0alpha7.train.1246.ent0_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 39, 42 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1246.ent1_0", "type": "experimental-construct", "text": [ "GST-ATF2" ], "offsets": [ [ 39, 47 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1246.ent2_0", "type": "protein", "text": [ "EGFR" ], "offsets": [ [ 21, 25 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1956" }, { "db_name": "hgnc", "db_id": "EGFR" }, { "db_name": "uniprot", "db_id": "P00533" } ] }, { "id": "1.0alpha7.train.1246.ent3_0", "type": "protein-family", "text": [ "p38" ], "offsets": [ [ 70, 73 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR008352" } ] }, { "id": "1.0alpha7.train.1246.ent4_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 90, 93 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1246.ent5_0", "type": "protein", "text": [ "ATF2" ], "offsets": [ [ 43, 47 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1386" }, { "db_name": "hgnc", "db_id": "ATF2" }, { "db_name": "uniprot", "db_id": "P15336" } ] } ]
[]
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1.0alpha7.train.1247
3960847
[ { "id": "1.0alpha7.train.1247.sent", "type": "sentence", "text": [ "GI domain-binding region of GCN1 and mutations abolishing interaction." ], "offsets": [ [ 0, 71 ] ] } ]
[ { "id": "1.0alpha7.train.1247.ent0_0", "type": "protein", "text": [ "GCN1" ], "offsets": [ [ 29, 33 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "10985" }, { "db_name": "hgnc", "db_id": "GCN1" } ] }, { "id": "1.0alpha7.train.1247.ent1_0", "type": "protein-domain", "text": [ "GI" ], "offsets": [ [ 0, 2 ] ], "normalized": [] } ]
[]
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[]
1.0alpha7.train.1248
15178706
[ { "id": "1.0alpha7.train.1248.sent", "type": "sentence", "text": [ "This interaction is mutually exclusive (Fig. 1E and F), suggesting that the binding of SAF-A and p300 may be disrupted in adenovirus-transformed cell lines." ], "offsets": [ [ 0, 160 ] ] } ]
[ { "id": "1.0alpha7.train.1248.ent0_0", "type": "protein", "text": [ "SAF-A" ], "offsets": [ [ 89, 94 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3192" }, { "db_name": "hgnc", "db_id": "HNRNPU" }, { "db_name": "uniprot", "db_id": "Q00839" } ] }, { "id": "1.0alpha7.train.1248.ent1_0", "type": "cell", "text": [ "adenovirus-transformed cell lines" ], "offsets": [ [ 126, 159 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1248.ent2_0", "type": "protein", "text": [ "p300" ], "offsets": [ [ 100, 104 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2033" }, { "db_name": "hgnc", "db_id": "EP300" }, { "db_name": "uniprot", "db_id": "Q09472" } ] } ]
[]
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1.0alpha7.train.1249
15820886
[ { "id": "1.0alpha7.train.1249.sent", "type": "sentence", "text": [ "To investigate whether the binding of E1A to p300 correlates with a loss of p300 transcriptional activity, we examined the binding of full-length E1A to the series of mutant p300 proteins." ], "offsets": [ [ 0, 193 ] ] } ]
[ { "id": "1.0alpha7.train.1249.ent0_0", "type": "protein", "text": [ "E1A" ], "offsets": [ [ 39, 42 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P03255" } ] }, { "id": "1.0alpha7.train.1249.ent1_1", "type": "protein", "text": [ "E1A" ], "offsets": [ [ 150, 153 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "P03255" } ] }, { "id": "1.0alpha7.train.1249.ent2_0", "type": "protein", "text": [ "p300" ], "offsets": [ [ 47, 51 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2033" }, { "db_name": "hgnc", "db_id": "EP300" }, { "db_name": "uniprot", "db_id": "Q09472" } ] }, { "id": "1.0alpha7.train.1249.ent3_1", "type": "protein", "text": [ "p300" ], "offsets": [ [ 79, 83 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2033" }, { "db_name": "hgnc", "db_id": "EP300" }, { "db_name": "uniprot", "db_id": "Q09472" } ] }, { "id": "1.0alpha7.train.1249.ent4_2", "type": "protein", "text": [ "p300" ], "offsets": [ [ 179, 183 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2033" }, { "db_name": "hgnc", "db_id": "EP300" }, { "db_name": "uniprot", "db_id": "Q09472" } ] } ]
[]
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1.0alpha7.train.1250
11246712
[ { "id": "1.0alpha7.train.1250.sent", "type": "sentence", "text": [ "First, gel-shift analysis shows that bacterially expressed Xvent-1 homeodomain binds to the labelled BIE fragment in a concentration-dependent manner, with higher protein concentrations leading to the formation of oligomers (Figure 4A)." ], "offsets": [ [ 0, 239 ] ] } ]
[ { "id": "1.0alpha7.train.1250.ent0_0", "type": "protein", "text": [ "Xvent-1" ], "offsets": [ [ 60, 67 ] ], "normalized": [ { "db_name": "uniprot", "db_id": "Q91926" } ] }, { "id": "1.0alpha7.train.1250.ent1_0", "type": "DNA", "text": [ "BIE" ], "offsets": [ [ 103, 106 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1251
9579260
[ { "id": "1.0alpha7.train.1251.sent", "type": "sentence", "text": [ "From the data described above, we hypothesized that PS1 somehow promotes translocation of the QM protein from the cytoplasm to the nucleus, inhibits the binding of c-Jun homodimer to TRE, and thereby suppresses transactivation by c-jun." ], "offsets": [ [ 0, 236 ] ] } ]
[ { "id": "1.0alpha7.train.1251.ent0_0", "type": "DNA", "text": [ "TRE" ], "offsets": [ [ 183, 186 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1251.ent1_0", "type": "protein-complex", "text": [ "c-Jun homodimer" ], "offsets": [ [ 164, 179 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1251.ent2_0", "type": "protein", "text": [ "PS1" ], "offsets": [ [ 52, 55 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5663" }, { "db_name": "hgnc", "db_id": "PSEN1" }, { "db_name": "uniprot", "db_id": "P49768" } ] }, { "id": "1.0alpha7.train.1251.ent3_0", "type": "protein", "text": [ "QM" ], "offsets": [ [ 94, 96 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1251.ent4_0", "type": "protein", "text": [ "c-Jun" ], "offsets": [ [ 164, 169 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "3725" }, { "db_name": "hgnc", "db_id": "JUN" }, { "db_name": "uniprot", "db_id": "P05412" } ] } ]
[]
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1.0alpha7.train.1252
9847948
[ { "id": "1.0alpha7.train.1252.sent", "type": "sentence", "text": [ "They provide evidence that LRP binds CRT and that hep I, CRT, and LRP form molecular complexes in cells." ], "offsets": [ [ 0, 108 ] ] } ]
[ { "id": "1.0alpha7.train.1252.ent0_0", "type": "protein-family", "text": [ "LRP" ], "offsets": [ [ 28, 31 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR019330" } ] }, { "id": "1.0alpha7.train.1252.ent1_1", "type": "protein-family", "text": [ "LRP" ], "offsets": [ [ 70, 73 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR019330" } ] }, { "id": "1.0alpha7.train.1252.ent2_0", "type": "peptide", "text": [ "hep I" ], "offsets": [ [ 52, 57 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1252.ent3_0", "type": "protein-complex", "text": [ "molecular complexes" ], "offsets": [ [ 79, 98 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1252.ent4_0", "type": "protein", "text": [ "CRT" ], "offsets": [ [ 39, 42 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "811" }, { "db_name": "hgnc", "db_id": "CALR" }, { "db_name": "uniprot", "db_id": "P27797" } ] }, { "id": "1.0alpha7.train.1252.ent5_1", "type": "protein", "text": [ "CRT" ], "offsets": [ [ 60, 63 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "811" }, { "db_name": "hgnc", "db_id": "CALR" }, { "db_name": "uniprot", "db_id": "P27797" } ] } ]
[]
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1.0alpha7.train.1253
7066238
[ { "id": "1.0alpha7.train.1253.sent", "type": "sentence", "text": [ "Binding of the TBP subunit of TFIID in the minor groove nucleates assembly of the pol II transcription machinery for TATA-containing genes ( 25-27)." ], "offsets": [ [ 0, 151 ] ] } ]
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[]
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[]
1.0alpha7.train.1254
795521
[ { "id": "1.0alpha7.train.1254.sent", "type": "sentence", "text": [ "Furthermore, p62 bound to Ub-Sepharose was eluted completely either by SDS sample buffer or by 1 M KCl in Tris buffer, pH 9.0, both under nonreducing conditions (Fig. 2 B, lanes 6-8)." ], "offsets": [ [ 0, 189 ] ] } ]
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[]
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1.0alpha7.train.1255
2841329
[ { "id": "1.0alpha7.train.1255.sent", "type": "sentence", "text": [ "The results indicate that binding of U2AF-65 kDa to the dsx pre-mRNA is not dependent on the ESE." ], "offsets": [ [ 0, 99 ] ] } ]
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[]
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1.0alpha7.train.1256
23409527
[ { "id": "1.0alpha7.train.1256.sent", "type": "sentence", "text": [ "The ability of STNB to directly bind to SYT was confirmed by the STNB-GST pull-downs showing that the mu2-homology domain of STNB can bind to the C2B domain of SYTI independently of Ca2+." ], "offsets": [ [ 0, 194 ] ] } ]
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[]
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1.0alpha7.train.1257
4976845
[ { "id": "1.0alpha7.train.1257.sent", "type": "sentence", "text": [ "However, our findings suggest the possibility that microtubules may be formed and maintained in the nerve terminal by synaptotagmin I binding to tubulin." ], "offsets": [ [ 0, 155 ] ] } ]
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[]
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1.0alpha7.train.1258
2221680
[ { "id": "1.0alpha7.train.1258.sent", "type": "sentence", "text": [ "The adenylated Alu RNA as well as adenylated SRP RNA were bound to the SRP 9/14-kDa heterodimer and were immunoprecipitated by specific antibodies." ], "offsets": [ [ 0, 150 ] ] } ]
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[]
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1.0alpha7.train.1259
1937000
[ { "id": "1.0alpha7.train.1259.sent", "type": "sentence", "text": [ "With one notable exception (p95.3; see below), the rotational constructs designed to create competition between binding of HSF and histone H2A-H2B dimers were 2-3-fold less active than the nucleosome-free p41.3 control (Fig. 2)." ], "offsets": [ [ 0, 231 ] ] } ]
[ { "id": "1.0alpha7.train.1259.ent0_0", "type": "protein-family", "text": [ "H2A" ], "offsets": [ [ 141, 144 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR002119" } ] }, { "id": "1.0alpha7.train.1259.ent1_0", "type": "protein-complex", "text": [ "H2A-H2B" ], "offsets": [ [ 141, 148 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1259.ent2_0", "type": "protein-family", "text": [ "HSF" ], "offsets": [ [ 124, 127 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000232" } ] }, { "id": "1.0alpha7.train.1259.ent3_0", "type": "protein-family", "text": [ "H2B" ], "offsets": [ [ 145, 148 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR000558" } ] } ]
[]
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1.0alpha7.train.1260
15388587
[ { "id": "1.0alpha7.train.1260.sent", "type": "sentence", "text": [ "Our data demonstrate that CUGBP1 binds to GCN repeats located in the 5 region of p21 mRNA and induces the production of p21 in a cell-free translation system and in cultured cells." ], "offsets": [ [ 0, 184 ] ] } ]
[ { "id": "1.0alpha7.train.1260.ent0_0", "type": "gene", "text": [ "p21" ], "offsets": [ [ 84, 87 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1026" }, { "db_name": "hgnc", "db_id": "CDKN1A" } ] }, { "id": "1.0alpha7.train.1260.ent1_1", "type": "gene", "text": [ "p21" ], "offsets": [ [ 124, 127 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1026" }, { "db_name": "hgnc", "db_id": "CDKN1A" } ] }, { "id": "1.0alpha7.train.1260.ent2_0", "type": "RNA", "text": [ "GCN repeats" ], "offsets": [ [ 44, 55 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1260.ent3_0", "type": "protein", "text": [ "CUGBP1" ], "offsets": [ [ 27, 33 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "10658" }, { "db_name": "hgnc", "db_id": "CELF1" }, { "db_name": "uniprot", "db_id": "Q92879" } ] }, { "id": "1.0alpha7.train.1260.ent4_0", "type": "RNA", "text": [ "p21 mRNA" ], "offsets": [ [ 84, 92 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1261
12993353
[ { "id": "1.0alpha7.train.1261.sent", "type": "sentence", "text": [ "CHAN, S. K., L. JAFFE, M. CAPOVILLA, J. BOTAS, and R. S. MANN, 1994 The DNA binding specificity of Ultrabithorax is modulated by cooperative interactions with extradenticle, another homeoprotein." ], "offsets": [ [ 0, 201 ] ] } ]
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[]
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1.0alpha7.train.1262
2853990
[ { "id": "1.0alpha7.train.1262.sent", "type": "sentence", "text": [ "A construct lacking the carboxyl-terminal domain, which comprises two PDZ domains (N + PI), enhances PI binding to APP, whereas another construct lacking an amino-terminal domain relative to PI domain (PI + C) suppresses PI binding to APP." ], "offsets": [ [ 0, 243 ] ] } ]
[ { "id": "1.0alpha7.train.1262.ent0_0", "type": "protein", "text": [ "APP" ], "offsets": [ [ 117, 120 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "351" }, { "db_name": "hgnc", "db_id": "APP" } ] }, { "id": "1.0alpha7.train.1262.ent1_1", "type": "protein", "text": [ "APP" ], "offsets": [ [ 239, 242 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "351" }, { "db_name": "hgnc", "db_id": "APP" } ] }, { "id": "1.0alpha7.train.1262.ent2_0", "type": "protein-domain", "text": [ "PI" ], "offsets": [ [ 88, 90 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent3_1", "type": "protein-domain", "text": [ "PI" ], "offsets": [ [ 102, 104 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent4_2", "type": "protein-domain", "text": [ "PI" ], "offsets": [ [ 194, 196 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent5_3", "type": "protein-domain", "text": [ "PI" ], "offsets": [ [ 205, 207 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent6_4", "type": "protein-domain", "text": [ "PI" ], "offsets": [ [ 224, 226 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent7_0", "type": "experimental-construct", "text": [ "(PI + C)" ], "offsets": [ [ 204, 212 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent8_0", "type": "experimental-construct", "text": [ "(N + PI)" ], "offsets": [ [ 83, 91 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1262.ent9_0", "type": "protein-domain", "text": [ "PDZ" ], "offsets": [ [ 71, 74 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001478" } ] } ]
[]
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1.0alpha7.train.1263
3806927
[ { "id": "1.0alpha7.train.1263.sent", "type": "sentence", "text": [ "In Vitro Characterization of SRF Binding to TEF-1" ], "offsets": [ [ 0, 49 ] ] } ]
[ { "id": "1.0alpha7.train.1263.ent0_0", "type": "protein", "text": [ "TEF-1" ], "offsets": [ [ 44, 49 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "7003" }, { "db_name": "hgnc", "db_id": "TEAD1" }, { "db_name": "uniprot", "db_id": "P28347" } ] }, { "id": "1.0alpha7.train.1263.ent1_0", "type": "protein", "text": [ "SRF" ], "offsets": [ [ 29, 32 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6722" }, { "db_name": "hgnc", "db_id": "SRF" }, { "db_name": "uniprot", "db_id": "P11831" } ] } ]
[]
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1.0alpha7.train.1264
6906196
[ { "id": "1.0alpha7.train.1264.sent", "type": "sentence", "text": [ "To determine whether binding of U1 snRNP to the dsx pre-mRNA and factors to the ESE are independent or interdependent events required for the recruitment of SRm160/300, the ability of U1 snRNP to bind to the three dsx pre-mRNAs was analyzed by using a splicing complex affinity-selection assay (Fig. 3A; ref. 33). " ], "offsets": [ [ 0, 314 ] ] } ]
[ { "id": "1.0alpha7.train.1264.ent0_0", "type": "RNA", "text": [ "dsx pre-mRNA" ], "offsets": [ [ 48, 60 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent1_0", "type": "gene", "text": [ "dsx" ], "offsets": [ [ 48, 51 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent2_1", "type": "gene", "text": [ "dsx" ], "offsets": [ [ 214, 217 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent3_0", "type": "protein-RNA-complex", "text": [ "U1 snRNP" ], "offsets": [ [ 32, 40 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent4_1", "type": "protein-RNA-complex", "text": [ "U1 snRNP" ], "offsets": [ [ 184, 192 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent5_0", "type": "protein", "text": [ "300" ], "offsets": [ [ 164, 167 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent6_0", "type": "protein-complex", "text": [ "SRm160/300" ], "offsets": [ [ 157, 167 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1264.ent7_0", "type": "protein", "text": [ "SRm160" ], "offsets": [ [ 157, 163 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "10250" }, { "db_name": "hgnc", "db_id": "SRRM1" }, { "db_name": "uniprot", "db_id": "Q8IYB3" } ] }, { "id": "1.0alpha7.train.1264.ent8_0", "type": "DNA", "text": [ "ESE" ], "offsets": [ [ 80, 83 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1265
22317757
[ { "id": "1.0alpha7.train.1265.sent", "type": "sentence", "text": [ "In the presence of the fibronectin-like domain, which binds tightly to both collagen and gelatin [15], [16], [19], further breakdown of the 1/4 and 3/4 fragments occurs, even at 25°C, which is generally regarded as insufficient to denature the 3/4 fragment." ], "offsets": [ [ 0, 257 ] ] } ]
[ { "id": "1.0alpha7.train.1265.ent0_0", "type": "protein-family", "text": [ "gelatin" ], "offsets": [ [ 89, 96 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1265.ent1_0", "type": "protein", "text": [ "fibronectin" ], "offsets": [ [ 23, 34 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2335" }, { "db_name": "hgnc", "db_id": "FN1" }, { "db_name": "uniprot", "db_id": "P02751" } ] }, { "id": "1.0alpha7.train.1265.ent2_0", "type": "protein-family", "text": [ "collagen" ], "offsets": [ [ 76, 84 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1265.ent3_0", "type": "protein-domain", "text": [ "fibronectin-like domain" ], "offsets": [ [ 23, 46 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1266
888045
[ { "id": "1.0alpha7.train.1266.sent", "type": "sentence", "text": [ "Phosphorylation by PKA, but not PKC, reduced the affinity of adducin for spectrin-F-actin complexes as well as the activity of adducin in promoting binding of spectrin to F-actin." ], "offsets": [ [ 0, 186 ] ] } ]
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[]
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1.0alpha7.train.1267
5164945
[ { "id": "1.0alpha7.train.1267.sent", "type": "sentence", "text": [ "Therefore, the repression by the C-tail of E-cadherin binding to the armadillo domain is modulated by the N terminus." ], "offsets": [ [ 0, 119 ] ] } ]
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[]
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1.0alpha7.train.1268
25150857
[ { "id": "1.0alpha7.train.1268.sent", "type": "sentence", "text": [ "Sulfhydryl Alkylation by NEM Inhibits Binding of n-sec1 to Syntaxin 1a" ], "offsets": [ [ 0, 70 ] ] } ]
[ { "id": "1.0alpha7.train.1268.ent0_0", "type": "protein", "text": [ "Syntaxin 1a" ], "offsets": [ [ 59, 70 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6804" }, { "db_name": "hgnc", "db_id": "STX1A" }, { "db_name": "uniprot", "db_id": "Q16623" } ] }, { "id": "1.0alpha7.train.1268.ent1_0", "type": "chemical", "text": [ "NEM" ], "offsets": [ [ 25, 28 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1268.ent2_0", "type": "protein", "text": [ "n-sec1" ], "offsets": [ [ 49, 55 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6812" }, { "db_name": "hgnc", "db_id": "STXBP1" }, { "db_name": "uniprot", "db_id": "P61764" } ] } ]
[]
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1.0alpha7.train.1269
5378815
[ { "id": "1.0alpha7.train.1269.sent", "type": "sentence", "text": [ "These findings suggest that the actin binding region of spinophilin contains at least two distinct recognition sites for actin." ], "offsets": [ [ 0, 130 ] ] } ]
[ { "id": "1.0alpha7.train.1269.ent0_0", "type": "protein", "text": [ "actin" ], "offsets": [ [ 33, 38 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] }, { "id": "1.0alpha7.train.1269.ent1_1", "type": "protein", "text": [ "actin" ], "offsets": [ [ 124, 129 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] }, { "id": "1.0alpha7.train.1269.ent2_0", "type": "protein", "text": [ "spinophilin" ], "offsets": [ [ 58, 69 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1270
1544640
[ { "id": "1.0alpha7.train.1270.sent", "type": "sentence", "text": [ "The sites of PKC phosphorylation appeared to be within the N terminus of fascin, because the C-terminal actin binding fragment did not contain 32P radioactivity when phosphorylated fascin was digested by trypsin as described above." ], "offsets": [ [ 0, 236 ] ] } ]
[ { "id": "1.0alpha7.train.1270.ent0_0", "type": "protein-family", "text": [ "PKC" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR014375" } ] }, { "id": "1.0alpha7.train.1270.ent1_0", "type": "protein", "text": [ "fascin" ], "offsets": [ [ 75, 81 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6624" }, { "db_name": "hgnc", "db_id": "FSCN1" }, { "db_name": "uniprot", "db_id": "C9JPH9" } ] }, { "id": "1.0alpha7.train.1270.ent2_1", "type": "protein", "text": [ "fascin" ], "offsets": [ [ 185, 191 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6624" }, { "db_name": "hgnc", "db_id": "FSCN1" }, { "db_name": "uniprot", "db_id": "C9JPH9" } ] }, { "id": "1.0alpha7.train.1270.ent3_0", "type": "protein", "text": [ "actin" ], "offsets": [ [ 107, 112 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] }, { "id": "1.0alpha7.train.1270.ent4_0", "type": "protein", "text": [ "trypsin" ], "offsets": [ [ 209, 216 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5644" }, { "db_name": "hgnc", "db_id": "PRSS1" }, { "db_name": "uniprot", "db_id": "P07477" } ] } ]
[]
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1.0alpha7.train.1271
22415269
[ { "id": "1.0alpha7.train.1271.sent", "type": "sentence", "text": [ "Recombinant p54nrb/NonO was then shown to bind to a CA inhibitor affinity chromatography matrix that normally binds the different types of CAs." ], "offsets": [ [ 0, 146 ] ] } ]
[ { "id": "1.0alpha7.train.1271.ent0_0", "type": "protein", "text": [ "NonO" ], "offsets": [ [ 20, 24 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4841" }, { "db_name": "hgnc", "db_id": "NONO" }, { "db_name": "uniprot", "db_id": "Q15233" } ] }, { "id": "1.0alpha7.train.1271.ent1_0", "type": "protein", "text": [ "p54nrb" ], "offsets": [ [ 13, 19 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4841" }, { "db_name": "hgnc", "db_id": "NONO" }, { "db_name": "uniprot", "db_id": "Q15233" } ] }, { "id": "1.0alpha7.train.1271.ent2_0", "type": "protein-family", "text": [ "CA" ], "offsets": [ [ 54, 56 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1271.ent3_0", "type": "protein", "text": [ "p54nrb/NonO" ], "offsets": [ [ 13, 24 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4841" }, { "db_name": "hgnc", "db_id": "NONO" }, { "db_name": "uniprot", "db_id": "Q15233" } ] }, { "id": "1.0alpha7.train.1271.ent4_0", "type": "reagent", "text": [ "CA inhibitor" ], "offsets": [ [ 54, 66 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1272
4077383
[ { "id": "1.0alpha7.train.1272.sent", "type": "sentence", "text": [ "To evaluate the involvement of positively charged amino acid residues in loops 37, 60, and 70 in the binding of heparin to APC, five protein C variants were constructed by site-directed mutagenesis (Fig.1)." ], "offsets": [ [ 0, 206 ] ] } ]
[ { "id": "1.0alpha7.train.1272.ent0_0", "type": "chemical", "text": [ "heparin" ], "offsets": [ [ 112, 119 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "772" } ] }, { "id": "1.0alpha7.train.1272.ent1_0", "type": "protein", "text": [ "APC" ], "offsets": [ [ 123, 126 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "324" }, { "db_name": "hgnc", "db_id": "APC" } ] }, { "id": "1.0alpha7.train.1272.ent2_0", "type": "protein", "text": [ "protein C" ], "offsets": [ [ 133, 142 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "5624" }, { "db_name": "hgnc", "db_id": "PROC" }, { "db_name": "uniprot", "db_id": "P04070" } ] } ]
[]
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1.0alpha7.train.1273
9486059
[ { "id": "1.0alpha7.train.1273.sent", "type": "sentence", "text": [ "The requirement for repeat four in actin binding was directly examined using FLAG-full-lengthdelta4, where removal of repeat four eliminated the binding of cortactin to F-actin ( Fig 4 D)." ], "offsets": [ [ 0, 192 ] ] } ]
[ { "id": "1.0alpha7.train.1273.ent0_0", "type": "experimental-construct", "text": [ "FLAG-full-lengthdelta4" ], "offsets": [ [ 79, 101 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1273.ent1_0", "type": "protein", "text": [ "F-actin" ], "offsets": [ [ 173, 180 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1273.ent2_0", "type": "experiment-tag", "text": [ "FLAG" ], "offsets": [ [ 79, 83 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1273.ent3_0", "type": "protein", "text": [ "cortactin" ], "offsets": [ [ 159, 168 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "2017" }, { "db_name": "hgnc", "db_id": "CTTN" }, { "db_name": "uniprot", "db_id": "Q14247" } ] }, { "id": "1.0alpha7.train.1273.ent4_0", "type": "protein", "text": [ "full-lengthdelta4" ], "offsets": [ [ 84, 101 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1273.ent5_0", "type": "protein", "text": [ "actin" ], "offsets": [ [ 36, 41 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] }, { "id": "1.0alpha7.train.1273.ent6_1", "type": "protein", "text": [ "actin" ], "offsets": [ [ 175, 180 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] } ]
[]
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1.0alpha7.train.1274
12790018
[ { "id": "1.0alpha7.train.1274.sent", "type": "sentence", "text": [ "Binding appeared to be specific, as it was not competed by large amounts of nonspecific competitor RNA, and a precleaved substrate RNA did not bind CF I." ], "offsets": [ [ 0, 154 ] ] } ]
[ { "id": "1.0alpha7.train.1274.ent0_0", "type": "protein", "text": [ "CF I" ], "offsets": [ [ 149, 153 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1274.ent1_0", "type": "RNA", "text": [ "precleaved substrate RNA" ], "offsets": [ [ 110, 134 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1274.ent2_0", "type": "RNA", "text": [ "nonspecific competitor RNA" ], "offsets": [ [ 76, 102 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1274.coref0", "entity_ids": [ "1.0alpha7.train.1274.ent0_0" ] }, { "id": "1.0alpha7.train.1274.coref1", "entity_ids": [ "1.0alpha7.train.1274.ent1_0" ] }, { "id": "1.0alpha7.train.1274.coref2", "entity_ids": [ "1.0alpha7.train.1274.ent2_0" ] } ]
[]
1.0alpha7.train.1275
8864622
[ { "id": "1.0alpha7.train.1275.sent", "type": "sentence", "text": [ "Total DB[a,l]PDE-DNA binding in MCF-7 cells after exposure to (A) 0.01 μM and (B) 0.05 μM (+)-syn- or (-)-anti-DB[a,l]PDE for the times indicated. " ], "offsets": [ [ 0, 147 ] ] } ]
[ { "id": "1.0alpha7.train.1275.ent0_0", "type": "chemical", "text": [ "DB[a,l]PDE" ], "offsets": [ [ 6, 16 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1275.ent1_1", "type": "chemical", "text": [ "DB[a,l]PDE" ], "offsets": [ [ 111, 121 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1275.ent2_0", "type": "cell", "text": [ "MCF-7" ], "offsets": [ [ 32, 37 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1275.ent3_0", "type": "DNA", "text": [ "DNA" ], "offsets": [ [ 17, 20 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "25782" }, { "db_name": "hgnc", "db_id": "RAB3GAP2" }, { "db_name": "uniprot", "db_id": "Q9H2M9" } ] } ]
[]
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1.0alpha7.train.1276
12017934
[ { "id": "1.0alpha7.train.1276.sent", "type": "sentence", "text": [ "Therefore, we will consider the differences between the GppNHp-bound RalA structure complexed with Sec5 and the GDP-bound RalA structure to be primarily caused by the difference in nucleotide state rather than caused by binding of Sec5 to RalA." ], "offsets": [ [ 0, 249 ] ] } ]
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[]
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1.0alpha7.train.1277
3796429
[ { "id": "1.0alpha7.train.1277.sent", "type": "sentence", "text": [ "These analyses were complemented by DNase I footprint analyses, wherein HMG-I(Y) increased PU.1 binding to the μB site (Fig. 2 D, compare lanes 3 and4) as evidenced by formation of a DNase I-hypersensitive site (arrow) characteristic of PU.1 binding μB at high PU.1 concentrations (lane 2)." ], "offsets": [ [ 0, 290 ] ] } ]
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[]
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1.0alpha7.train.1278
19523603
[ { "id": "1.0alpha7.train.1278.sent", "type": "sentence", "text": [ "Newer probes, designated Raichu-Rac and Raichu-Cdc42, consist of a Cdc42 and Rac binding domain of PAK, Rac1, or Cdc42, a pair of green fluorescent protein mutants, and a membrane binding CAAX box of Ki-Ras." ], "offsets": [ [ 0, 217 ] ] } ]
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[]
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"1.0alpha7.train.1278.ent11_2", "arg2_id": "1.0alpha7.train.1278.ent9_0", "normalized": [] }, { "id": "1.0alpha7.train.1278.rel5s1.0alpha7.train.1278.ent11_2.o1.0alpha7.train.1278.ent10_1", "type": "bind", "arg1_id": "1.0alpha7.train.1278.ent11_2", "arg2_id": "1.0alpha7.train.1278.ent10_1", "normalized": [] }, { "id": "1.0alpha7.train.1278.rel5s1.0alpha7.train.1278.ent11_2.o1.0alpha7.train.1278.ent11_2", "type": "bind", "arg1_id": "1.0alpha7.train.1278.ent11_2", "arg2_id": "1.0alpha7.train.1278.ent11_2", "normalized": [] } ]
1.0alpha7.train.1279
16288521
[ { "id": "1.0alpha7.train.1279.sent", "type": "sentence", "text": [ "In the absence of phosphatase inhibitors, ATP was not sufficient to produce a significant mobility shift of the amphiphysins in SDS-polyacrylamide gel electrophoresis (SDS-PAGE) and a corresponding inhibition of the binding of dynamin to amphiphysin (Fig. 3C). " ], "offsets": [ [ 0, 261 ] ] } ]
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[]
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1.0alpha7.train.1280
11794196
[ { "id": "1.0alpha7.train.1280.sent", "type": "sentence", "text": [ "As shown in Figure 7, while both TR and v-ErbA can bind to TBP, v-ErbA is moderately impaired in direct binding to TFIIB in an in vitro (Figure 6B) and an in vivo assay (Figure 7C)." ], "offsets": [ [ 0, 191 ] ] } ]
[ { "id": "1.0alpha7.train.1280.ent0_0", "type": "protein", "text": [ "TBP" ], "offsets": [ [ 63, 66 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6908" }, { "db_name": "hgnc", "db_id": "TBP" }, { "db_name": "uniprot", "db_id": "P20226" } ] }, { "id": "1.0alpha7.train.1280.ent1_0", "type": "protein", "text": [ "v-ErbA" ], "offsets": [ [ 43, 49 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1280.ent2_1", "type": "protein", "text": [ "v-ErbA" ], "offsets": [ [ 69, 75 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1280.ent3_0", "type": "protein", "text": [ "TR" ], "offsets": [ [ 35, 37 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1280.ent4_0", "type": "protein-complex", "text": [ "TFIIB" ], "offsets": [ [ 121, 126 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1281
9509284
[ { "id": "1.0alpha7.train.1281.sent", "type": "sentence", "text": [ "The structural homology between the ankyrin binding domain of Tiam1 (the sequence between amino acids 717 and 727) and CD44 is quite striking ( Lokeshwar et al. 1994 )." ], "offsets": [ [ 0, 173 ] ] } ]
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[]
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1.0alpha7.train.1282
54807
[ { "id": "1.0alpha7.train.1282.sent", "type": "sentence", "text": [ "At 0.085 ionic strength, tropomyosin remained bound to the actin at the very low concentrations employed in the motility assay, provided that the proteins were premixed at 10× assay concentration (100 nM of each) and then diluted immediately prior to infusion into the flow cell." ], "offsets": [ [ 0, 279 ] ] } ]
[ { "id": "1.0alpha7.train.1282.ent0_0", "type": "protein", "text": [ "actin" ], "offsets": [ [ 59, 64 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "58" }, { "db_name": "hgnc", "db_id": "ACTA1" }, { "db_name": "uniprot", "db_id": "P68133" } ] }, { "id": "1.0alpha7.train.1282.ent1_0", "type": "protein-family", "text": [ "tropomyosin" ], "offsets": [ [ 25, 36 ] ], "normalized": [ { "db_name": "pfam", "db_id": "PF00261" } ] } ]
[]
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1.0alpha7.train.1283
25375275
[ { "id": "1.0alpha7.train.1283.sent", "type": "sentence", "text": [ "EMSAs showing VRI-specific binding of E4BP4-consensus sites from the Clk locus." ], "offsets": [ [ 0, 83 ] ] } ]
[ { "id": "1.0alpha7.train.1283.ent0_0", "type": "gene", "text": [ "Clk" ], "offsets": [ [ 73, 76 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1195" }, { "db_name": "hgnc", "db_id": "CLK1" } ] }, { "id": "1.0alpha7.train.1283.ent1_0", "type": "protein", "text": [ "E4BP4" ], "offsets": [ [ 40, 45 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4783" }, { "db_name": "hgnc", "db_id": "NFIL3" }, { "db_name": "uniprot", "db_id": "Q16649" } ] }, { "id": "1.0alpha7.train.1283.ent2_0", "type": "assay", "text": [ "EMSAs" ], "offsets": [ [ 0, 5 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1283.ent3_0", "type": "DNA", "text": [ "Clk locus" ], "offsets": [ [ 73, 82 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1283.ent4_0", "type": "protein", "text": [ "VRI" ], "offsets": [ [ 15, 18 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1283.ent5_0", "type": "DNA", "text": [ "E4BP4-consensus sites" ], "offsets": [ [ 40, 61 ] ], "normalized": [] } ]
[]
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1.0alpha7.train.1284
11711376
[ { "id": "1.0alpha7.train.1284.sent", "type": "sentence", "text": [ "Induction of the GST-GCN2(1-312) construct conferred slightly less 3AT sensitivity than that given by GST-GCN2(1-572) (Figure 5B, rows 3 and 5), in accordance with the relatively weaker binding of GCN1/20 to GCN2 amino acids 1-272 versus amino acids 1-572 shown above (Figure 3B)." ], "offsets": [ [ 0, 280 ] ] } ]
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[]
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1.0alpha7.train.1285
11292530
[ { "id": "1.0alpha7.train.1285.sent", "type": "sentence", "text": [ "The similarity of this Km to the Kd reported here indicates that D5 not only binds to D1, but binds productively in an active conformation." ], "offsets": [ [ 0, 145 ] ] } ]
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[]
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1.0alpha7.train.1286
15326252
[ { "id": "1.0alpha7.train.1286.sent", "type": "sentence", "text": [ "Taken together, the mobility shift results and the yeast interaction data demonstrate that the CREB and the MLL activation domain bind to the CBP KIX domain concurrently and cooperatively." ], "offsets": [ [ 0, 192 ] ] } ]
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[]
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1.0alpha7.train.1287
15109481
[ { "id": "1.0alpha7.train.1287.sent", "type": "sentence", "text": [ "As expected, both GST-HIC-Imfa and GST-HIC efficiently pulled down cyclin T1 and CDK9 from HeLa cell extract, whereas no binding to GST or GST-HIC-N was detected (Fig. 5B)." ], "offsets": [ [ 0, 180 ] ] } ]
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[]
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1.0alpha7.train.1288
5563359
[ { "id": "1.0alpha7.train.1288.sent", "type": "sentence", "text": [ "In addition, mutations of the two heparin binding sites in intact apoE3 demonstrated the dominant role of the N-terminal site in the heparin binding of apoE even in the lipid-free state." ], "offsets": [ [ 0, 189 ] ] } ]
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[]
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1.0alpha7.train.1289
11265961
[ { "id": "1.0alpha7.train.1289.sent", "type": "sentence", "text": [ "However, the relative affinity of AP-3 to LAP and lamp-1 was 25-1000x lower than that observed for AP-3 binding to LIMP-II." ], "offsets": [ [ 0, 126 ] ] } ]
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[]
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1.0alpha7.train.1290
2028450
[ { "id": "1.0alpha7.train.1290.sent", "type": "sentence", "text": [ "High Affinity ATP Binding by Synapsins I and II." ], "offsets": [ [ 0, 48 ] ] } ]
[ { "id": "1.0alpha7.train.1290.ent0_0", "type": "protein", "text": [ "II" ], "offsets": [ [ 45, 47 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1290.ent1_0", "type": "protein", "text": [ "Synapsins I" ], "offsets": [ [ 29, 40 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6853" }, { "db_name": "hgnc", "db_id": "SYN1" }, { "db_name": "uniprot", "db_id": "P17600" } ] }, { "id": "1.0alpha7.train.1290.ent2_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 14, 17 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] } ]
[]
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1.0alpha7.train.1291
2028450
[ { "id": "1.0alpha7.train.1291.sent", "type": "sentence", "text": [ "To study the ATP binding properties of synapsins, we expressed their C-domains as GST fusion proteins and used 35S-labeled ATPγS as a non-hydrolyzable ATP ligand." ], "offsets": [ [ 0, 162 ] ] } ]
[ { "id": "1.0alpha7.train.1291.ent0_0", "type": "chemical", "text": [ "35S-labeled ATPγS" ], "offsets": [ [ 111, 128 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1291.ent1_0", "type": "protein-family", "text": [ "synapsins" ], "offsets": [ [ 39, 48 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001359" } ] }, { "id": "1.0alpha7.train.1291.ent2_0", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 13, 16 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1291.ent3_1", "type": "chemical", "text": [ "ATP" ], "offsets": [ [ 151, 154 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "5957" } ] }, { "id": "1.0alpha7.train.1291.ent4_0", "type": "experiment-tag", "text": [ "GST" ], "offsets": [ [ 82, 85 ] ], "normalized": [ { "db_name": "intenz", "db_id": "2.5.1.18" } ] } ]
[]
[ { "id": "1.0alpha7.train.1291.coref0", "entity_ids": [ "1.0alpha7.train.1291.ent0_0" ] }, { "id": "1.0alpha7.train.1291.coref1", "entity_ids": [ "1.0alpha7.train.1291.ent1_0" ] }, { "id": "1.0alpha7.train.1291.coref2", "entity_ids": [ "1.0alpha7.train.1291.ent2_0", "1.0alpha7.train.1291.ent3_1" ] }, { "id": "1.0alpha7.train.1291.coref3", "entity_ids": [ "1.0alpha7.train.1291.ent4_0" ] } ]
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1.0alpha7.train.1292
25350773
[ { "id": "1.0alpha7.train.1292.sent", "type": "sentence", "text": [ "We first observed the initial processes in the formation of cadherin-associated synaptic contacts by immunostaining for β-catenin (which ubiquitously binds to the classic cadherin members) as a representative of the cadherin-catenin complex. " ], "offsets": [ [ 0, 242 ] ] } ]
[ { "id": "1.0alpha7.train.1292.ent0_0", "type": "protein-family", "text": [ "cadherin" ], "offsets": [ [ 60, 68 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR039808" } ] }, { "id": "1.0alpha7.train.1292.ent1_1", "type": "protein-family", "text": [ "cadherin" ], "offsets": [ [ 171, 179 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR039808" } ] }, { "id": "1.0alpha7.train.1292.ent2_2", "type": "protein-family", "text": [ "cadherin" ], "offsets": [ [ 216, 224 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR039808" } ] }, { "id": "1.0alpha7.train.1292.ent3_0", "type": "protein-family", "text": [ "β-catenin" ], "offsets": [ [ 120, 129 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR013284" } ] }, { "id": "1.0alpha7.train.1292.ent4_0", "type": "protein-complex", "text": [ "cadherin-catenin" ], "offsets": [ [ 216, 232 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1292.coref0", "entity_ids": [ "1.0alpha7.train.1292.ent0_0", "1.0alpha7.train.1292.ent1_1", "1.0alpha7.train.1292.ent2_2" ] }, { "id": "1.0alpha7.train.1292.coref1", "entity_ids": [ "1.0alpha7.train.1292.ent3_0" ] }, { "id": "1.0alpha7.train.1292.coref2", "entity_ids": [ "1.0alpha7.train.1292.ent4_0" ] } ]
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1.0alpha7.train.1293
3194934
[ { "id": "1.0alpha7.train.1293.sent", "type": "sentence", "text": [ "Finally, we have shown that binding of amphiphysin 1 to either AP-2 or clathrin is not mutually exclusive with its binding to dynamin via the COOH-terminal SH3 domain." ], "offsets": [ [ 0, 171 ] ] } ]
[ { "id": "1.0alpha7.train.1293.ent0_0", "type": "protein", "text": [ "clathrin" ], "offsets": [ [ 74, 82 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "1211" }, { "db_name": "hgnc", "db_id": "CLTA" }, { "db_name": "uniprot", "db_id": "P09496" } ] }, { "id": "1.0alpha7.train.1293.ent1_0", "type": "protein", "text": [ "amphiphysin 1" ], "offsets": [ [ 40, 53 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "274" }, { "db_name": "hgnc", "db_id": "BIN1" }, { "db_name": "uniprot", "db_id": "O00499" } ] }, { "id": "1.0alpha7.train.1293.ent2_0", "type": "protein-domain", "text": [ "SH3" ], "offsets": [ [ 160, 163 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR001452" } ] }, { "id": "1.0alpha7.train.1293.ent3_0", "type": "protein-complex", "text": [ "AP-2" ], "offsets": [ [ 65, 69 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1293.ent4_0", "type": "protein-family", "text": [ "dynamin" ], "offsets": [ [ 129, 136 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR022812" } ] } ]
[]
[ { "id": "1.0alpha7.train.1293.coref0", "entity_ids": [ "1.0alpha7.train.1293.ent0_0" ] }, { "id": "1.0alpha7.train.1293.coref1", "entity_ids": [ "1.0alpha7.train.1293.ent1_0" ] }, { "id": "1.0alpha7.train.1293.coref2", "entity_ids": [ "1.0alpha7.train.1293.ent2_0" ] }, { "id": "1.0alpha7.train.1293.coref3", "entity_ids": [ "1.0alpha7.train.1293.ent3_0" ] }, { "id": "1.0alpha7.train.1293.coref4", "entity_ids": [ "1.0alpha7.train.1293.ent4_0" ] } ]
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1.0alpha7.train.1294
25150845
[ { "id": "1.0alpha7.train.1294.sent", "type": "sentence", "text": [ "(B) Binding of n-sec1 to syntaxin 1a in the presence of 500 M S-NC." ], "offsets": [ [ 0, 71 ] ] } ]
[ { "id": "1.0alpha7.train.1294.ent0_0", "type": "protein", "text": [ "syntaxin 1a" ], "offsets": [ [ 27, 38 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6804" }, { "db_name": "hgnc", "db_id": "STX1A" }, { "db_name": "uniprot", "db_id": "Q16623" } ] }, { "id": "1.0alpha7.train.1294.ent1_0", "type": "protein", "text": [ "n-sec1" ], "offsets": [ [ 16, 22 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6812" }, { "db_name": "hgnc", "db_id": "STXBP1" }, { "db_name": "uniprot", "db_id": "P61764" } ] }, { "id": "1.0alpha7.train.1294.ent2_0", "type": "chemical", "text": [ "S-NC" ], "offsets": [ [ 66, 70 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1294.coref0", "entity_ids": [ "1.0alpha7.train.1294.ent0_0" ] }, { "id": "1.0alpha7.train.1294.coref1", "entity_ids": [ "1.0alpha7.train.1294.ent1_0" ] }, { "id": "1.0alpha7.train.1294.coref2", "entity_ids": [ "1.0alpha7.train.1294.ent2_0" ] } ]
[ { "id": "1.0alpha7.train.1294.rel0s1.0alpha7.train.1294.ent0_0.o1.0alpha7.train.1294.ent1_0", "type": "bind", "arg1_id": "1.0alpha7.train.1294.ent0_0", "arg2_id": "1.0alpha7.train.1294.ent1_0", "normalized": [] } ]
1.0alpha7.train.1295
1425809
[ { "id": "1.0alpha7.train.1295.sent", "type": "sentence", "text": [ "There have been several examples of PH domains binding to PI(4,5)P2 and Ins(1,4,5)P3 with different affinities (21, 23, 26, 27, 30), although various protein structures suggest that these domains do not directly interact with the acyl chains within the lipid membranes." ], "offsets": [ [ 0, 269 ] ] } ]
[ { "id": "1.0alpha7.train.1295.ent0_0", "type": "protein-domain", "text": [ "PH" ], "offsets": [ [ 36, 38 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1295.ent1_0", "type": "chemical", "text": [ "Ins(1,4,5)P3" ], "offsets": [ [ 72, 84 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "439456" } ] }, { "id": "1.0alpha7.train.1295.ent2_0", "type": "chemical", "text": [ "PI(4,5)P2" ], "offsets": [ [ 58, 67 ] ], "normalized": [ { "db_name": "pubchem:compound", "db_id": "3013834" } ] } ]
[]
[ { "id": "1.0alpha7.train.1295.coref0", "entity_ids": [ "1.0alpha7.train.1295.ent0_0" ] }, { "id": "1.0alpha7.train.1295.coref1", "entity_ids": [ "1.0alpha7.train.1295.ent1_0" ] }, { "id": "1.0alpha7.train.1295.coref2", "entity_ids": [ "1.0alpha7.train.1295.ent2_0" ] } ]
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1.0alpha7.train.1296
11292575
[ { "id": "1.0alpha7.train.1296.sent", "type": "sentence", "text": [ "Since there is now an abundance of data supporting the fact that D5 binds to D1 without requiring additional ground‐state contacts to D3, there is presently insufficient data for drawing conclusions about the regions of D5 that interact with D3 at any point during catalysis." ], "offsets": [ [ 0, 275 ] ] } ]
[ { "id": "1.0alpha7.train.1296.ent0_0", "type": "RNA", "text": [ "D5" ], "offsets": [ [ 65, 67 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1296.ent1_1", "type": "RNA", "text": [ "D5" ], "offsets": [ [ 220, 222 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1296.ent2_0", "type": "RNA", "text": [ "D3" ], "offsets": [ [ 134, 136 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1296.ent3_1", "type": "RNA", "text": [ "D3" ], "offsets": [ [ 242, 244 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1296.ent4_0", "type": "RNA", "text": [ "D1" ], "offsets": [ [ 77, 79 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1296.coref0", "entity_ids": [ "1.0alpha7.train.1296.ent0_0", "1.0alpha7.train.1296.ent1_1" ] }, { "id": "1.0alpha7.train.1296.coref1", "entity_ids": [ "1.0alpha7.train.1296.ent2_0", "1.0alpha7.train.1296.ent3_1" ] }, { "id": "1.0alpha7.train.1296.coref2", "entity_ids": [ "1.0alpha7.train.1296.ent4_0" ] } ]
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1.0alpha7.train.1297
2902877
[ { "id": "1.0alpha7.train.1297.sent", "type": "sentence", "text": [ "The Abeta peptide binds to the proteasome and has been shown to inhibit its activity ( 52)." ], "offsets": [ [ 0, 93 ] ] } ]
[ { "id": "1.0alpha7.train.1297.ent0_0", "type": "peptide", "text": [ "Abeta" ], "offsets": [ [ 5, 10 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1297.ent1_0", "type": "protein-complex", "text": [ "proteasome" ], "offsets": [ [ 33, 43 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1297.coref0", "entity_ids": [ "1.0alpha7.train.1297.ent0_0" ] }, { "id": "1.0alpha7.train.1297.coref1", "entity_ids": [ "1.0alpha7.train.1297.ent1_0" ] } ]
[ { "id": "1.0alpha7.train.1297.rel0s1.0alpha7.train.1297.ent0_0.o1.0alpha7.train.1297.ent1_0", "type": "bind", "arg1_id": "1.0alpha7.train.1297.ent0_0", "arg2_id": "1.0alpha7.train.1297.ent1_0", "normalized": [] } ]
1.0alpha7.train.1298
823708
[ { "id": "1.0alpha7.train.1298.sent", "type": "sentence", "text": [ "These competition data correlate well with the binding specificity of NF1 and Sp1." ], "offsets": [ [ 0, 84 ] ] } ]
[ { "id": "1.0alpha7.train.1298.ent0_0", "type": "protein", "text": [ "Sp1" ], "offsets": [ [ 80, 83 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "6667" }, { "db_name": "hgnc", "db_id": "SP1" }, { "db_name": "uniprot", "db_id": "P08047" } ] }, { "id": "1.0alpha7.train.1298.ent1_0", "type": "protein", "text": [ "NF1" ], "offsets": [ [ 71, 74 ] ], "normalized": [ { "db_name": "NCBI gene", "db_id": "4763" }, { "db_name": "hgnc", "db_id": "NF1" } ] } ]
[]
[ { "id": "1.0alpha7.train.1298.coref0", "entity_ids": [ "1.0alpha7.train.1298.ent0_0" ] }, { "id": "1.0alpha7.train.1298.coref1", "entity_ids": [ "1.0alpha7.train.1298.ent1_0" ] } ]
[ { "id": "1.0alpha7.train.1298.rel0s1.0alpha7.train.1298.ent0_0.o1.0alpha7.train.1298.ent1_0", "type": "bind", "arg1_id": "1.0alpha7.train.1298.ent0_0", "arg2_id": "1.0alpha7.train.1298.ent1_0", "normalized": [] } ]
1.0alpha7.train.1299
12498573
[ { "id": "1.0alpha7.train.1299.sent", "type": "sentence", "text": [ "It has been shown recently that the HP1 chromodomain specifically binds histone H3 N-terminal tails when those tails are methylated at Lys 9 (Bannister et al. 2001; Lachner et al. 2001; Jacobs and Khorasanizadeh 2002 )." ], "offsets": [ [ 0, 223 ] ] } ]
[ { "id": "1.0alpha7.train.1299.ent0_0", "type": "amino-acid", "text": [ "Lys 9" ], "offsets": [ [ 138, 143 ] ], "normalized": [] }, { "id": "1.0alpha7.train.1299.ent1_0", "type": "protein-family", "text": [ "histone H3" ], "offsets": [ [ 74, 84 ] ], "normalized": [ { "db_name": "interpro", "db_id": "IPR007125" } ] }, { "id": "1.0alpha7.train.1299.ent2_0", "type": "protein-complex", "text": [ "HP1" ], "offsets": [ [ 37, 40 ] ], "normalized": [] } ]
[]
[ { "id": "1.0alpha7.train.1299.coref0", "entity_ids": [ "1.0alpha7.train.1299.ent0_0" ] }, { "id": "1.0alpha7.train.1299.coref1", "entity_ids": [ "1.0alpha7.train.1299.ent1_0" ] }, { "id": "1.0alpha7.train.1299.coref2", "entity_ids": [ "1.0alpha7.train.1299.ent2_0" ] } ]
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