PubMed:16192280 JSONTXT

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    GlyCosmos6-UBERON

    {"project":"GlyCosmos6-UBERON","denotations":[{"id":"T1","span":{"begin":1442,"end":1453},"obj":"Body_part"},{"id":"T2","span":{"begin":1609,"end":1616},"obj":"Body_part"}],"attributes":[{"id":"A1","pred":"uberon_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/GO_0005622"},{"id":"A2","pred":"uberon_id","subj":"T2","obj":"http://purl.obolibrary.org/obo/GO_0005634"},{"id":"A3","pred":"uberon_id","subj":"T2","obj":"http://purl.obolibrary.org/obo/UBERON_0000125"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    Oryza-OGER

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of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    pqqtest_sentence

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xzyao:14211"},{"id":"T42835","span":{"begin":330,"end":350},"obj":"funRiceGene:298, xzyao:14211"},{"id":"M_12","span":{"begin":514,"end":534},"obj":"funRiceGene:298, xzyao:14211"},{"id":"M_13","span":{"begin":1437,"end":1441},"obj":"PO:0025034, funRiceGene:469"},{"id":"M_14","span":{"begin":1789,"end":1812},"obj":"funRiceGene:35, xzyao:12623"},{"id":"M_15","span":{"begin":905,"end":924},"obj":"xzyao:39854"},{"id":"M_16","span":{"begin":235,"end":256},"obj":"hunflair:NA:Gene"},{"id":"M_17","span":{"begin":408,"end":431},"obj":"hunflair:NA:Gene"},{"id":"M_18","span":{"begin":96,"end":99},"obj":"hunflair:NA:Gene"},{"id":"M_19","span":{"begin":260,"end":263},"obj":"hunflair:NA:Gene"},{"id":"M_20","span":{"begin":404,"end":407},"obj":"hunflair:NA:Gene"},{"id":"M_21","span":{"begin":502,"end":505},"obj":"hunflair:NA:Gene"},{"id":"M_22","span":{"begin":772,"end":775},"obj":"hunflair:NA:Gene"},{"id":"M_23","span":{"begin":939,"end":942},"obj":"hunflair:NA:Gene"},{"id":"M_24","span":{"begin":1727,"end":1730},"obj":"hunflair:NA:Gene"},{"id":"M_25","span":{"begin":1826,"end":1829},"obj":"hunflair:NA:Gene"},{"id":"M_26","span":{"begin":590,"end":598},"obj":"hunflair:NA:Gene"},{"id":"M_27","span":{"begin":691,"end":706},"obj":"hunflair:NA:Gene"},{"id":"M_28","span":{"begin":584,"end":589},"obj":"hunflair:NA:Gene"},{"id":"M_29","span":{"begin":489,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_30","span":{"begin":572,"end":583},"obj":"hunflair:NA:Species"},{"id":"M_31","span":{"begin":1425,"end":1436},"obj":"hunflair:NA:Species"},{"id":"M_32","span":{"begin":260,"end":264},"obj":"hunflair:NA:Gene"},{"id":"M_33","span":{"begin":404,"end":408},"obj":"hunflair:NA:Gene"},{"id":"M_34","span":{"begin":502,"end":506},"obj":"hunflair:NA:Gene"},{"id":"M_35","span":{"begin":772,"end":776},"obj":"hunflair:NA:Gene"},{"id":"M_36","span":{"begin":939,"end":943},"obj":"hunflair:NA:Gene"},{"id":"M_37","span":{"begin":1727,"end":1731},"obj":"hunflair:NA:Gene"},{"id":"M_38","span":{"begin":1455,"end":1480},"obj":"hunflair:NA:Gene"},{"id":"M_39","span":{"begin":15,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_40","span":{"begin":66,"end":78},"obj":"hunflair:NA:Species"},{"id":"M_41","span":{"begin":489,"end":501},"obj":"hunflair:NA:Species"},{"id":"M_42","span":{"begin":408,"end":413},"obj":"hunflair:NA:Species"},{"id":"M_43","span":{"begin":1304,"end":1322},"obj":"hunflair:NA:Gene"},{"id":"M_44","span":{"begin":60,"end":64},"obj":"hunflair:NA:Species"},{"id":"M_45","span":{"begin":366,"end":370},"obj":"hunflair:NA:Species"},{"id":"M_46","span":{"begin":34,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_47","span":{"begin":330,"end":350},"obj":"hunflair:NA:Gene"},{"id":"M_48","span":{"begin":514,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_49","span":{"begin":482,"end":487},"obj":"hunflair:NA:Gene"},{"id":"M_50","span":{"begin":895,"end":900},"obj":"hunflair:NA:Gene"},{"id":"M_51","span":{"begin":1047,"end":1052},"obj":"hunflair:NA:Gene"},{"id":"M_52","span":{"begin":1132,"end":1137},"obj":"hunflair:NA:Gene"},{"id":"M_53","span":{"begin":1254,"end":1259},"obj":"hunflair:NA:Gene"},{"id":"M_54","span":{"begin":1537,"end":1542},"obj":"hunflair:NA:Gene"},{"id":"M_55","span":{"begin":1681,"end":1686},"obj":"hunflair:NA:Gene"},{"id":"M_56","span":{"begin":1778,"end":1783},"obj":"hunflair:NA:Gene"},{"id":"M_57","span":{"begin":84,"end":94},"obj":"hunflair:NA:Gene"},{"id":"M_58","span":{"begin":414,"end":420},"obj":"pubtator:3726:Species"},{"id":"M_59","span":{"begin":572,"end":583},"obj":"pubtator:3702:Species"},{"id":"M_60","span":{"begin":1425,"end":1436},"obj":"pubtator:3702:Species"},{"id":"M_61","span":{"begin":66,"end":80},"obj":"pubtator:4530:Species"},{"id":"M_62","span":{"begin":572,"end":598},"obj":"pubtator::Disease"},{"id":"M_63","span":{"begin":60,"end":64},"obj":"pubtator:4530:Species"},{"id":"M_64","span":{"begin":366,"end":370},"obj":"pubtator:4530:Species"},{"id":"M_65","span":{"begin":408,"end":413},"obj":"pubtator:9796:Species"},{"id":"M_66","span":{"begin":66,"end":78},"obj":"pubtator:4530:Species"},{"id":"M_67","span":{"begin":489,"end":501},"obj":"pubtator:4530:Species"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    21k_plant_trait_mention

    {"project":"21k_plant_trait_mention","denotations":[{"id":"M_0","span":{"begin":330,"end":350},"obj":"funRiceGene:298, xzyao:12559"},{"id":"M_1","span":{"begin":1437,"end":1441},"obj":"PO:0025034, funRiceGene:469"},{"id":"M_2","span":{"begin":1789,"end":1812},"obj":"funRiceGene:35, xzyao:549"},{"id":"M_3","span":{"begin":66,"end":78},"obj":"hunflair:NA:Species"},{"id":"M_4","span":{"begin":489,"end":501},"obj":"hunflair:NA:Species"},{"id":"M_5","span":{"begin":489,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_6","span":{"begin":34,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_7","span":{"begin":330,"end":350},"obj":"hunflair:NA:Gene"},{"id":"M_8","span":{"begin":514,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_9","span":{"begin":1304,"end":1322},"obj":"hunflair:NA:Gene"},{"id":"M_10","span":{"begin":572,"end":583},"obj":"hunflair:NA:Species"},{"id":"M_11","span":{"begin":1425,"end":1436},"obj":"hunflair:NA:Species"},{"id":"M_12","span":{"begin":1455,"end":1480},"obj":"hunflair:NA:Gene"},{"id":"M_13","span":{"begin":482,"end":487},"obj":"hunflair:NA:Gene"},{"id":"M_14","span":{"begin":895,"end":900},"obj":"hunflair:NA:Gene"},{"id":"M_15","span":{"begin":1047,"end":1052},"obj":"hunflair:NA:Gene"},{"id":"M_16","span":{"begin":1132,"end":1137},"obj":"hunflair:NA:Gene"},{"id":"M_17","span":{"begin":1254,"end":1259},"obj":"hunflair:NA:Gene"},{"id":"M_18","span":{"begin":1537,"end":1542},"obj":"hunflair:NA:Gene"},{"id":"M_19","span":{"begin":1681,"end":1686},"obj":"hunflair:NA:Gene"},{"id":"M_20","span":{"begin":1778,"end":1783},"obj":"hunflair:NA:Gene"},{"id":"M_21","span":{"begin":408,"end":413},"obj":"hunflair:NA:Species"},{"id":"M_22","span":{"begin":260,"end":264},"obj":"hunflair:NA:Gene"},{"id":"M_23","span":{"begin":404,"end":408},"obj":"hunflair:NA:Gene"},{"id":"M_24","span":{"begin":502,"end":506},"obj":"hunflair:NA:Gene"},{"id":"M_25","span":{"begin":772,"end":776},"obj":"hunflair:NA:Gene"},{"id":"M_26","span":{"begin":939,"end":943},"obj":"hunflair:NA:Gene"},{"id":"M_27","span":{"begin":1727,"end":1731},"obj":"hunflair:NA:Gene"},{"id":"M_28","span":{"begin":235,"end":256},"obj":"hunflair:NA:Gene"},{"id":"M_29","span":{"begin":691,"end":706},"obj":"hunflair:NA:Gene"},{"id":"M_30","span":{"begin":96,"end":99},"obj":"hunflair:NA:Gene"},{"id":"M_31","span":{"begin":260,"end":263},"obj":"hunflair:NA:Gene"},{"id":"M_32","span":{"begin":404,"end":407},"obj":"hunflair:NA:Gene"},{"id":"M_33","span":{"begin":502,"end":505},"obj":"hunflair:NA:Gene"},{"id":"M_34","span":{"begin":772,"end":775},"obj":"hunflair:NA:Gene"},{"id":"M_35","span":{"begin":939,"end":942},"obj":"hunflair:NA:Gene"},{"id":"M_36","span":{"begin":1727,"end":1730},"obj":"hunflair:NA:Gene"},{"id":"M_37","span":{"begin":1826,"end":1829},"obj":"hunflair:NA:Gene"},{"id":"M_38","span":{"begin":15,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_39","span":{"begin":84,"end":94},"obj":"hunflair:NA:Gene"},{"id":"M_40","span":{"begin":60,"end":64},"obj":"hunflair:NA:Species"},{"id":"M_41","span":{"begin":366,"end":370},"obj":"hunflair:NA:Species"},{"id":"M_42","span":{"begin":408,"end":431},"obj":"hunflair:NA:Gene"},{"id":"M_43","span":{"begin":584,"end":589},"obj":"hunflair:NA:Gene"},{"id":"M_44","span":{"begin":590,"end":598},"obj":"hunflair:NA:Gene"},{"id":"M_45","span":{"begin":572,"end":598},"obj":"pubtator::Disease"},{"id":"M_46","span":{"begin":572,"end":583},"obj":"pubtator:3702:Species"},{"id":"M_47","span":{"begin":1425,"end":1436},"obj":"pubtator:3702:Species"},{"id":"M_48","span":{"begin":408,"end":413},"obj":"pubtator:9796:Species"},{"id":"M_49","span":{"begin":414,"end":420},"obj":"pubtator:3726:Species"},{"id":"M_50","span":{"begin":60,"end":64},"obj":"pubtator:4530:Species"},{"id":"M_51","span":{"begin":366,"end":370},"obj":"pubtator:4530:Species"},{"id":"M_52","span":{"begin":66,"end":78},"obj":"pubtator:4530:Species"},{"id":"M_53","span":{"begin":489,"end":501},"obj":"pubtator:4530:Species"},{"id":"M_54","span":{"begin":66,"end":80},"obj":"pubtator:4530:Species"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    OryzaGP_2021

    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"},{"id":"M_32","span":{"begin":1727,"end":1731},"obj":"hunflair:NA:Gene"},{"id":"M_33","span":{"begin":482,"end":487},"obj":"hunflair:NA:Gene"},{"id":"M_34","span":{"begin":895,"end":900},"obj":"hunflair:NA:Gene"},{"id":"M_35","span":{"begin":1047,"end":1052},"obj":"hunflair:NA:Gene"},{"id":"M_36","span":{"begin":1132,"end":1137},"obj":"hunflair:NA:Gene"},{"id":"M_37","span":{"begin":1254,"end":1259},"obj":"hunflair:NA:Gene"},{"id":"M_38","span":{"begin":1537,"end":1542},"obj":"hunflair:NA:Gene"},{"id":"M_39","span":{"begin":1681,"end":1686},"obj":"hunflair:NA:Gene"},{"id":"M_40","span":{"begin":1778,"end":1783},"obj":"hunflair:NA:Gene"},{"id":"M_41","span":{"begin":84,"end":94},"obj":"hunflair:NA:Gene"},{"id":"M_42","span":{"begin":584,"end":589},"obj":"hunflair:NA:Gene"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    OryzaGP_2022

    {"project":"OryzaGP_2022","denotations":[{"id":"T1","span":{"begin":15,"end":25},"obj":"http://identifiers.org/oryzabase.gene/10235"},{"id":"T2","span":{"begin":84,"end":94},"obj":"http://identifiers.org/oryzabase.gene/10235"},{"id":"T3","span":{"begin":421,"end":431},"obj":"http://identifiers.org/oryzabase.gene/14259"},{"id":"T4","span":{"begin":421,"end":431},"obj":"http://identifiers.org/oryzabase.gene/12543"},{"id":"T5","span":{"begin":502,"end":534},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T6","span":{"begin":654,"end":655},"obj":"http://identifiers.org/oryzabase.gene/11216"},{"id":"T7","span":{"begin":691,"end":698},"obj":"http://identifiers.org/oryzabase.gene/19289"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    OryzaGP_2021_v2

    {"project":"OryzaGP_2021_v2","denotations":[{"id":"T1","span":{"begin":482,"end":487},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T2","span":{"begin":651,"end":653},"obj":"http://identifiers.org/oryzabase.gene/46"},{"id":"T3","span":{"begin":803,"end":806},"obj":"http://identifiers.org/oryzabase.gene/2454"},{"id":"T4","span":{"begin":822,"end":825},"obj":"http://identifiers.org/oryzabase.gene/2454"},{"id":"T5","span":{"begin":895,"end":900},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T6","span":{"begin":1047,"end":1052},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T7","span":{"begin":1132,"end":1137},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T8","span":{"begin":1254,"end":1259},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T9","span":{"begin":1537,"end":1542},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T10","span":{"begin":1681,"end":1686},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T11","span":{"begin":1778,"end":1783},"obj":"http://identifiers.org/oryzabase.gene/19598"},{"id":"T87169","span":{"begin":482,"end":487},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T32559","span":{"begin":895,"end":900},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T74554","span":{"begin":1047,"end":1052},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T920","span":{"begin":1132,"end":1137},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T56006","span":{"begin":1254,"end":1259},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T27272","span":{"begin":1537,"end":1542},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T13086","span":{"begin":1681,"end":1686},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"},{"id":"T56379","span":{"begin":1778,"end":1783},"obj":"http://identifiers.org/rapdb.locus/Os07g0490200"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    sentences

    {"project":"sentences","denotations":[{"id":"T1","span":{"begin":0,"end":83},"obj":"Sentence"},{"id":"T2","span":{"begin":84,"end":204},"obj":"Sentence"},{"id":"T3","span":{"begin":205,"end":291},"obj":"Sentence"},{"id":"T4","span":{"begin":292,"end":443},"obj":"Sentence"},{"id":"T5","span":{"begin":444,"end":791},"obj":"Sentence"},{"id":"T6","span":{"begin":792,"end":1002},"obj":"Sentence"},{"id":"T7","span":{"begin":1003,"end":1105},"obj":"Sentence"},{"id":"T8","span":{"begin":1106,"end":1253},"obj":"Sentence"},{"id":"T9","span":{"begin":1254,"end":1454},"obj":"Sentence"},{"id":"T10","span":{"begin":1455,"end":1617},"obj":"Sentence"},{"id":"T11","span":{"begin":1618,"end":1736},"obj":"Sentence"},{"id":"T12","span":{"begin":1737,"end":1830},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    NCBITAXON

    {"project":"NCBITAXON","denotations":[{"id":"T1","span":{"begin":60,"end":64},"obj":"OrganismTaxon"},{"id":"T2","span":{"begin":66,"end":78},"obj":"OrganismTaxon"},{"id":"T3","span":{"begin":366,"end":370},"obj":"OrganismTaxon"},{"id":"T4","span":{"begin":414,"end":420},"obj":"OrganismTaxon"},{"id":"T5","span":{"begin":489,"end":501},"obj":"OrganismTaxon"},{"id":"T6","span":{"begin":572,"end":583},"obj":"OrganismTaxon"},{"id":"T7","span":{"begin":1425,"end":1436},"obj":"OrganismTaxon"},{"id":"T8","span":{"begin":1562,"end":1566},"obj":"OrganismTaxon"}],"attributes":[{"id":"A1","pred":"db_id","subj":"T1","obj":"NCBItxid:4530"},{"id":"A2","pred":"db_id","subj":"T2","obj":"NCBItxid:4530"},{"id":"A3","pred":"db_id","subj":"T3","obj":"NCBItxid:4530"},{"id":"A4","pred":"db_id","subj":"T4","obj":"NCBItxid:3726"},{"id":"A5","pred":"db_id","subj":"T5","obj":"NCBItxid:4530"},{"id":"A6","pred":"db_id","subj":"T6","obj":"NCBItxid:3701"},{"id":"A7","pred":"db_id","subj":"T7","obj":"NCBItxid:3701"},{"id":"A8","pred":"db_id","subj":"T8","obj":"NCBItxid:1891767"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    GlyCosmos6-CLO

    {"project":"GlyCosmos6-CLO","denotations":[{"id":"T1","span":{"begin":156,"end":166},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"},{"id":"T2","span":{"begin":735,"end":745},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"},{"id":"T3","span":{"begin":1295,"end":1303},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"},{"id":"T4","span":{"begin":1658,"end":1668},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"},{"id":"T5","span":{"begin":1803,"end":1812},"obj":"http://purl.obolibrary.org/obo/CLO_0001658"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    mondo_disease

    {"project":"mondo_disease","denotations":[{"id":"T1","span":{"begin":1505,"end":1533},"obj":"Disease"}],"attributes":[{"id":"A1","pred":"mondo_id","subj":"T1","obj":"http://purl.obolibrary.org/obo/MONDO_0000179"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}

    OryzaGP_2021_FLAIR

    {"project":"OryzaGP_2021_FLAIR","denotations":[{"id":"M_0","span":{"begin":489,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_1","span":{"begin":66,"end":78},"obj":"hunflair:NA:Species"},{"id":"M_2","span":{"begin":489,"end":501},"obj":"hunflair:NA:Species"},{"id":"M_3","span":{"begin":15,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_4","span":{"begin":96,"end":99},"obj":"hunflair:NA:Gene"},{"id":"M_5","span":{"begin":260,"end":263},"obj":"hunflair:NA:Gene"},{"id":"M_6","span":{"begin":404,"end":407},"obj":"hunflair:NA:Gene"},{"id":"M_7","span":{"begin":502,"end":505},"obj":"hunflair:NA:Gene"},{"id":"M_8","span":{"begin":772,"end":775},"obj":"hunflair:NA:Gene"},{"id":"M_9","span":{"begin":939,"end":942},"obj":"hunflair:NA:Gene"},{"id":"M_10","span":{"begin":1727,"end":1730},"obj":"hunflair:NA:Gene"},{"id":"M_11","span":{"begin":1826,"end":1829},"obj":"hunflair:NA:Gene"},{"id":"M_12","span":{"begin":1455,"end":1480},"obj":"hunflair:NA:Gene"},{"id":"M_13","span":{"begin":691,"end":706},"obj":"hunflair:NA:Gene"},{"id":"M_14","span":{"begin":1304,"end":1322},"obj":"hunflair:NA:Gene"},{"id":"M_15","span":{"begin":408,"end":413},"obj":"hunflair:NA:Species"},{"id":"M_16","span":{"begin":60,"end":64},"obj":"hunflair:NA:Species"},{"id":"M_17","span":{"begin":366,"end":370},"obj":"hunflair:NA:Species"},{"id":"M_18","span":{"begin":408,"end":431},"obj":"hunflair:NA:Gene"},{"id":"M_19","span":{"begin":572,"end":583},"obj":"hunflair:NA:Species"},{"id":"M_20","span":{"begin":1425,"end":1436},"obj":"hunflair:NA:Species"},{"id":"M_21","span":{"begin":979,"end":985},"obj":"hunflair:NA:Chemical"},{"id":"M_22","span":{"begin":34,"end":54},"obj":"hunflair:NA:Gene"},{"id":"M_23","span":{"begin":330,"end":350},"obj":"hunflair:NA:Gene"},{"id":"M_24","span":{"begin":514,"end":534},"obj":"hunflair:NA:Gene"},{"id":"M_25","span":{"begin":590,"end":598},"obj":"hunflair:NA:Gene"},{"id":"M_26","span":{"begin":235,"end":256},"obj":"hunflair:NA:Gene"},{"id":"M_27","span":{"begin":260,"end":264},"obj":"hunflair:NA:Gene"},{"id":"M_28","span":{"begin":404,"end":408},"obj":"hunflair:NA:Gene"},{"id":"M_29","span":{"begin":502,"end":506},"obj":"hunflair:NA:Gene"},{"id":"M_30","span":{"begin":772,"end":776},"obj":"hunflair:NA:Gene"},{"id":"M_31","span":{"begin":939,"end":943},"obj":"hunflair:NA:Gene"},{"id":"M_32","span":{"begin":1727,"end":1731},"obj":"hunflair:NA:Gene"},{"id":"M_33","span":{"begin":482,"end":487},"obj":"hunflair:NA:Gene"},{"id":"M_34","span":{"begin":895,"end":900},"obj":"hunflair:NA:Gene"},{"id":"M_35","span":{"begin":1047,"end":1052},"obj":"hunflair:NA:Gene"},{"id":"M_36","span":{"begin":1132,"end":1137},"obj":"hunflair:NA:Gene"},{"id":"M_37","span":{"begin":1254,"end":1259},"obj":"hunflair:NA:Gene"},{"id":"M_38","span":{"begin":1537,"end":1542},"obj":"hunflair:NA:Gene"},{"id":"M_39","span":{"begin":1681,"end":1686},"obj":"hunflair:NA:Gene"},{"id":"M_40","span":{"begin":1778,"end":1783},"obj":"hunflair:NA:Gene"},{"id":"M_41","span":{"begin":84,"end":94},"obj":"hunflair:NA:Gene"},{"id":"M_42","span":{"begin":584,"end":589},"obj":"hunflair:NA:Gene"}],"text":"Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).\nCalmodulin (CaM) regulates diverse cellular functions by modulating the activities of a variety of enzymes and proteins. However, direct modulation of transcription factors by CaM has been poorly understood. In this study, we isolated a putative transcription factor by screening a rice cDNA expression library by using CaM:horse-radish peroxidase as a probe. This factor, which we have designated OsCBT (Oryza sativa CaM-binding transcription factor), has structural features similar to Arabidopsis AtSRs/AtCAMTAs and encodes a 103-kDa protein because it contains a CG-1 homology DNA-binding domain, three ankyrin repeats, a putative transcriptional activation domain, and five putative CaM-binding motifs. By using a gel overlay assay, gel mobility shift assays, and site-directed mutagenesis, we showed that OsCBT has two different types of functional CaM-binding domains, an IQ motif, and a Ca(2+)-dependent motif. To determine the DNA binding specificity of OsCBT, we employed a random binding site selection method. This analysis showed that OsCBT preferentially binds to the sequence 5'-TWCG(C/T)GTKKKKTKCG-3' (W and K represent A or C and T or G, respectively). OsCBT was able to bind this sequence and activate beta-glucuronidase reporter gene expression driven by a minimal promoter containing tandem repeats of these sequences in Arabidopsis leaf protoplasts. Green fluorescent protein fusions of two putative nuclear localization signals of OsCBT, a bipartite and a SV40 type, were predominantly localized in the nucleus. Most interestingly, the transcriptional activation mediated by OsCBT was inhibited by co-transfection with a CaM gene. Taken together, our results suggest that OsCBT is a transcription activator modulated by CaM."}