SYSTEMATIC COLLECTION OF BASIS INFORMATION FOR PROTEIN INTERACTION PREDICTION

系统收集蛋白质相互作用预测的基础信息

• 批准号: 15014213
• 负责人: ITO Takashi
• 金额: $ 32.38万
• 依托单位: THE UNIVERSITY OF TOKYO
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research on Priority Areas
• 财政年份: 2003
• 资助国家: 日本
• 起止时间: 2003 至 2004
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/en/grant/KAKENHI-PROJECT-15014213/
• 关键词: PROTEIN-PROTEIN INTERACTION; YEAST 2-HYBRID SYSTEM; PB1 DOMAIN; TAP TAG; UBIQUITIN; MASS SPECTROMETRY; DNA METHYLATION; FULL LENGTH cDNA; 蛋白質間相互作用; 2ハイブリッド法; 質量分析法; ユビキチン化; 蛋白質DNA相互作用; 1ハイブリッド法; 相互作用ドメイン; 蛋白質核酸相互作用; 転写開始点; 出芽酵母

1)We performed a comprehensive two-hybrid analysis for the budding yeast proteome and made the data available.2)We utilized the two-hybrid clone resource to conduct genome-wide screens for chromation bariier proteins as well as transcriptional activators.3)We developed two-hybrid footprinting, dual-bait reverse two-hybrid method, and accelerated phylogenetic footprinting to conduct interaction-targeting or targeted disruption of proteinprotein interactions.4)We conducted a search for rules for protein-protein interactions by means of data-mining using the association rule discovery.5)We compared yeast and mammalian systems of mutually interacting proteins including PB1-domain proteins and revealed two-different modes of target recognition by PB1 domains, enabling us to predict the PB1 interactions.6)We developed a novel TAP (Tandern Affinity Purification) tag that am be used with crosslinking agents for efficient interaction profiling.7)We developed a method of PAP (Parallel Affinity Purification) to enrich ubiquitinated proteins for degradome profiling.8)We developed a methylation-dependent one-hybrid system to examine interactions between methylated DNA and proteins.9)We developed HM-PCR for allelic methylation analysis and applied it to a comprehensive analysis of CpG islands on human chromosome 21.10)We developed a method for chimaerization-mediated activation of transcription factors and applied it to decipher a gene network regulating multidrug resistance of the budding yeast11)We systematically analyzed budding yeast full-length cDNA clones to reveal transcription starting sites for-4,000 genes.

1)我们对芽殖酵母蛋白质组进行了全面的双杂交分析，并提供了数据。2)我们利用双杂交克隆资源对染色屏障蛋白和转录激活剂进行了全基因组筛选。3)我们开发了二杂交足迹法、双诱饵反向二杂交法和加速系统发育足迹法，以进行相互作用靶向或靶向破坏蛋白质蛋白质相互作用。4）我们进行了规则搜索使用关联规则发现，通过数据挖掘来实现蛋白质-蛋白质相互作用。5)我们比较了酵母和哺乳动物系统的相互相互作用的蛋白质（包括 PB1 结构域蛋白质），并揭示了 PB1 结构域的两种不同的目标识别模式，使我们能够预测 PB1 相互作用。6）我们开发了一种新型 TAP（Tandern 亲和纯化）标签，可与交联剂一起使用以进行有效的相互作用分析。7）我们开发了一种 PAP（平行亲和纯化）方法纯化）以富集泛素化蛋白质以进行降解组分析。8）我们开发了一种甲基化依赖性单杂交系统来检查甲基化DNA和蛋白质之间的相互作用。9）我们开发了用于等位基因甲基化分析的HM-PCR，并将其应用于综合分析人类染色体21.10上的CpG岛）我们开发了一种嵌合介导的转录因子激活方法，并将其应用于破译调节萌芽多药耐药性的基因网络酵母11)我们系统地分析了芽殖酵母全长 cDNA 克隆，揭示了 4,000 个基因的转录起始位点。

项目成果

A comprehensive analysis of allelic methylation status of CpG islands on human chromosome 21q

• DOI: 10.1101/gr.1351604
• 发表时间: 2004-02-01
• 期刊: GENOME RESEARCH
• 影响因子: 7
• 作者: Yamada, Y;Watanabe, H;Ito, T
• 通讯作者: Ito, T

The PB1 domain and the PC motif-containing region are structurally similar protein binding modules

• DOI: 10.1093/emboj/cdg475
• 发表时间: 2003-10-01
• 期刊: EMBO JOURNAL
• 影响因子: 11.4
• 作者: Yoshinaga, S;Kohjima, M;Inagaki, F
• 通讯作者: Inagaki, F

Mass Spectrometry-Based Proteomics for Quantitative Description of Cellular Events

• DOI: 10.2174/1389202043348616
• 发表时间: 2004-11
• 期刊: Current Genomics
• 影响因子: 2.6
• 作者: K. Kito;Takashi Ito

Interaction of the PDZ domain of human PICK1 with class I ADP-ribosylation factors

• DOI: 10.1006/bbrc.1999.1932
• 发表时间: 2000-01-07
• 期刊: BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
• 影响因子: 3.1
• 作者: Takeya, R;Takeshige, K;Sumimoto, H
• 通讯作者: Sumimoto, H

Novel modular domain PB1 recognizes PC motif to mediate functional protein-protein interactions

• DOI: 10.1093/emboj/20.15.3938
• 发表时间: 2001-08-01
• 期刊: EMBO JOURNAL
• 影响因子: 11.4
• 作者: Ito, T;Matsui, Y;Sumimoto, H
• 通讯作者: Sumimoto, H