Fast fixing and comprehensive identification to help improve real-time ligands discovery based on formaldehyde crosslinking, immunoprecipitation and SDS-PAGE separation
机构:[1]Chinese Acad Med Sci, Peking Union Med Coll, Inst Basic Med Sci, Dept Physiol & Pathophysiol,Natl Key Lab Med Mol, Beijing 100005, Peoples R China;[2]China Japan Friendship Hosp, Clin Lab, Beijing 100029, Peoples R China;[3]Capital Med Univ, Beijing An Zhen Hosp, Dept Nephrol, Beijing 100029, Peoples R China临床科室肾内科首都医科大学附属安贞医院
Background: Fast Fixation is necessary to study real-time protein-protein interactions under physiological conditions. Fast formaldehyde cross-linking can fix transient and weak protein interactions, thereby reducing the number of false negatives but producing great complexity. To reduce this complexity, immunoaffinity purification can Fish out complexes that include particular target proteins, but affinity-based co-purification has a limited capacity to eliminate nonspecific binding to beads and/or antibodies. To Filter out these complexes, SDS-PAGE is used to disrupt non-covalent bonds, thereby eliminating uncross-linked complexes and simultaneously providing molecular weight information for identification. Results: We described a 4 F strategy to help improve real-time ligands discovery based on formaldehyde crosslinking, immunoprecipitation and SDS-PAGE separation: Fast Fix, Fish, and Filter, using albumin interactome as an example. The use of gel excision without staining makes this strategy comprehensive and sensitive. The target protein must be identified in the same slice as its ligands. The ligands must be identified in slices for the experimental group but not in the corresponding control slices. Only proteins that appear in the range of molecular weights equal to or greater than the sum of the proteins' theoretical molecular weights, together with the target, are considered ligands. In this study, 5 s of cross-linking with 10% formaldehyde was achieved in human blood. The use of this strategy identified 35 ligands for albumin. Comparison with four major previous studies of the albuminome revealed that 68.57% of the 35 ligands identified in our study were identified in these other studies. Conclusions: Fast cross-linking was achieved. The 4 F strategy can be used to identify real-time in situ interactions without prior intervention and to comprehensively identify ligands of particular target proteins with fewer false positives.
基金:
National Basic Research Program of ChinaNational Basic Research Program of China [2012CB517606, 2013CB530805]; 111 ProjectMinistry of Education, China - 111 Project [B08007]; National Natural Science Foundation of ChinaNational Natural Science Foundation of China [31200614]; Beijing Natural Science FoundationBeijing Natural Science Foundation [5132028]; Key Basic Research Program of the Ministry of Science and Technology of China [2013FY114100]
第一作者机构:[1]Chinese Acad Med Sci, Peking Union Med Coll, Inst Basic Med Sci, Dept Physiol & Pathophysiol,Natl Key Lab Med Mol, Beijing 100005, Peoples R China;
通讯作者:
通讯机构:[1]Chinese Acad Med Sci, Peking Union Med Coll, Inst Basic Med Sci, Dept Physiol & Pathophysiol,Natl Key Lab Med Mol, Beijing 100005, Peoples R China;
推荐引用方式(GB/T 7714):
Zhu Lisi,Li Menglin,Wei Lilong,et al.Fast fixing and comprehensive identification to help improve real-time ligands discovery based on formaldehyde crosslinking, immunoprecipitation and SDS-PAGE separation[J].PROTEOME SCIENCE.2014,12(1):-.doi:10.1186/1477-5956-12-6.
APA:
Zhu, Lisi,Li, Menglin,Wei, Lilong,Liu, Xuejiao,Yin, Jianrui&Gao, Youhe.(2014).Fast fixing and comprehensive identification to help improve real-time ligands discovery based on formaldehyde crosslinking, immunoprecipitation and SDS-PAGE separation.PROTEOME SCIENCE,12,(1)
MLA:
Zhu, Lisi,et al."Fast fixing and comprehensive identification to help improve real-time ligands discovery based on formaldehyde crosslinking, immunoprecipitation and SDS-PAGE separation".PROTEOME SCIENCE 12..1(2014):-