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Conserved abundance and topological features in chromatin‐remodeling protein interaction networks
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Damir Herman Sreenivasa R Ramisetty Yong Cai Jingji Jin Ronald C Conaway Joan W Conaway Laurence Florens Michael P Washburn 《EMBO reports》2015,16(1):116-126
The study of conserved protein interaction networks seeks to better understand the evolution and regulation of protein interactions. Here, we present a quantitative proteomic analysis of 18 orthologous baits from three distinct chromatin‐remodeling complexes in Saccharomyces cerevisiae and Homo sapiens. We demonstrate that abundance levels of orthologous proteins correlate strongly between the two organisms and both networks have highly similar topologies. We therefore used the protein abundances in one species to cross‐predict missing protein abundance levels in the other species. Lastly, we identified a novel conserved low‐abundance subnetwork further demonstrating the value of quantitative analysis of networks. 相似文献
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The Yaf9 component of the SWR1 and NuA4 complexes is required for proper gene expression, histone H4 acetylation, and Htz1 replacement near telomeres
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Zhang H Richardson DO Roberts DN Utley R Erdjument-Bromage H Tempst P Côté J Cairns BR 《Molecular and cellular biology》2004,24(21):9424-9436
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Jiaqiang Dong Zheng Gao Shujing Liu Guang Li Zhongnan Yang Hai Huang Lin Xu 《植物学报(英文版)》2013,55(10):928-937
The Imitation Switch (ISWI) type adenosine triphosphate (ATP)-dependent chromatin remodeling factors are conserved proteins in eukaryotes, and some of them are known to form stable remodeling complexes... 相似文献
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Nair M Nagamori I Sun P Mishra DP Rhéaume C Li B Sassone-Corsi P Dai X 《Developmental biology》2008,320(2):446-455
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J. ?stling J.-P. Cassart J. Vandenhaute H. Ronne 《Molecular & general genetics : MGG》1998,260(2-3):269-279
The Mig1 repressor is a zinc finger protein that mediates glucose repression in yeast. Previous work in Saccharomyces cerevisiae has shown that two domains in Mig1p are required for repression: the N-terminal zinc finger region and a C-terminal effector
domain. Both domains are also conserved in Mig1p homologs from the distantly related yeasts Kluyveromyces lactis and K. marxianus, and these Mig1 proteins can fully replace the endogenous Mig1p in S. cerevisiae. We have now made a detailed analysis of the conserved C-terminal effector domain in Mig1p from K. marxianus, using expression in S. cerevisiae to monitor its function. First, a series of small deletions were made within the effector domain. Second, an alanine scan
mutagenesis was carried out across the effector domain. Third, double, triple and quadruple mutants were made that affect
certain residues within the effector domain. Our results show that four conserved residues within the effector domain, three
leucines and one isoleucine, are particularly important for its function in vivo. The analysis further revealed that while
the C-terminal effector domain of KmMig1p mediates a seven- to nine-fold repression of the reporter gene, a five- to sixfold
residual effect also exists that is independent of the C-terminal effector domain. Similar results were obtained when the
corresponding mutations were made in ScMig1p. Moreover, we found that mutations in these residues affect the interaction between
Mig1p and the general corepressor subunit Cyc8p (Ssn6p). Modeling of the C-terminal effector domain using a protein of known
structure suggests that it may be folded into an α-helix.
Received: 30 March 1998 / Accepted: 18 August 1998 相似文献
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Sarah J. Hainer Craig D. Kaplan 《BioEssays : news and reviews in molecular, cellular and developmental biology》2020,42(7):2000002
The remodel the structure of chromatin (RSC) nucleosome remodeling complex is a conserved chromatin regulator with roles in chromatin organization, especially over nucleosome depleted regions therefore functioning in gene expression. Recent reports in Saccharomyces cerevisiae have identified specificities in RSC activity toward certain types of nucleosomes. RSC has now been shown to preferentially evict nucleosomes containing the histone variant H2A.Z in vitro. Furthermore, biochemical activities of distinct RSC complexes has been found to differ when their nucleosome substrate is partially unraveled. Mammalian BAF complexes, the homologs of yeast RSC and SWI/SNF complexes, are also linked to nucleosomes with H2A.Z, but this relationship may be complex and extent of conservation remains to be determined. The interplay of remodelers with specific nucleosome substrates and regulation of remodeler outcomes by nucleosome composition are tantalizing questions given the wave of structural data emerging for RSC and other SWI/SNF family remodelers. 相似文献