Reference: Gencoglu M, et al. (2017)
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Abstract
Protein interaction networks play a key role in signal processing. Despite the progress in identifying the interactions, the quantification of their strengths lags behind. Here we present an approach to quantify the in vivo binding of proteins to their binding partners in signaling-transcriptional networks, by the pairwise genetic isolation of each interaction and by varying the concentration of the interacting components over time. The absolute quantification of the protein concentrations was performed with targeted mass spectrometry. The strengths of the interactions, as defined by the apparent dissociation constants, ranged from subnanomolar to micromolar values in the yeast galactose signaling network. The weak homodimerization of the Gal4 activator amplifies the signal elicited by glucose. Furthermore, combining the binding constants in a feedback loop correctly predicted cellular memory, a characteristic network behavior. Thus, this genetic-proteomic binding assay can be used to faithfully quantify how strongly proteins interact with proteins, DNA and metabolites.
- Reference Type
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Journal Article
- Authors
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Gencoglu M,
Schmidt A,
Becskei A
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- GAL3 | GAL1 | GAL4 | GAL80 | GAL3-GAL80 transcription regulation complex | GAL1-GAL80 transcription regulation complex | GAL4-GAL80 transcription repressor complex
- GAL7
Gene Ontology Annotations
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Evidence ID |
Analyze ID |
Gene/Complex |
Systematic Name/Complex Accession |
Qualifier |
Gene Ontology Term ID |
Gene Ontology Term |
Aspect |
Annotation Extension |
Evidence |
Method |
Source |
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Reference |
Phenotype Annotations
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Analyze ID |
Gene |
Gene Systematic Name |
Phenotype |
Experiment Type |
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Mutant Information |
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Chemical |
Details |
Reference |
Disease Annotations
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Analyze ID |
Gene |
Gene Systematic Name |
Disease Ontology Term |
Disease Ontology Term ID |
Qualifier |
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Source |
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Reference |
Regulation Annotations
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Evidence ID |
Analyze ID |
Regulator |
Regulator Systematic Name |
Target |
Target Systematic Name |
Direction |
Regulation of |
Happens During |
Regulator Type |
Direction |
Regulation Of |
Happens During |
Method |
Evidence |
Strain Background |
Reference |
Post-translational Modifications
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Interaction Annotations
Genetic Interactions
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genes involved in the interaction.
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Analyze ID |
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Interactor |
Interactor Systematic Name |
Interactor |
Interactor Systematic Name |
Allele |
Assay |
Annotation |
Action |
Phenotype |
SGA score |
P-value |
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Reference |
Note |
Physical Interactions
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| Interactor | Interactor | Assay | Annotation | Action | Modification |
PCA is the best fit system for the genetic-proteomic binding assay introduced in this paper | GAL1 | GAL80 | PCA | manually curated | Bait-Hit | No Modification |
PCA is the best fit system for the genetic-proteomic binding assay introduced in this paper | GAL3 | GAL80 | PCA | manually curated | Bait-Hit | No Modification |
PCA is the best fit system for the genetic-proteomic binding assay introduced in this paper | GAL4 | GAL4 | PCA | manually curated | Hit-Bait | No Modification |
PCA is the best fit system for the genetic-proteomic binding assay introduced in this paper | GAL80 | GAL4 | PCA | manually curated | Bait-Hit | No Modification |
PCA is the best fit system for the genetic-proteomic binding assay introduced in this paper | GAL80 | GAL80 | PCA | manually curated | Hit-Bait | No Modification |
Functional Complementation Annotations
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Complement ID |
Locus ID |
Gene |
Species |
Gene ID |
Strain background |
Direction |
Details |
Source |
Reference |