Protein-protein interaction (PPI)
DroPNet: a web portal for integrated analysis of Drosophila protein-protein interaction networks
... (Drosophila Protein Network) is a Drosophila-dedicated web portal for generating and analyzing protein–protein interaction (PPI) ...corresponding protein indirectly links two entry ...
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Probing the dynamic properties of two sites simultaneously in a protein–protein interaction process: a SDSL-EPR study
... processes, protein flexibility is a fundamental property allowing protein-protein ...during protein-protein ...a protein or two partner proteins at the same time because of ...
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Finding Occurrences of Protein Complexes in Protein-Protein Interaction Graphs
... [6] H.L. Bodlaender, R.G. Downey, M.R. Fellows, M.T. Hallett, and H.T. Wareham, Parameterized complexity analysis in computational biology, Computer Applications in the Biosciences 11 (1995), 49–57. [7] G. Brevier, R. ...
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A New Protein-Protein Interaction Sensor Based on Tripartite Split-GFP Association
... soluble protein and tracking proteins in vivo 15–17 ...for protein-protein interaction ...new protein interaction assay based on the association of three fragments of the GFP: ...
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Cell surface protein-protein interaction analysis with combined time-resolved FRET and snap-tag technologies: application to GPCR oligomerization
... Abstract Cell surface proteins play key roles in cell-cell communication. They assemble into hetero-complexes that include different receptors and effectors. Demonstrating and manipulating such protein complexes ...
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An expanded protein-protein interaction network in Bacillus subtilis reveals a group of hubs: Exploration by an integrative approach
... (Supporting Information Table S3), and inter-array normalization was performed as described in Section 2. Within this data set, replicates for each condition were averaged to form a non-redundant data set containing 573 ...
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Genetic Algorithm to Detect Different Sizes’ Communities from Protein-Protein Interaction Networks
... the Protein-protein or Gene-gene Interaction (PPI) ...represent protein-protein or gene-gene interactions which corresponds to a set of proteins or genes that collaborate at the same ...
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Global alignment of protein-protein interaction networks by graph matching methods.
... The GNA problems we studied have several extensions. First, it may be interesting to consider alignment of weighted PPI networks with weights representing, for instance, experimental evidence of interaction ...
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The iPPI-DB initiative: a community-centered database of protein–protein interaction modulators
... 2 A paradigm shift in our model of data curation The pharmacological results that are valuable for specialized data- bases like iPPI-DB are retrieved from peer-reviewed publications including scientific articles and ...
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Genome-wide identification, phylogenetic analysis, expression profiling, and protein-protein interaction properties of TOPLESS gene family members in tomato
... resonance may provide deeper insight on discriminating interaction features among various TPL isoforms. Functional redundancy among Arabidopsis TPL family members is supported by the absence of obvious phenotypes ...
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JET2 Viewer: a database of predicted multiple, possibly overlapping, protein–protein interaction sites for PDB structures
... of protein–protein interfaces and discriminates them from small-molecule binding ...that interaction sites previously difficult to detect ( 8 ) are actu- ally formed by either one or two layers ( 16 ...
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A computational tool to predict the evolutionarily conserved protein-protein interaction hot-spot residues from the structure of the unbound protein
... a protein leads to lower observed accuracy of the predictive computational methods than their true ...unbound protein will fail to account for the conformational change in the structure of the ...
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A Cell-Type-Specific Protein-Protein Interaction Modulates Transcriptional Activity of a Master Regulator in Caulobacter crescentus
... SciP protein only accumulates in swarmer cells, suggesting either SciP is rapidly degraded in predivisional cells or the translation of sciP is blocked in predivisional cells and/or activated in swarmer ...
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Protein-Protein Interaction in Purple Membrane
... high protein concentration in biological membranes may lead to long-range protein-protein interactions, which were speculated some time ago [ 1 ...cooperative protein dynamics, may be ...
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Systematic protein–protein interaction mapping for clinically relevant human GPCR s
... Technical progress has also been made in developing methods based on fluorescence or bioluminescence resonance energy transfer (FRET or BRET) to study GPCR-interacting partners in live mamma- lian cells with kinetics ...
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Structural deformation upon protein-protein interaction: A structural alphabet approach
... in Figure 8. Structural motif GOIF is seen in two unrelated complexes: 1AHW, an antibody/antigen complex, and 1BVN, an enzyme/substrate complex. The local C α rmsd for the corresponding fragment is 1.4 Å between unbound ...
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Design and synthesis of probes for detection of protein-protein interaction and RNA localization
... The solution was stirred until TLC (1% AcOH, 5% MeOH in DCM) showed complete removal of the pivolate groups. THF was removed in vacuo and the resulting aqueous solution tre[r] ...
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Coev2Net: a computational framework for boosting confidence in high-throughput protein-protein interaction datasets
... To test the framework’s ability to predict interactions for which there is often no structural data available and to assign confidence values to interactions, we re-trained Coev2Net on a[r] ...
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Design of protein-protein interaction specificity using computational methods and experimental library screening
... We started by designing a library to be screened for sequences showing binding specificity for Bfl-1 over Bcl-xL, MCl-1, Bcl-w and Bcl-2, guided by the PSSM models derived fr[r] ...
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Designing helical peptide inhibitors of protein–protein interactions
... helix-mediated protein-protein interaction, a native helical segment can be made as a constrained peptide that works as an inhibitor of ...interacting protein.[25,69–72] Interestingly, myoA ...
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