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Mittal N, et al.  (2011) Interplay between posttranscriptional and posttranslational interactions of RNA-binding proteins. J Mol Biol 409(3):466-79

Abstract: RNA-binding proteins (RBPs) play important roles in the posttranscriptional control of gene expression. However, our understanding of how RBPs interact with each other at different regulatory levels to coordinate the RNA metabolism of the cell is rather limited. Here, we construct the posttranscriptional regulatory network among 69 experimentally studied RBPs in yeast to show that more than one-third of the RBPs autoregulate their expression at the posttranscriptional level and demonstrate that autoregulatory RBPs show reduced protein noise with a tendency to encode for hubs in this network. We note that in- and outdegrees in the posttranscriptional RBP-RBP regulatory network exhibit gaussian and scale-free distributions, respectively. This network was also densely interconnected with extensive cross-talk between RBPs belonging to different posttranscriptional steps, regulating varying numbers of cellular RNA targets. We show that feed-forward loops and superposed feed-forward/feedback loops are the most significant three-node subgraphs in this network. Analysis of the corresponding protein-protein interaction (posttranslational) network revealed that it is more modular than the posttranscriptional regulatory network. There is significant overlap between the regulatory and protein-protein interaction networks, with RBPs that potentially control each other at the posttranscriptional level tending to physically interact and being part of the same ribonucleoprotein (RNP) complex. Our observations put forward a model wherein RBPs could be classified into those that can stably interact with a limited number of protein partners, forming stable RNP complexes, and others that form transient hubs, having the ability to interact with multiple RBPs forming many RNPs in the cell.

Status: Published Type: Journal Article PubMed ID: 21501624

Topics addressed in this paper

Number of different genes curated to this paper: 64

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Topics Topics not linked to Genes Genes linked to topics (#1 - 10 )
ACO1 ARC15 ARF3 ARP8 ATG8 BFR1 BUB1 BUD27 CBC2 CBF5
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Topics Genes linked to topics (#11 - 20 )
CRG1 DFR1 GBP2 GCY1 GIS2 GRE3 GUS1 HEK2 HSP26 IDH1
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Topics Genes linked to topics (#21 - 30 )
JSN1 LAP3 LYS1 MAP1 MDH1 MDH3 MEU1 MPT5 MRN1 NAB2
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Topics Genes linked to topics (#31 - 40 )
NAB3 NAB6 NOP56 NPL3 NRD1 NRP1 NSR1 PAB1 PAD1 PBP2
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PCS60 PFK2 PGD1 PHR1 PIN4 POT1 PRE10 PUB1 PUF2 PUF4
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Topics Genes linked to topics (#51 - 60 )
SCD6 SCP160 SGN1 SHE2 SKI2 SSD1 STI1 TDH3 UBP3 VTC1
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Topics Genes linked to topics (#61 - 64 )
VTS1 YLL032C YMR1 YRA2
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