Splicing Factor SRp30c Interaction with Y-box Protein-1 Confers Nuclear YB-1 Shuttling and Alternative Splice Site Selection

Abstract

The multifunctional DNA-and RNA-associated Y-box protein 1 (YB-1) specifically binds to splicing recognition motifs and regulates alternative splice site selection. Here, we identify the arginine/serine-rich SRp30c protein as an interacting protein of YB-1 by performing a two-hybrid screen against a human mesangial cell cDNA library. Co-immunoprecipitation studies confirm a direct interaction of tagged proteins YB-1 and SRp30c in the absence of RNA via two independent protein domains of YB-1. A high affinity interaction is conferred through the N-terminal region. We show that the subcellular YB-1 localization is dependent on the cellular SRp30c content. In proliferating cells, YB-1 localizes to the cytoplasm, whereas FLAG-SRp30c protein is detected in the nucleus. After overexpression of YB-1 and FLAG-SRp30c, both proteins are co-localized in the nucleus, and this requires the N-terminal region of YB-1. Heat shock treatment of cells, a condition under which SRp30c accumulates in stress-induced Sam68 nuclear bodies, abrogates the co-localization and YB-1 shuttles back to the cytoplasm. Finally, the functional relevance of the YB-1/SRp30c interaction for in vivo splicing is demonstrated in the E1A minigene model system. Here, changes in splice site selection are detected, that is, overexpression of YB-1 is accompanied by preferential 5 splicing site selection and formation of the 12 S isoform.The Y-box protein YB-1 is a member of the cold shock protein family, which exhibits pleiotropic functions. YB-1 specifically binds to a sequence motif termed Y-box. This motif is characterized by the presence of a core ATTGG sequence, which represents the inverted CCAAT-box. YB-1 controls the transcription of numerous genes that among others include MHC class II antigen, MDR1, MMP-2, and COL1A1 (1-4). DNA binding specificity is mediated through the evolutionarily conserved cold shock domain in conjunction with the adjacent C-terminal protein residues (5, 6). Interactions of YB-1 with numerous cellular and viral transcription factors including JC virus antigen (7), AP-2 (8), Pur␣ (9), CTCF (10), and p53 (11, 12) have been demonstrated. These interactions may in part explain cell-specific gene regulation, that is, stimulation and repression of transcription, even of the same gene (3). In addition, it has been proposed that YB-1 plays a role as an architectural protein by its propensity to sequence specifically unwind DNA duplexes and stabilize single-stranded templates, thereby altering sequence recognition motifs (1,4,8).In addition to their role in regulating gene transcription, cold shock proteins exhibit a wide spectrum of activities by virtue of sequence-specific and -nonspecific RNA binding. YB-1 has been identified as the major component of messenger ribonucleoprotein particles (mRNPs) in mammalian cells, which constitute templates for the translational machinery (13-15). At higher concentrations Y-box proteins Xenopus FRGY2 and human YB-1 act as repressors of translation in a process called mRNA masking (13, 16 -18), wh...

Emerging Roles of the Nucleolus in Regulating the DNA Damage Response: The Noncanonical DNA Repair Enzyme APE1/Ref-1 as a Paradigmatical Example

“…Furthermore, the in vivo involvement of APE1 in RNA metabolic pathways was further corroborated by the observation of the APE1 association, through its N-terminal domain, with rRNA and the ribosome processing protein NPM1 within nucleoli (149). Furthermore, APE1 has been shown to interact with factors involved in the splicing process, such as the heterogeneous nuclear ribonucleoprotein L (81) [which is a key regulator of splicing that binds CA repeats with high affinity (65)], YB-1 (29,119), as well as with proteins involved in the ribosome assembly and RNA maturation within cytoplasm (149).…”

Some p53-binding proteins that can function as arbiters of life and death

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