MRNA isoformRNAsPTBP1MammalianIntronicNucleic acidTranscript variantsSplicePutativeSpecificitySnRNPRegulatesNuclearConstitutivelyRBPsEnzymesSubunitAlternativelyCytoplasmicConformationalMRNAsDiversityGenesYeastInitiationMotifsEnrichmentMechanismRegulatoryRegulatorExpressionSequenceViralTranscriptsTranscriptionContrastTailHumanSynthesisClinicalStabilityCoordinated modulationFunctionCellTissueIRESInteractionsTranslationFamilyShownStress conditionsImportant
MRNA isoform1
- Suppression of premature transcription termination leads to reduced mRNA isoform diversity and neurodegeneration. (rochester.edu)
RNAs7
- The protein encoded by this gene has four repeats of quasi-RNA recognition motif (RRM) domains that bind RNAs. (wikipedia.org)
- Human ZAP inhibits many viruses, including HIV and coronaviruses, by binding to viral RNAs to promote their degradation and/or translation suppression. (bvsalud.org)
- To address the second, we investigated RNAs bound by the metabolic enzyme hydroxysteroid dehydrogenase 17-β 10 (HSD17B10). (nature.com)
- After cell lysis, polyadenylated RNAs were captured on oligo d(T) beads followed by stringent washes to remove non-crosslinked proteins. (nature.com)
- instead, GAPDH binds to the 3' termini of plus- and minus-strand RNAs of JEV by electrophoretic mobility shift assays. (biomedcentral.com)
- Accordingly, GAPDH binds to the minus strand more efficiently than to the plus strand of JEV RNAs. (biomedcentral.com)
- MicroRNAs regulate gene expression at the post-transcriptional level by binding to 3′- or less often to 5′-untranslated regions of target messenger RNAs (mRNAs), which in consequence leads to inhibited translation and/or induces degradation of targeted mRNA [ 1 ]. (archivesofmedicalscience.com)
PTBP12
- Polypyrimidine tract-binding protein 1 is a protein that in humans is encoded by the PTBP1 gene. (wikipedia.org)
- During neuronal differentiation, miR-124 reduces PTBP1 levels, leading to the accumulation of correctly spliced PTBP2 mRNA and a dramatic increase in PTBP2 protein. (wikipedia.org)
Mammalian2
- There are three major isoforms of BAG-1 in mammalian cells, termed BAG-1L (p50), BAG-1M (p46) and BAG-1S (p36) that function as pro-survival proteins and are associated with tumorigenesis and chemoresistance. (nature.com)
- Recently developed unbiased high content techniques to identify RBPs in vivo yielded information on differences in cell type-specific expression and/or RNA-binding activity of RBPs in mammalian cells 2 , 3 . (nature.com)
Intronic2
- Alternative polyadenylation alters protein dosage by switching between intronic and 3'UTR sites. (rochester.edu)
- This protein binds to the intronic polypyrimidine tracts that requires pre-mRNA splicing and acts via the protein degradation ubiquitin-proteasome pathway. (wikipedia.org)
Nucleic acid2
- The hnRNP proteins have distinct nucleic acid binding properties. (wikipedia.org)
- In order to obtain more detailed information regarding the interaction between host proteins and the defined viral nucleic acid and/or proteins, we investigated the host factors associating with the main replicase enzyme, NS5, in the JEV-infected cells using yeast-two hybrid screening. (biomedcentral.com)
Transcript variants2
- Alternatively spliced transcript variants encoding different isoforms have been described. (wikipedia.org)
- Two transcript variants encoding distinct isoforms have been identified for the ZO-1 gene. (thermofisher.com)
Splice3
- Different splice variants of a given protein can display different and even antagonistic biological functions. (biologists.com)
- It binds the 3′ AG splice acceptor dinucleotide of the pre-mRNA target intron, and forms a heterodimer with U2AF2 , which binds the adjacent polypyrimidine tract. (massgenomics.org)
- This machinery recognizes pre-mRNA sequences at several motifs - the 5′ and 3′ splice sites, the branch point, and polypyrimidine tracts - positioned at exon-intron boundaries [ 4 ]. (biomedcentral.com)
Putative1
- Raver-1 contains three N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two putative nuclear localization signals (NLS) at the N- and C-termini, a central leucine-rich region, and a C-terminal region harboring two PTB-binding [SG][IL]LGxxP motifs. (nih.gov)
Specificity4
- Glial brain-region specificity in isoform expression includes strong poly(A)-site regulation, whereas neurons have stronger TSS regulation. (biorxiv.org)
- However, human brains have evolved additional cell-type specificity in splicing, suggesting gain-of-function isoforms. (biorxiv.org)
- Analyses of the mitochondrial hydroxysteroid dehydrogenase (HSD17B10) uncover the RNA-binding specificity of an enigmRBP. (nature.com)
- We also determined the RNA targets of an RNA-binding mitochondrial enzyme and show its specificity in RNA binding. (nature.com)
SnRNP2
- It may also promote the binding of U2 snRNP to pre-mRNAs. (wikipedia.org)
- The large ~280-kDa U5 snRNP protein PRPF8 is central to the dynamics of spliceosome assembly [ 11 ]. (biomedcentral.com)
Regulates1
- 2006). Polypyrimidine tract binding protein regulates IRES-mediated gene expression during apoptosis. (nature.com)
Nuclear5
- The hnRNPs are RNA-binding proteins and they complex with heterogeneous nuclear RNA (hnRNA). (wikipedia.org)
- This subgroup corresponds to the RRM1 of raver-1, a ubiquitously expressed heterogeneous nuclear ribonucleoprotein (hnRNP) that serves as a co-repressor of the nucleoplasmic splicing repressor polypyrimidine tract-binding protein (PTB)-directed splicing of select mRNAs. (nih.gov)
- A beta-hairpin comprising the nuclear localization sequence sustains the self-associated states of nucleosome assembly protein 1. (colorado.edu)
- Characterization of DNA binding, transcriptional activation, and regulated nuclear association of recombinant human NFATp. (colorado.edu)
- This process is carried out by the human spliceosome machinery, in which over 300 proteins sequentially assemble with uridine-rich small nuclear RNA molecules (U snRNAs) to form distinct small nuclear ribonucleoprotein complexes (snRNPs). (biomedcentral.com)
Constitutively1
- Two major alternatively spliced ZAP isoforms, the constitutively expressed ZAPL and the infection-inducible ZAPS, play overlapping yet different antiviral and other roles that need further characterization. (bvsalud.org)
RBPs5
- RNA-binding proteins (RBPs) regulate gene expression at the post-transcriptional level. (encyclopedia.pub)
- LIN28 (LIN28A and LIN28B) proteins are highly conserved small cytoplasmic RNA-binding proteins (RBPs) that function as pluripotency factors, regulating the transition from self-renewal to a differentiated cell fate [ 1 ] . (encyclopedia.pub)
- RNA-binding proteins (RBPs) exert a broad range of biological functions. (nature.com)
- Only 60% of yeast and 73% of the human RBPs have functions assigned to RNA biology or structural motifs known to convey RNA binding, and many intensively studied proteins surprisingly emerge as RBPs (termed 'enigmRBPs'), including almost all glycolytic enzymes, pointing to emerging connections between gene regulation and metabolism. (nature.com)
- RNA-binding proteins (RBPs) mediate pivotal cellular functions such as RNA transport, degradation or translation and represent key effectors of post-transcriptional gene regulation. (nature.com)
Enzymes3
- Until the discovery of ribozymes, it had been assumed that enzymes could only be generated with the diversity of structures possible with the amino acids in proteins. (pressbooks.pub)
- We show that this conserved RNA interactome harbours many proteins without previously assigned roles in RNA biology (enigmRBPs), including surprisingly many metabolic enzymes. (nature.com)
- It is estimated that microRNAs regulate production of approximately 60% of all human proteins and enzymes that are responsible for major physiological processes. (archivesofmedicalscience.com)
Subunit1
- It specifically binds Na+/K+-ATPase -subunit to inhibit Na+/K+-ATPase, which has been explored in a number of clinical studies for cancers treatment today. (tech-strategy.org)
Alternatively1
- Raver-1 also modulates focal adhesion assembly by binding to the cytoskeletal proteins, including alpha-actinin, vinculin, and metavinculin (an alternatively spliced isoform of vinculin) at adhesion complexes, particularly in differentiated muscle tissue. (nih.gov)
Cytoplasmic1
- ZO-1 is a protein located on a cytoplasmic membrane surface of intercellular tight junctions. (thermofisher.com)
Conformational1
- CRP is a dynamic protein undergoing conformational changes upon activation in inflammatory microenvironments between pentameric and monomeric isoforms. (bvsalud.org)
MRNAs2
- These proteins are associated with pre-mRNAs in the nucleus and appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. (wikipedia.org)
- Transcriptomic analysis of ZAP-isoform-specific knockout cells revealed uncharacterized host mRNAs targeted by ZAPL/S with broad cellular functions such as unfolded protein response (UPR), epithelial-mesenchymal transition (EMT), and innate immunity. (bvsalud.org)
Diversity1
- Alternative splicing is a crucial mechanism for generating protein diversity. (biologists.com)
Genes2
- For 75% of genes, full-length isoform expression varies along one or more axes of phenotypic origin, underscoring the pervasiveness of isoform regulation across multiple scales. (biorxiv.org)
- The transcriptomic and epigenomic regulatory landscape of the MAC genome, which has 80% protein-coding genes and short intergenic regions, is poorly understood. (uni-frankfurt.de)
Yeast2
- c ) Overlap of mRNA interactome proteins in yeast and HuH-7. (nature.com)
- d ) Validation of the yeast mRNA interactome using western blotting of input samples and eluate after interactome capture with specific antibodies (ADH1, alcohol dehydrogenase 1, PUB1) or against TAP-tagged proteins (PGK1, phosphoglycerate kinase 1, TDH1, triose phosphate dehydrogenase, TRX2, thioredoxine 2, SHE2, Swi5p-dependent HO Expression 2). (nature.com)
Initiation5
- Initiation of BAG-1 protein synthesis can occur by both cap-dependent and cap-independent mechanisms and it has been shown that synthesis of BAG-1S is dependent upon the presence of an internal ribosome entry segment (IRES) in the 5′-UTR of BAG-1 mRNA. (nature.com)
- We have shown previously that BAG-1 IRES-meditated initiation of translation requires two trans -acting factors poly (rC) binding protein 1 (PCBP1) and polypyrimidine tract binding protein (PTB) for function. (nature.com)
- 1999). Cellular stress in Xenopus kidney cells enhances the phoshorylation of eukaryotic initiation factor eIF(4E) and the association of eIF4F with poly(A)-binding protein. (nature.com)
- Translation initiation from this internal AUG results in an N-terminally truncated p53 isoform, described as ΔN-p53. (iisc.ac.in)
- One of the important mechanisms used for protein synthesis during these conditions is internal initiation. (iisc.ac.in)
Motifs1
- Raver1 binds to PTB through the PTB-binding motifs at its C-terminal half, and binds to other partners, such as RNA having the sequence UCAUGCAGUCUG, through its N-terminal RRMs. (nih.gov)
Enrichment2
- Gene Ontology and pathway enrichment analyses and assessment of RNA binding proteins were performed by R software, circlncRNAnet and Encyclopedia of RNA Interactomes (ENCORI). (xiahepublishing.com)
- b ) Volcano plot showing the distribution of proteins according to their enrichment in crosslinked (CL) over non-CL samples. (nature.com)
Mechanism1
- The probable mechanism of action of PTB protein has also been investigated. (iisc.ac.in)
Regulatory1
- Mutations in cis-acting splicing elements or changes in the activity of constitutive or alternative splicing could have a profound regulatory proteins that compromise the accuracy of either impact on human pathogenesis, in particular in tumor development and progression. (biologists.com)
Regulator2
- C-reactive protein (CRP), an active regulator of the innate immune system, has been related to COVID-19 severity. (bvsalud.org)
- Further, it has been shown that polypyrimidine tract binding (PTB) protein acts as an important regulator of p53 IRES activities. (iisc.ac.in)
Expression3
- By means of oligonucleotide microarray and RNA interference, we reveal that the sensitizing effect of IFN-β was possibly due to attenuation of MGMT expression via induction of the protein p53. (aacrjournals.org)
- Here, we report that drug-targeted inhibition or silencing of Unc51-like kinase 1 (ULK1) results in repression of type I IFN-induced expression of the dACE2 isoform. (bvsalud.org)
- They play major roles in the tissue- and stage-specific expression of protein isoforms as well as in the maintenance of protein homeostasis. (encyclopedia.pub)
Sequence1
- A microRNA strand is transferred to the Argonaute complex (AGO), forming an RNA-induced silencing complex (RISC), and guides it to pair with the target mRNA through binding of the microRNA seed sequence with the microRNA recognition site on the mRNA. (archivesofmedicalscience.com)
Viral3
- 2 Risk factors, including viral infection, alcoholic cirrhosis and fatty liver, along with chronic inflammatory disorders of the biliary tract, genetic diseases and carcinogens, contribute to the risk of HCC. (xiahepublishing.com)
- Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), a cellular metabolic protein, was found to colocalize with viral RNA-dependent RNA polymerase (NS5) in JEV-infected cells. (biomedcentral.com)
- viral proteins may decoy some host factors for assisting viral replication. (biomedcentral.com)
Transcripts1
- Overall, this study demonstrates that the competition between splicing and IPA is a potential target for the modulation of the ZAPL/S balance, and reports new cellular transcripts and processes regulated by the ZAP isoforms. (bvsalud.org)
Transcription1
- CCCTC-binding factor (CTCF) is a conserved transcription factor that performs diverse roles in transcriptional regulation and chromatin architecture. (preprints.org)
Contrast1
- In contrast to ACE2, the short dACE2 isoform lacks the ability to bind the spike protein of SARS-CoV-2. (bvsalud.org)
Tail1
- Then the raver1/vinculin tail (Vt) complex binds to vinculin mRNA, which is permissive for vinculin binding to F-actin. (nih.gov)
Human1
- In addition, CirclncRNAnet and ENCORI were used to find the correlation between SNHG4 and important proteins, while the prognostic value was assessed with the Human Protein Atlas database and Kaplan-Meier Plotter. (xiahepublishing.com)
Synthesis3
- Here, we show that the BAG-1 IRES maintains synthesis of BAG-1 protein following exposure of cells to the chemotoxic drug vincristine but not to cisplatin and that this is brought about, in part, by the relocalization of PTB and PCBP1 from the nucleus to the cytoplasm. (nature.com)
- Studies have suggested that synthesis of both p53 and its ΔN-p53 isoform is regulated during cell cycle and also stress and cell-type specific manner. (iisc.ac.in)
- Interestingly, reports also demonstrate continued synthesis of both p53 isoforms during stress conditions. (iisc.ac.in)
Clinical1
- Although pentameric CRP is the circulating isoform routinely tested for clinical purposes, monomeric CRP shows more proinflammatory properties. (bvsalud.org)
Stability1
- It is now well documented in literature that p53 protein accumulates in the cells following DNA damage by posttranslational modifications leading to increased stability and half life of protein. (iisc.ac.in)
Coordinated modulation1
- The same cell type traced across development shows more isoform variability than across adult anatomical regions, indicating a coordinated modulation of functional programs dictating neural development. (biorxiv.org)
Function2
- RNA isoforms influence cell identity and function. (biorxiv.org)
- We also provided evidence for a different function of the ZAP isoforms in EMT-related cell migration, with effects that are cell-type dependent. (bvsalud.org)
Cell6
- 1996). HGF receptor associates with the anti-apoptotic protein BAG-1 and prevents cell death. (nature.com)
- Until recently, technological limitations prevented a genome-wide appraisal of isoform influence on cell identity in various parts of the brain. (biorxiv.org)
- Using enhanced long-read single-cell isoform sequencing, we comprehensively analyze RNA isoforms in multiple mouse brain regions, cell subtypes, and developmental timepoints from postnatal day 14 (P14) to adult (P56). (biorxiv.org)
- We showed that the ZAP isoforms regulated different UPR branches under resting and stress conditions and affected cell viability during ER stress. (bvsalud.org)
- Shi D, Cheng X, Saquet A, Grifone R. RNA-Binding Proteins and Inner Ear Hair Cell. (encyclopedia.pub)
- RNA-Binding Proteins and Inner Ear Hair Cell" Encyclopedia , https://encyclopedia.pub/entry/30958 (accessed December 05, 2023). (encyclopedia.pub)
Tissue1
- Tissue extracts of Mouse Testis (Lane 6) and Mouse Kidney (Lane 7) were electrophoresed using NuPAGE™ 3-8% Tris-Acetate Protein Gel (Product # EA0378BOX). (thermofisher.com)
IRES2
- The former protein allows BAG-1 IRES RNA to attain a structure that permits binding of the ribosome, while the latter protein appears to be involved in ribosome recruitment. (nature.com)
- The IRES directing the translation of p53 is in the 5'-untranslated region of the mRNA, whereas the IRES mediating the translation of ΔN-p53 extends further into the protein-coding region. (iisc.ac.in)
Interactions1
- Numerous studies have shown that replication of RNA viruses is involved in many specific RNA-RNA, RNA-protein, and protein-protein interactions. (biomedcentral.com)
Translation1
- 2002). Translation of polioviral mRNA is inhibited by cleavage of polypyrimidine tract-binding proteins executed by polioviral 3C(pro). (nature.com)
Family3
- For example, kinesin family member 1B isoform beta (KIF1Bbeta) but not alpha is down-regulated in advanced stages of neuroblastoma. (biomedcentral.com)
- The Brassica family contains several economically important crops, including rapeseed (Brassica napus, 2n = 38, AACC), the second largest source of seed oil and protein meal worldwide. (preprints.org)
- Dipeptidyl peptidase (DPP) 9, DPP8, DPP4 and fibroblast activation protein (FAP) are the four enzymatically active members of the S9b protease family. (preprints.org)
Shown1
- Proteins shown in red (FDR 0.01) represent the mRNA interactome. (nature.com)
Stress conditions1
- While the level of p53 protein is maintained low in unstressed conditions, there is a rapid increase in the functional p53 protein levels during stress conditions. (iisc.ac.in)
Important1
- The DNA repair protein O 6 -methylguanine-DNA methyltransferase (MGMT) plays an important role in cellular resistance to alkylating agents. (aacrjournals.org)