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UPF3B
Available structures PDB Human UniProt search: PDBe RCSB List of PDB id codes 1UW4, 2XB2
Identifiers
Aliases	UPF3B, HMRX62, MRXS14, RENT3B, UPF3X, Upf3p-X, UPF3BP1, UPF3BP2, UPF3BP3, UPF3 regulator of nonsense transcripts homolog B (yeast), UPF3 regulator of nonsense transcripts homolog B, regulator of nonsense mediated mRNA decay, UPF3B regulator of nonsense mediated mRNA decay, MRX82
External IDs	OMIM: 300298; MGI: 1915384; HomoloGene: 11307; GeneCards: UPF3B; OMA:UPF3B - orthologs
Gene location (Human) Chr. X chromosome (human) Band Xq24 Start 119,805,311 bp End 119,852,998 bp
Gene location (Mouse) Chr. X chromosome (mouse) Band X|X A3.3 Start 37,091,678 bp End 37,110,322 bp
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in sural nerve embryo cerebellar hemisphere ganglionic eminence endothelial cell amniotic fluid right hemisphere of cerebellum ventricular zone testicle visceral pleura Top expressed in Ileal epithelium Paneth cell neural layer of retina pineal gland medullary collecting duct retinal pigment epithelium epithelium of lens islet of Langerhans fossa substantia nigra More reference expression data BioGPS More reference expression data
Gene ontology Molecular function protein binding mRNA binding structural constituent of nuclear pore nucleic acid binding RNA binding Cellular component exon-exon junction complex nucleoplasm microtubule organizing center nucleolus nucleus cytoplasm cytosol Biological process mRNA splicing, via spliceosome termination of RNA polymerase II transcription mRNA transport mRNA export from nucleus positive regulation of translation nuclear-transcribed mRNA catabolic process, nonsense-mediated decay mRNA 3'-end processing RNA export from nucleus transport Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 65109 68134 Ensembl ENSG00000125351 ENSMUSG00000036572 UniProt Q9BZI7 n/a RefSeq (mRNA) NM_023010 NM_080632 NM_026573 RefSeq (protein) NP_075386 NP_542199 n/a Location (UCSC) Chr X: 119.81 – 119.85 Mb Chr X: 37.09 – 37.11 Mb PubMed search
Wikidata
View/Edit Human View/Edit Mouse

Regulator of nonsense transcripts 3B is a protein that in humans is encoded by the UPF3B gene.

This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. The encoded protein is one of two functional homologs to yeast Upf3p. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein binds to the mRNA and remains bound after nuclear export, acting as a nucleocytoplasmic shuttling protein. It forms with Y14 a complex that binds specifically 20 nt upstream of exon-exon junctions. This gene is located on the long arm of chromosome X. Two splice variants encoding different isoforms have been found for this gene.

Interactions

UPF3B has been shown to interact with UPF2 and UPF1.

References

1. ^ GRCh38: Ensembl release 89: ENSG00000125351 – Ensembl, May 2017
2. ^ GRCm38: Ensembl release 89: ENSMUSG00000036572 – Ensembl, May 2017
3. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
4. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
5. Serin G, Gersappe A, Black JD, Aronoff R, Maquat LE (Jan 2001). "Identification and characterization of human orthologues to Saccharomyces cerevisiae Upf2 protein and Upf3 protein (Caenorhabditis elegans SMG-4)". Mol Cell Biol. 21 (1): 209–23. doi:10.1128/MCB.21.1.209-223.2001. PMC 88795. PMID 11113196.
6. ^ Lykke-Andersen J, Shu MD, Steitz JA (Feb 2001). "Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon". Cell. 103 (7): 1121–31. doi:10.1016/S0092-8674(00)00214-2. PMID 11163187.
7. ^ "Entrez Gene: UPF3B UPF3 regulator of nonsense transcripts homolog B (yeast)".
8. Lehner, Ben; Sanderson Christopher M (Jul 2004). "A protein interaction framework for human mRNA degradation". Genome Res. 14 (7): 1315–23. doi:10.1101/gr.2122004. ISSN 1088-9051. PMC 442147. PMID 15231747.
9. ^ Lejeune, Fabrice; Li Xiaojie; Maquat Lynne E (Sep 2003). "Nonsense-mediated mRNA decay in mammalian cells involves decapping, deadenylating, and exonucleolytic activities". Mol. Cell. 12 (3): 675–87. doi:10.1016/S1097-2765(03)00349-6. ISSN 1097-2765. PMID 14527413.
10. Lykke-Andersen, Jens (Dec 2002). "Identification of a human decapping complex associated with hUpf proteins in nonsense-mediated decay". Mol. Cell. Biol. 22 (23): 8114–21. doi:10.1128/MCB.22.23.8114-8121.2002. ISSN 0270-7306. PMC 134073. PMID 12417715.
11. Schell, Thomas; Köcher Thomas; Wilm Matthias; Seraphin Bertrand; Kulozik Andreas E; Hentze Matthias W (Aug 2003). "Complexes between the nonsense-mediated mRNA decay pathway factor human upf1 (up-frameshift protein 1) and essential nonsense-mediated mRNA decay factors in HeLa cells". Biochem. J. 373 (Pt 3): 775–83. doi:10.1042/BJ20021920. ISSN 0264-6021. PMC 1223536. PMID 12723973.

Further reading

• Cross SH, Charlton JA, Nan X, Bird AP (1994). "Purification of CpG islands using a methylated DNA binding column". Nat. Genet. 6 (3): 236–44. doi:10.1038/ng0394-236. PMID 8012384. S2CID 12847618.
• Wilson KF, Fortes P, Singh US, et al. (1999). "The nuclear cap-binding complex is a novel target of growth factor receptor-coupled signal transduction". J. Biol. Chem. 274 (7): 4166–73. doi:10.1074/jbc.274.7.4166. PMID 9933612.
• Kim VN, Kataoka N, Dreyfuss G (2001). "Role of the nonsense-mediated decay factor hUpf3 in the splicing-dependent exon-exon junction complex". Science. 293 (5536): 1832–6. Bibcode:2001Sci...293.1832K. doi:10.1126/science.1062829. PMID 11546873. S2CID 12018200.
• Lykke-Andersen J, Shu MD, Steitz JA (2001). "Communication of the position of exon-exon junctions to the mRNA surveillance machinery by the protein RNPS1". Science. 293 (5536): 1836–9. Bibcode:2001Sci...293.1836L. doi:10.1126/science.1062786. PMID 11546874. S2CID 389385.
• Lejeune F, Ishigaki Y, Li X, Maquat LE (2002). "The exon junction complex is detected on CBP80-bound but not eIF4E-bound mRNA in mammalian cells: dynamics of mRNP remodeling". EMBO J. 21 (13): 3536–45. doi:10.1093/emboj/cdf345. PMC 126094. PMID 12093754.
• Lykke-Andersen J (2003). "Identification of a human decapping complex associated with hUpf proteins in nonsense-mediated decay". Mol. Cell. Biol. 22 (23): 8114–21. doi:10.1128/MCB.22.23.8114-8121.2002. PMC 134073. PMID 12417715.
• Strausberg RL, Feingold EA, Grouse LH, et al. (2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci. U.S.A. 99 (26): 16899–903. Bibcode:2002PNAS...9916899M. doi:10.1073/pnas.242603899. PMC 139241. PMID 12477932.
• Chiu SY, Serin G, Ohara O, Maquat LE (2003). "Characterization of human Smg5/7a: a protein with similarities to Caenorhabditis elegans SMG5 and SMG7 that functions in the dephosphorylation of Upf1". RNA. 9 (1): 77–87. doi:10.1261/rna.2137903. PMC 1370372. PMID 12554878.
• Gehring NH, Neu-Yilik G, Schell T, et al. (2003). "Y14 and hUpf3b form an NMD-activating complex". Mol. Cell. 11 (4): 939–49. doi:10.1016/S1097-2765(03)00142-4. PMID 12718880.
• Schell T, Köcher T, Wilm M, et al. (2003). "Complexes between the nonsense-mediated mRNA decay pathway factor human upf1 (up-frameshift protein 1) and essential nonsense-mediated mRNA decay factors in HeLa cells". Biochem. J. 373 (Pt 3): 775–83. doi:10.1042/BJ20021920. PMC 1223536. PMID 12723973.
• Lejeune F, Li X, Maquat LE (2003). "Nonsense-mediated mRNA decay in mammalian cells involves decapping, deadenylating, and exonucleolytic activities". Mol. Cell. 12 (3): 675–87. doi:10.1016/S1097-2765(03)00349-6. PMID 14527413.
• Ota T, Suzuki Y, Nishikawa T, et al. (2004). "Complete sequencing and characterization of 21,243 full-length human cDNAs". Nat. Genet. 36 (1): 40–5. doi:10.1038/ng1285. PMID 14702039.
• Kadlec J, Izaurralde E, Cusack S (2004). "The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3". Nat. Struct. Mol. Biol. 11 (4): 330–7. doi:10.1038/nsmb741. PMID 15004547. S2CID 23042477.
• Lehner B, Sanderson CM (2004). "A protein interaction framework for human mRNA degradation". Genome Res. 14 (7): 1315–23. doi:10.1101/gr.2122004. PMC 442147. PMID 15231747.
• Andersen JS, Lam YW, Leung AK, et al. (2005). "Nucleolar proteome dynamics". Nature. 433 (7021): 77–83. Bibcode:2005Natur.433...77A. doi:10.1038/nature03207. PMID 15635413. S2CID 4344740.
• Kim YK, Furic L, Desgroseillers L, Maquat LE (2005). "Mammalian Staufen1 recruits Upf1 to specific mRNA 3'UTRs so as to elicit mRNA decay". Cell. 120 (2): 195–208. doi:10.1016/j.cell.2004.11.050. PMID 15680326.
• Gehring NH, Kunz JB, Neu-Yilik G, et al. (2005). "Exon-junction complex components specify distinct routes of nonsense-mediated mRNA decay with differential cofactor requirements". Mol. Cell. 20 (1): 65–75. doi:10.1016/j.molcel.2005.08.012. PMID 16209946.
• Kunz JB, Neu-Yilik G, Hentze MW, et al. (2006). "Functions of hUpf3a and hUpf3b in nonsense-mediated mRNA decay and translation". RNA. 12 (6): 1015–22. doi:10.1261/rna.12506. PMC 1464862. PMID 16601204.

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