UPF2

UPF2 regulator of nonsense transcripts homolog (yeast)

PDB rendering based on 1uw4.

Available structures

Ortholog search: PDBe, RCSB

List of PDB id codes
1UW4, 2WJV, 4CEK, 4CEM

Identifiers

Symbols

UPF2 ; HUPF2; RENT2; smg-3

External IDs

OMIM: 605529 MGI: 2449307 HomoloGene: 6101 GeneCards: UPF2 Gene

Gene ontology
Molecular function	• RNA binding • protein binding
Cellular component	• nucleus • cytoplasm • cytosol • exon-exon junction complex • perinuclear region of cytoplasm
Biological process	• nuclear-transcribed mRNA catabolic process, nonsense-mediated decay • liver development • mRNA export from nucleus • gene expression • RNA metabolic process • mRNA metabolic process • organ regeneration
Sources: Amigo / QuickGO

RNA expression pattern

More reference expression data

Orthologs

Species

Human

Mouse

RefSeq (mRNA)

RefSeq (protein)

Location (UCSC)

Chr 10:
11.96 – 12.09 Mb

Chr 2:
5.95 – 6.06 Mb

PubMed search

Regulator of nonsense transcripts 2 is a protein that in humans is encoded by the UPF2 gene.^[1]^[2]^[3]

This gene encodes a protein that is part of a post-splicing multiprotein complex, the exon junction complex, involved in both mRNA nuclear export and mRNA surveillance. 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 is located in the perinuclear area. It interacts with translation release factors and the proteins that are functional homologs of yeast Upf1p and Upf3p. Two splice variants have been found for this gene; both variants encode the same protein.^[3]

Interactions

UPF2 has been shown to interact with UPF1,^[1]^[4]^[5]^[6]^[7] UPF3A^[4]^[7] and UPF3B.^[4]^[7]^[8]^[9]

References

↑ 1.0 1.1 Mendell JT, Medghalchi SM, Lake RG, Noensie EN, Dietz HC (Dec 2000). "Novel Upf2p Orthologues Suggest a Functional Link between Translation Initiation and Nonsense Surveillance Complexes". Mol Cell Biol 20 (23): 8944–57. doi:10.1128/MCB.20.23.8944-8957.2000. PMC 86549. PMID 11073994.
↑ Serin G, Gersappe A, Black JD, Aronoff R, Maquat LE (January 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.
↑ 3.0 3.1 "Entrez Gene: UPF2 UPF2 regulator of nonsense transcripts homolog (yeast)".
↑ 4.0 4.1 4.2 Lejeune, Fabrice; Li Xiaojie; Maquat Lynne E (September 2003). "Nonsense-mediated mRNA decay in mammalian cells involves decapping, deadenylating, and exonucleolytic activities". Mol. Cell (United States) 12 (3): 675–87. doi:10.1016/S1097-2765(03)00349-6. ISSN 1097-2765. PMID 14527413.
↑ Schell, Thomas; Köcher Thomas; Wilm Matthias; Seraphin Bertrand; Kulozik Andreas E; Hentze Matthias W (August 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. (England) 373 (Pt 3): 775–83. doi:10.1042/BJ20021920. ISSN 0264-6021. PMC 1223536. PMID 12723973.
↑ Yamashita, A; Ohnishi T; Kashima I; Taya Y; Ohno S (September 2001). "Human SMG-1, a novel phosphatidylinositol 3-kinase-related protein kinase, associates with components of the mRNA surveillance complex and is involved in the regulation of nonsense-mediated mRNA decay". Genes Dev. (United States) 15 (17): 2215–28. doi:10.1101/gad.913001. ISSN 0890-9369. PMC 312771. PMID 11544179.
↑ 7.0 7.1 7.2 Lykke-Andersen, J; Shu M D; Steitz J A (Dec 2000). "Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon". Cell (United States) 103 (7): 1121–31. doi:10.1016/S0092-8674(00)00214-2. ISSN 0092-8674. PMID 11163187.
↑ Lehner, Ben; Sanderson Christopher M (July 2004). "A Protein Interaction Framework for Human mRNA Degradation". Genome Res. (United States) 14 (7): 1315–23. doi:10.1101/gr.2122004. ISSN 1088-9051. PMC 442147. PMID 15231747.
↑ Lykke-Andersen, Jens (Dec 2002). "Identification of a Human Decapping Complex Associated with hUpf Proteins in Nonsense-Mediated Decay". Mol. Cell. Biol. (United States) 22 (23): 8114–21. doi:10.1128/MCB.22.23.8114-8121.2002. ISSN 0270-7306. PMC 134073. PMID 12417715.

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.
Nagase T; Kikuno R; Ishikawa KI et al. (2000). "Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro". DNA Res. 7 (1): 65–73. doi:10.1093/dnares/7.1.65. PMID 10718198.
Lykke-Andersen J, Shu MD, Steitz JA (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.
Yamashita A; Ohnishi T; Kashima I et al. (2001). "Human SMG-1, a novel phosphatidylinositol 3-kinase-related protein kinase, associates with components of the mRNA surveillance complex and is involved in the regulation of nonsense-mediated mRNA decay". Genes Dev. 15 (17): 2215–28. doi:10.1101/gad.913001. PMC 312771. PMID 11544179.
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. doi:10.1126/science.1062786. PMID 11546874.
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. 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.
Mungall AJ; Palmer SA; Sims SK et al. (2003). "The DNA sequence and analysis of human chromosome 6". Nature 425 (6960): 805–11. doi:10.1038/nature02055. PMID 14574404.
Ohnishi T; Yamashita A; Kashima I et al. (2004). "Phosphorylation of hUPF1 induces formation of mRNA surveillance complexes containing hSMG-5 and hSMG-7". Mol. Cell 12 (5): 1187–200. doi:10.1016/S1097-2765(03)00443-X. PMID 14636577.
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.
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.
Lejeune F, Ranganathan AC, Maquat LE (2004). "eIF4G is required for the pioneer round of translation in mammalian cells". Nat. Struct. Mol. Biol. 11 (10): 992–1000. doi:10.1038/nsmb824. PMID 15361857.

PDB gallery

1uw4: THE STRUCTURAL BASIS OF THE INTERACTION BETWEEN NONSENSE MEDIATED DECAY FACTORS UPF2 AND UPF3

UPF2

Interactions

References

Further reading