PYM binds the cytoplasmic exon-junction complex and ribosomes to enhance translation of spliced mRNAs.

Abstract:

:Messenger RNAs produced by splicing are translated more efficiently than those produced from similar intronless precursor mRNAs (pre-mRNAs). The exon-junction complex (EJC) probably mediates this enhancement; however, the specific link between the EJC and the translation machinery has not been identified. The EJC proteins Y14 and magoh remain bound to spliced mRNAs after their export from the nucleus to the cytoplasm and are removed only when these mRNAs are translated. Here we show that PYM, a 29-kDa protein that binds the Y14-magoh complex in the cytoplasm, also binds, via a separate domain, to the small (40S) ribosomal subunit and the 48S preinitiation complex. Furthermore, PYM knockdown reduces the translation efficiency of a reporter protein produced from intron-containing, but not intronless, pre-mRNA. We suggest that PYM functions as a bridge between EJC-bearing spliced mRNAs and the translation machinery to enhance translation of the mRNAs.

journal_name

Nat Struct Mol Biol

authors

Diem MD,Chan CC,Younis I,Dreyfuss G

doi

10.1038/nsmb1321

subject

Has Abstract

pub_date

2007-12-01 00:00:00

pages

1173-9

issue

12

eissn

1545-9993

issn

1545-9985

pii

nsmb1321

journal_volume

14

pub_type

杂志文章
  • Cotranslational folding of spectrin domains via partially structured states.

    abstract::How do the key features of protein folding, elucidated from studies on native, isolated proteins, manifest in cotranslational folding on the ribosome? Using a well-characterized family of homologous α-helical proteins with a range of biophysical properties, we show that spectrin domains can fold vectorially on the rib...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.3355

    authors: Nilsson OB,Nickson AA,Hollins JJ,Wickles S,Steward A,Beckmann R,von Heijne G,Clarke J

    更新日期:2017-03-01 00:00:00

  • The hunt for RNA polymerase II elongation factors: a historical perspective.

    abstract::The discovery of the three eukaryotic nuclear RNA polymerases paved the way for serious biochemical investigations of eukaryotic transcription and the identification of eukaryotic transcription factors. Here we describe this adventure from our vantage point, with a focus on the hunt for factors that regulate elongatio...

    journal_title:Nature structural & molecular biology

    pub_type: 历史文章,杂志文章,评审

    doi:10.1038/s41594-019-0283-1

    authors: Conaway RC,Conaway JW

    更新日期:2019-09-01 00:00:00

  • Regulation of nucleosome dynamics by histone modifications.

    abstract::Chromatin is a dynamic structure that must respond to myriad stimuli to regulate access to DNA, and chemical modification of histones is a major means by which the cell modulates nucleosome mobility and turnover. Histone modifications are linked to essentially every cellular process requiring DNA access, including tra...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章,评审

    doi:10.1038/nsmb.2470

    authors: Zentner GE,Henikoff S

    更新日期:2013-03-01 00:00:00

  • Incision-dependent and error-free repair of (CAG)(n)/(CTG)(n) hairpins in human cell extracts.

    abstract::Expansion of CAG/CTG trinucleotide repeats is associated with certain familial neurological disorders, including Huntington's disease. Increasing evidence suggests that formation of a stable DNA hairpin within CAG/CTG repeats during DNA metabolism contributes to their expansion. However, the molecular mechanism(s) by ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1638

    authors: Hou C,Chan NL,Gu L,Li GM

    更新日期:2009-08-01 00:00:00

  • RNA secondary structure in mutually exclusive splicing.

    abstract::Mutually exclusive splicing is a regulated means to generate protein diversity, but the underlying mechanisms are poorly understood. Here comparative genome analysis revealed the built-in intronic elements for controlling mutually exclusive splicing of the 14-3-3ξ pre-mRNA. These elements are clade specific but are ev...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1959

    authors: Yang Y,Zhan L,Zhang W,Sun F,Wang W,Tian N,Bi J,Wang H,Shi D,Jiang Y,Zhang Y,Jin Y

    更新日期:2011-02-01 00:00:00

  • The tail structure of bacteriophage T4 and its mechanism of contraction.

    abstract::Bacteriophage T4 and related viruses have a contractile tail that serves as an efficient mechanical device for infecting bacteria. A three-dimensional cryo-EM reconstruction of the mature T4 tail assembly at 15-A resolution shows the hexagonal dome-shaped baseplate, the extended contractile sheath, the long tail fiber...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb975

    authors: Kostyuchenko VA,Chipman PR,Leiman PG,Arisaka F,Mesyanzhinov VV,Rossmann MG

    更新日期:2005-09-01 00:00:00

  • Structural changes in a marine podovirus associated with release of its genome into Prochlorococcus.

    abstract::Podovirus P-SSP7 infects Prochlorococcus marinus, the most abundant oceanic photosynthetic microorganism. Single-particle cryo-electron microscopy yields icosahedral and asymmetrical structures of infectious P-SSP7 with 4.6-A and 9-A resolution, respectively. The asymmetric reconstruction reveals how symmetry mismatch...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1823

    authors: Liu X,Zhang Q,Murata K,Baker ML,Sullivan MB,Fu C,Dougherty MT,Schmid MF,Osburne MS,Chisholm SW,Chiu W

    更新日期:2010-07-01 00:00:00

  • Computational redesign of protein-protein interaction specificity.

    abstract::We developed a 'computational second-site suppressor' strategy to redesign specificity at a protein-protein interface and applied it to create new specifically interacting DNase-inhibitor protein pairs. We demonstrate that the designed switch in specificity holds in in vitro binding and functional assays. We also show...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb749

    authors: Kortemme T,Joachimiak LA,Bullock AN,Schuler AD,Stoddard BL,Baker D

    更新日期:2004-04-01 00:00:00

  • Transient ribosomal attenuation coordinates protein synthesis and co-translational folding.

    abstract::Clustered codons that pair to low-abundance tRNA isoacceptors can form slow-translating regions in the mRNA and cause transient ribosomal arrest. We report that folding efficiency of the Escherichia coli multidomain protein SufI can be severely perturbed by alterations in ribosome-mediated translational attenuation. S...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1554

    authors: Zhang G,Hubalewska M,Ignatova Z

    更新日期:2009-03-01 00:00:00

  • Structural insights into RNA processing by the human RISC-loading complex.

    abstract::Targeted gene silencing by RNA interference (RNAi) requires loading of a short guide RNA (small interfering RNA (siRNA) or microRNA (miRNA)) onto an Argonaute protein to form the functional center of an RNA-induced silencing complex (RISC). In humans, Argonaute2 (AGO2) assembles with the guide RNA-generating enzyme Di...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1673

    authors: Wang HW,Noland C,Siridechadilok B,Taylor DW,Ma E,Felderer K,Doudna JA,Nogales E

    更新日期:2009-11-01 00:00:00

  • Ribosome-associated protein quality control.

    abstract::Protein synthesis by the ribosome can fail for numerous reasons including faulty mRNA, insufficient availability of charged tRNAs and genetic errors. All organisms have evolved mechanisms to recognize stalled ribosomes and initiate pathways for recycling, quality control and stress signaling. Here we review the discov...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章,评审

    doi:10.1038/nsmb.3147

    authors: Brandman O,Hegde RS

    更新日期:2016-01-01 00:00:00

  • Histone H3 lysine 9 trimethylation and HP1γ favor inclusion of alternative exons.

    abstract::Pre-messenger RNAs (pre-mRNAs) maturation is initiated cotranscriptionally. It is therefore conceivable that chromatin-borne information participates in alternative splicing. Here we find that elevated levels of trimethylation of histone H3 on Lys9 (H3K9me3) are a characteristic of the alternative exons of several gen...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1995

    authors: Saint-André V,Batsché E,Rachez C,Muchardt C

    更新日期:2011-03-01 00:00:00

  • The WAVE regulatory complex is inhibited.

    abstract::The WAVE regulatory complex (WRC) transmits information from the Rac GTPase to the actin nucleator Arp2/3 complex. We have reconstituted recombinant human and Drosophila WRC in several forms and shown that they are inactive toward Arp2/3 complex but can be activated by Rac in a nucleotide-dependent fashion. Our observ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1587

    authors: Ismail AM,Padrick SB,Chen B,Umetani J,Rosen MK

    更新日期:2009-05-01 00:00:00

  • Solution structure of domain 5 of a group II intron ribozyme reveals a new RNA motif.

    abstract::Domain 5 (D5) is the central core of group II intron ribozymes. Many base and backbone substituents of this highly conserved hairpin participate in catalysis and are crucial for binding to other intron domains. We report the solution structures of the 34-nucleotide D5 hairpin from the group II intron ai5 gamma in the ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb717

    authors: Sigel RK,Sashital DG,Abramovitz DL,Palmer AG,Butcher SE,Pyle AM

    更新日期:2004-02-01 00:00:00

  • Xist RNA antagonizes the SWI/SNF chromatin remodeler BRG1 on the inactive X chromosome.

    abstract::The noncoding RNA Xist recruits silencing factors to the inactive X chromosome (Xi) and facilitates re-organization of Xi structure. Here, we examine the mouse epigenomic landscape of Xi and assess how Xist alters chromatin accessibility. Xist deletion triggers a gain of accessibility of select chromatin regions that ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-018-0176-8

    authors: Jégu T,Blum R,Cochrane JC,Yang L,Wang CY,Gilles ME,Colognori D,Szanto A,Marr SK,Kingston RE,Lee JT

    更新日期:2019-02-01 00:00:00

  • MacroH2A1.1 and PARP-1 cooperate to regulate transcription by promoting CBP-mediated H2B acetylation.

    abstract::The histone variant macroH2A1 regulates gene expression important for differentiation, stem-cell reprogramming and tumor suppression. Here, we demonstrate that in primary human cells, macroH2A1 participates in two physically and functionally distinct types of chromatin marked by either H3K27me3 or nine histone acetyla...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2903

    authors: Chen H,Ruiz PD,Novikov L,Casill AD,Park JW,Gamble MJ

    更新日期:2014-11-01 00:00:00

  • Evolutionary conservation of codon optimality reveals hidden signatures of cotranslational folding.

    abstract::The choice of codons can influence local translation kinetics during protein synthesis. Whether codon preference is linked to cotranslational regulation of polypeptide folding remains unclear. Here, we derive a revised translational efficiency scale that incorporates the competition between tRNA supply and demand. App...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2466

    authors: Pechmann S,Frydman J

    更新日期:2013-02-01 00:00:00

  • Mechanochemical coupling of two substeps in a single myosin V motor.

    abstract::Myosin V is a double-headed processive molecular motor that moves along an actin filament by taking 36-nm steps. Using optical trapping nanometry with high spatiotemporal resolution, we discovered that there are two possible pathways for the 36-nm steps, one with 12- and 24-nm substeps, in this order, and the other wi...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb806

    authors: Uemura S,Higuchi H,Olivares AO,De La Cruz EM,Ishiwata S

    更新日期:2004-09-01 00:00:00

  • Structure of the Vif-binding domain of the antiviral enzyme APOBEC3G.

    abstract::The human APOBEC3G (A3G) DNA cytosine deaminase restricts and hypermutates DNA-based parasites including HIV-1. The viral infectivity factor (Vif) prevents restriction by triggering A3G degradation. Although the structure of the A3G catalytic domain is known, the structure of the N-terminal Vif-binding domain has prov...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.3033

    authors: Kouno T,Luengas EM,Shigematsu M,Shandilya SM,Zhang J,Chen L,Hara M,Schiffer CA,Harris RS,Matsuo H

    更新日期:2015-06-01 00:00:00

  • Autoinhibition of X11/Mint scaffold proteins revealed by the closed conformation of the PDZ tandem.

    abstract::Members of the X11/Mint family of multidomain adaptor proteins are composed of a divergent N terminus, a conserved PTB domain and a pair of C-terminal PDZ domains. Many proteins can interact with the PDZ tandem of X11 proteins, although the mechanism of such interactions is unclear. Here we show that the highly conser...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb958

    authors: Long JF,Feng W,Wang R,Chan LN,Ip FC,Xia J,Ip NY,Zhang M

    更新日期:2005-08-01 00:00:00

  • Publisher Correction: Ancestral-sequence reconstruction unveils the structural basis of function in mammalian FMOs.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Nature structural & molecular biology

    pub_type: 已发布勘误

    doi:10.1038/s41594-020-0378-8

    authors: Nicoll CR,Bailleul G,Fiorentini F,Mascotti ML,Fraaije MW,Mattevi A

    更新日期:2020-02-01 00:00:00

  • Structures of MERS-CoV spike glycoprotein in complex with sialoside attachment receptors.

    abstract::The Middle East respiratory syndrome coronavirus (MERS-CoV) causes severe and often lethal respiratory illness in humans, and no vaccines or specific treatments are available. Infections are initiated via binding of the MERS-CoV spike (S) glycoprotein to sialosides and dipeptidyl-peptidase 4 (the attachment and entry ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-019-0334-7

    authors: Park YJ,Walls AC,Wang Z,Sauer MM,Li W,Tortorici MA,Bosch BJ,DiMaio F,Veesler D

    更新日期:2019-12-01 00:00:00

  • Structural basis for STAT2 suppression by flavivirus NS5.

    abstract::Suppressing cellular signal transducers of transcription 2 (STAT2) is a common strategy that viruses use to establish infections, yet the detailed mechanism remains elusive, owing to a lack of structural information about the viral-cellular complex involved. Here, we report the cryo-EM and crystal structures of human ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-020-0472-y

    authors: Wang B,Thurmond S,Zhou K,Sánchez-Aparicio MT,Fang J,Lu J,Gao L,Ren W,Cui Y,Veit EC,Hong H,Evans MJ,O'Leary SE,García-Sastre A,Zhou ZH,Hai R,Song J

    更新日期:2020-10-01 00:00:00

  • Structural basis for the coevolution of a viral RNA-protein complex.

    abstract::The cocrystal structure of the PP7 bacteriophage coat protein in complex with its translational operator identifies a distinct mode of sequence-specific RNA recognition when compared to the well-characterized MS2 coat protein-RNA complex. The structure reveals the molecular basis of the PP7 coat protein's ability to s...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1327

    authors: Chao JA,Patskovsky Y,Almo SC,Singer RH

    更新日期:2008-01-01 00:00:00

  • Cryo-EM structures reveal translocational unfolding in the clostridial binary iota toxin complex.

    abstract::The iota toxin produced by Clostridium perfringens type E is a binary toxin comprising two independent polypeptides: Ia, an ADP-ribosyltransferase, and Ib, which is involved in cell binding and translocation of Ia across the cell membrane. Here we report cryo-EM structures of the translocation channel Ib-pore and its ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-020-0388-6

    authors: Yamada T,Yoshida T,Kawamoto A,Mitsuoka K,Iwasaki K,Tsuge H

    更新日期:2020-03-01 00:00:00

  • Publisher Correction: Tauopathies: Protein shapes at the core of chronic traumatic encephalopathy.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Nature structural & molecular biology

    pub_type: 已发布勘误

    doi:10.1038/s41594-019-0251-9

    authors: Fichou Y,Han S

    更新日期:2019-06-01 00:00:00

  • Efficiency and specificity in microRNA biogenesis.

    abstract::Primary microRNA cleavage by the Drosha-Dgcr8 'Microprocessor' complex is critical for microRNA biogenesis. Yet, the Microprocessor may also cleave other nuclear RNAs in a nonspecific manner. We studied Microprocessor function using mathematical modeling and experiments in mouse and human tissues. We found that the au...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2293

    authors: Barad O,Mann M,Chapnik E,Shenoy A,Blelloch R,Barkai N,Hornstein E

    更新日期:2012-05-13 00:00:00

  • Energetics of ångström-scale conformational changes in an RCK domain of the MthK K+ channel.

    abstract::Allosteric proteins transition among different conformational states in a ligand-dependent manner. Upon resolution of a protein's individual states, one can determine the probabilities of these states, thereby dissecting the energetic mechanisms underlying their conformational changes. Here we examine individual regul...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-019-0275-1

    authors: Lewis JH,Lu Z

    更新日期:2019-09-01 00:00:00

  • Methylation of H4 lysines 5, 8 and 12 by yeast Set5 calibrates chromatin stress responses.

    abstract::Methylation of histones is central to chromatin regulation, and thus previously unknown mechanisms regulating genome function can be revealed through the discovery of new histone methyl marks. Here we identify Set5 as the first histone H4 methyltransferase, which monomethylates the critical H4 lysine residues 5, 8 and...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2252

    authors: Green EM,Mas G,Young NL,Garcia BA,Gozani O

    更新日期:2012-02-19 00:00:00

  • Structural analysis of the interaction between Hsp90 and the tumor suppressor protein p53.

    abstract::In eukaryotes, the essential dimeric molecular chaperone Hsp90 is required for the activation and maturation of specific substrates such as steroid hormone receptors, tyrosine kinases and transcription factors. Hsp90 is involved in the establishment of cancer and has become an attractive target for drug design. Here w...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2114

    authors: Hagn F,Lagleder S,Retzlaff M,Rohrberg J,Demmer O,Richter K,Buchner J,Kessler H

    更新日期:2011-09-04 00:00:00