Nascent peptides that block protein synthesis in bacteria.

Abstract:

:Although the ribosome is a very general catalyst, it cannot synthesize all protein sequences equally well. For example, ribosomes stall on the secretion monitor (SecM) leader peptide to regulate expression of a downstream gene. Using a genetic selection in Escherichia coli, we identified additional nascent peptide motifs that stall ribosomes. Kinetic studies show that some nascent peptides dramatically inhibit rates of peptide release by release factors. We find that residues upstream of the minimal stalling motif can either enhance or suppress this effect. In other stalling motifs, peptidyl transfer to certain aminoacyl-tRNAs is inhibited. In particular, three consecutive Pro codons pose a challenge for elongating ribosomes. The translation factor elongation factor P, which alleviates pausing at polyproline sequences, has little or no effect on other stalling peptides. The motifs that we identified are underrepresented in bacterial proteomes and show evidence of stalling on endogenous E. coli proteins.

authors

Woolstenhulme CJ,Parajuli S,Healey DW,Valverde DP,Petersen EN,Starosta AL,Guydosh NR,Johnson WE,Wilson DN,Buskirk AR

doi

10.1073/pnas.1219536110

subject

Has Abstract

pub_date

2013-03-05 00:00:00

pages

E878-87

issue

10

eissn

0027-8424

issn

1091-6490

pii

1219536110

journal_volume

110

pub_type

杂志文章
  • Melanocytes are deficient in repair of oxidative DNA damage and UV-induced photoproducts.

    abstract::Melanomas occur mainly in sunlight-exposed skin. Xeroderma pigmentosum (XP) patients have 1,000-fold higher incidence of melanoma, suggesting that sunlight-induced "bulky" photoproducts are responsible for melanomagenesis. Sunlight induces a high level of reactive oxygen species in melanocytes (MCs); oxidative DNA dam...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1005244107

    authors: Wang HT,Choi B,Tang MS

    更新日期:2010-07-06 00:00:00

  • Genomic clone for sandbar shark lambda light chain: generation of diversity in the absence of gene rearrangement.

    abstract::While the general structure of immunoglobulin chains has remained relatively unchanged throughout evolution, the organization of the genes encoding these molecules differs substantially. To understand how the rearranging immunoglobulin system arose, it is necessary to examine living representatives of the most early v...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.90.21.9882

    authors: Hohman VS,Schuchman DB,Schluter SF,Marchalonis JJ

    更新日期:1993-11-01 00:00:00

  • Role for Bcl-xL as an inhibitor of cytosolic cytochrome C accumulation in DNA damage-induced apoptosis.

    abstract::Cytochrome C is a mitochondrial protein that induces apoptosis when released into the cytosol or when added to cell-free extracts. Here we show that cells that overexpress the Bcl-2-related protein Bcl-xL fail to accumulate cytosolic cytochrome C or undergo apoptosis in response to genotoxic stress. Coimmunoprecipitat...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.94.13.6939

    authors: Kharbanda S,Pandey P,Schofield L,Israels S,Roncinske R,Yoshida K,Bharti A,Yuan ZM,Saxena S,Weichselbaum R,Nalin C,Kufe D

    更新日期:1997-06-24 00:00:00

  • Seasonal hysteresis of surface urban heat islands.

    abstract::Temporal dynamics of urban warming have been extensively studied at the diurnal scale, but the impact of background climate on the observed seasonality of surface urban heat islands (SUHIs) remains largely unexplored. On seasonal time scales, the intensity of urban-rural surface temperature differences ([Formula: see ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1917554117

    authors: Manoli G,Fatichi S,Bou-Zeid E,Katul GG

    更新日期:2020-03-31 00:00:00

  • Resolution of Holliday junctions in genetic recombination: RuvC protein nicks DNA at the point of strand exchange.

    abstract::The RuvC protein of Escherichia coli catalyzes the resolution of recombination intermediates during genetic recombination and the recombinational repair of damaged DNA. Resolution involves specific recognition of the Holliday structure to form a complex that exhibits twofold symmetry with the DNA in an open configurat...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.93.22.12217

    authors: Bennett RJ,West SC

    更新日期:1996-10-29 00:00:00

  • Integration of ancient DNA with transdisciplinary dataset finds strong support for Inca resettlement in the south Peruvian coast.

    abstract::Ancient DNA (aDNA) analysis provides a powerful means of investigating human migration, social organization, and a plethora of other crucial questions about humanity's past. Recently, specialists have suggested that the ideal research design involving aDNA would include multiple independent lines of evidence. In this ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 历史文章,杂志文章

    doi:10.1073/pnas.2005965117

    authors: Bongers JL,Nakatsuka N,O'Shea C,Harper TK,Tantaleán H,Stanish C,Fehren-Schmitz L

    更新日期:2020-08-04 00:00:00

  • X-ray structure analysis of a designed oligomeric miniprotein reveals a discrete quaternary architecture.

    abstract::The x-ray crystal structure of an oligomeric miniprotein has been determined to a 1.2-A resolution by means of multiwavelength anomalous diffraction phasing with selenomethionine analogs that retain the biophysical characteristics of the native peptide. Peptide 1, comprising alpha and beta secondary structure elements...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0401245101

    authors: Ali MH,Peisach E,Allen KN,Imperiali B

    更新日期:2004-08-17 00:00:00

  • Nonuniform growth and surface friction determine bacterial biofilm morphology on soft substrates.

    abstract::During development, organisms acquire three-dimensional (3D) shapes with important physiological consequences. While basic mechanisms underlying morphogenesis are known in eukaryotes, it is often difficult to manipulate them in vivo. To circumvent this issue, here we present a study of developing Vibrio cholerae biofi...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1919607117

    authors: Fei C,Mao S,Yan J,Alert R,Stone HA,Bassler BL,Wingreen NS,Košmrlj A

    更新日期:2020-04-07 00:00:00

  • Inhibition of type I and type III interferons by a secreted glycoprotein from Yaba-like disease virus.

    abstract::Type I (IFN-alpha/beta) and type III (IFN-lambdas) IFNs are important components of the host antiviral response. Although type III IFNs possess intrinsic antiviral activity similar to that of type I IFNs, they signal through a specific unique receptor complex, and their functional importance for antiviral resistance i...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0610352104

    authors: Huang J,Smirnov SV,Lewis-Antes A,Balan M,Li W,Tang S,Silke GV,Pütz MM,Smith GL,Kotenko SV

    更新日期:2007-06-05 00:00:00

  • Cleavage of the membrane precursor for transforming growth factor alpha is a regulated process.

    abstract::Transforming growth factor alpha (TGF-alpha) is generated by cleavage of a membrane-anchored precursor protein, proTGF-alpha. ProTGF-alpha is cleaved at a slow rate and accumulates on the cell surface, thereby mediating cell-cell adhesion and mitogenic stimulation. We show here that cleavage of membrane proTGF-alpha b...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.5.1726

    authors: Pandiella A,Massagué J

    更新日期:1991-03-01 00:00:00

  • alpha-Adrenergic regulation of secretion of mouse saliva rich in nerve growth factor.

    abstract::Nerve growth factor has been quantified by both bioassay and radial immunodiffusion in mouse saliva elicited by several secretagogues. The concentrations by bioassay of nerve growth factor in both epinephrine- and norepinephrine-induced saliva (3400 and 900 mug/ml, respectively) are higher than reported in any other s...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.73.11.4210

    authors: Wallace LJ,Partlow LM

    更新日期:1976-11-01 00:00:00

  • Regulation of ferritin and heme oxygenase synthesis in rat fibroblasts by different forms of iron.

    abstract::Synthesis of the iron-storage protein ferritin is thought to be regulated at the translational level by the cytosolic content of chelatable iron. This response to iron is regulated by the iron-modulated binding to ferritin mRNAs of a repressor protein, the iron regulatory element-binding protein. From measurements mad...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.3.688

    authors: Eisenstein RS,Garcia-Mayol D,Pettingell W,Munro HN

    更新日期:1991-02-01 00:00:00

  • Identifying genes of agronomic importance in maize by screening microsatellites for evidence of selection during domestication.

    abstract::Crop species experienced strong selective pressure directed at genes controlling traits of agronomic importance during their domestication and subsequent episodes of selective breeding. Consequently, these genes are expected to exhibit the signature of selection. We screened 501 maize genes for the signature of select...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.112324299

    authors: Vigouroux Y,McMullen M,Hittinger CT,Houchins K,Schulz L,Kresovich S,Matsuoka Y,Doebley J

    更新日期:2002-07-23 00:00:00

  • Inhibitors of glycoprotein processing alter T-cell proliferative responses to antigen and to interleukin 2.

    abstract::Most of the cell-surface molecules involved in T-cell immune responses are N-linked glycoproteins. We have investigated the effects of inhibitors of glycoprotein processing on specific T-cell functions, with the dual aims of examining the functional role of carbohydrate and of testing the usefulness of such compounds ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.85.15.5644

    authors: Wall KA,Pierce JD,Elbein AD

    更新日期:1988-08-01 00:00:00

  • Hemocyte differentiation mediates the mosquito late-phase immune response against Plasmodium in Anopheles gambiae.

    abstract::Plasmodium parasites must complete development in the mosquito vector for transmission to occur. The mosquito innate immune response is remarkably efficient in limiting parasite numbers. Previous work has identified a LPS-induced TNFα transcription factor (LITAF)-like transcription factor, LITAF-like 3 (LL3), which si...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1420078112

    authors: Smith RC,Barillas-Mury C,Jacobs-Lorena M

    更新日期:2015-06-30 00:00:00

  • Direct visualization of myosin-binding protein C bridging myosin and actin filaments in intact muscle.

    abstract::Myosin-binding protein C (MyBP-C) is a thick filament protein playing an essential role in muscle contraction, and MyBP-C mutations cause heart and skeletal muscle disease in millions worldwide. Despite its discovery 40 y ago, the mechanism of MyBP-C function remains unknown. In vitro studies suggest that MyBP-C could...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1103216108

    authors: Luther PK,Winkler H,Taylor K,Zoghbi ME,Craig R,Padrón R,Squire JM,Liu J

    更新日期:2011-07-12 00:00:00

  • Assembly of rod-shaped virus in vitro: reconstitution with cucumber green mottle mosaic virus protein and tobacco mosaic virus RNA.

    abstract::In vitro assembly of tobacco mosaic virus (TMV) from its constituent RNA and protein occurs in two steps: formation of the initial complex by interaction of the 5'-end of TMV-RNA with 20S protein aggregate, and growth of the helical rod by sequential addition of protein subunits.Such a process was also observed in the...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.69.12.3680

    authors: Ono T,Inoue H,Okada Y

    更新日期:1972-12-01 00:00:00

  • Liquid behavior of cross-linked actin bundles.

    abstract::The actin cytoskeleton is a critical regulator of cytoplasmic architecture and mechanics, essential in a myriad of physiological processes. Here we demonstrate a liquid phase of actin filaments in the presence of the physiological cross-linker, filamin. Filamin condenses short actin filaments into spindle-shaped dropl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1616133114

    authors: Weirich KL,Banerjee S,Dasbiswas K,Witten TA,Vaikuntanathan S,Gardel ML

    更新日期:2017-02-28 00:00:00

  • Engineering a BCR-ABL-activated caspase for the selective elimination of leukemic cells.

    abstract::Increased understanding of the precise molecular mechanisms involved in cell survival and cell death signaling pathways offers the promise of harnessing these molecules to eliminate cancer cells without damaging normal cells. Tyrosine kinase oncoproteins promote the genesis of leukemias through both increased cell pro...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1206551110

    authors: Kurokawa M,Ito T,Yang CS,Zhao C,Macintyre AN,Rizzieri DA,Rathmell JC,Deininger MW,Reya T,Kornbluth S

    更新日期:2013-02-05 00:00:00

  • Shoot-and-Trap: use of specific x-ray damage to study structural protein dynamics by temperature-controlled cryo-crystallography.

    abstract::Although x-ray crystallography is the most widely used method for macromolecular structure determination, it does not provide dynamical information, and either experimental tricks or complementary experiments must be used to overcome the inherently static nature of crystallographic structures. Here we used specific x-...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0804828105

    authors: Colletier JP,Bourgeois D,Sanson B,Fournier D,Sussman JL,Silman I,Weik M

    更新日期:2008-08-19 00:00:00

  • Naked mole-rat has increased translational fidelity compared with the mouse, as well as a unique 28S ribosomal RNA cleavage.

    abstract::The naked mole-rat (Heterocephalus glaber) is a subterranean eusocial rodent with a markedly long lifespan and resistance to tumorigenesis. Multiple data implicate modulation of protein translation in longevity. Here we report that 28S ribosomal RNA (rRNA) of the naked mole-rat is processed into two smaller fragments ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1313473110

    authors: Azpurua J,Ke Z,Chen IX,Zhang Q,Ermolenko DN,Zhang ZD,Gorbunova V,Seluanov A

    更新日期:2013-10-22 00:00:00

  • The subtilisin E gene of Bacillus subtilis is transcribed from a sigma 37 promoter in vivo.

    abstract::A cloned Bacillus subtilis gene (sprE) expressed only during the stationary growth phase is shown to encode the subtilisin E protease, an enzyme associated with sporulation. We have determined the DNA sequence of the sprE promoter region and the promoter-proximal half of the structural gene. The sprE gene codes for a ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.81.4.1184

    authors: Wong SL,Price CW,Goldfarb DS,Doi RH

    更新日期:1984-02-01 00:00:00

  • Molecular specialization of breast vasculature: a breast-homing phage-displayed peptide binds to aminopeptidase P in breast vasculature.

    abstract::In vivo phage display identifies peptides that selectively home to the vasculature of individual organs, tissues, and tumors. Here we report the identification of a cyclic nonapeptide, CPGPEGAGC, which homes to normal breast tissue with a 100-fold selectivity over nontargeted phage. The homing of the phage is inhibite...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.251687998

    authors: Essler M,Ruoslahti E

    更新日期:2002-02-19 00:00:00

  • Population genetic structure of Plasmodium falciparum in the two main African vectors, Anopheles gambiae and Anopheles funestus.

    abstract::We investigated patterns of genetic diversity of Plasmodium falciparum associated with its two main African vectors: Anopheles gambiae and Anopheles funestus. We dissected 10,296 wild-caught mosquitoes from three tropical sites, two in Cameroon (Simbock and Tibati, separated by 320 km) and one in Kenya (Rota, >2,000 k...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0702715104

    authors: Annan Z,Durand P,Ayala FJ,Arnathau C,Awono-Ambene P,Simard F,Razakandrainibe FG,Koella JC,Fontenille D,Renaud F

    更新日期:2007-05-08 00:00:00

  • Karyophilic proteins: polypeptides synthesized in vitro accumulate in the nucleus on microinjection into the cytoplasm of amphibian oocytes.

    abstract::The specific nucleocytoplasmic compartmentalization of proteins has been examined for some major soluble acidic nuclear proteins in oocytes of different amphibia. Proteins synthesized and radioactively labeled by translation in vitro, by using mRNA from ovaries of the frog Xenopus laevis, were injected into the cytopl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.79.17.5302

    authors: Dabauvalle MC,Franke WW

    更新日期:1982-09-01 00:00:00

  • Controlling market power and price spikes in electricity networks: Demand-side bidding.

    abstract::In this article we report an experiment that examines how demand-side bidding can discipline generators in a market for electric power. First we develop a treatment without demand-side bidding; two large firms are allocated baseload and intermediate cost generators such that either firm might unilaterally withhold the...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0437942100

    authors: Rassenti SJ,Smith VL,Wilson BJ

    更新日期:2003-03-04 00:00:00

  • Juvenile hormone receptors in insect larval epidermis: identification by photoaffinity labeling.

    abstract::Tritiated photoaffinity analogs of the natural lepidopteran juvenile hormones, JH I and II [epoxy[3H]bishomofarnesyl diazoacetate ([3H]EBDA) and epoxy[3H]homofarnesyl diazoacetate ([3H]EHDA)], and of the JH analog methoprene [[3H]methoprene diazoketone ([3H]MDK)] were synthesized and used to identify specific JH bindi...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.87.2.796

    authors: Palli SR,Osir EO,Eng W,Boehm MF,Edwards M,Kulcsar P,Ujvary I,Hiruma K,Prestwich GD,Riddiford LM

    更新日期:1990-01-01 00:00:00

  • Sperm-specific protein kinase A catalytic subunit Calpha2 orchestrates cAMP signaling for male fertility.

    abstract::An unusual cAMP signaling system mediates many of the events that prepare spermatozoa to meet the egg. Its components include the atypical, bicarbonate-stimulated, sperm adenylyl cyclase and a cAMP-dependent protein kinase (PKA) with the unique catalytic subunit termed Calpha(2) or C(s). We generated mice that lack Ca...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0405580101

    authors: Nolan MA,Babcock DF,Wennemuth G,Brown W,Burton KA,McKnight GS

    更新日期:2004-09-14 00:00:00

  • Perinatal antidepressant exposure alters cortical network function in rodents.

    abstract::Serotonin (5-HT) plays a key role in early brain development, and manipulation of 5-HT levels during this period can have lasting neurobiological and behavioral consequences. It is unclear how perinatal exposure to drugs, such as selective serotonin reuptake inhibitors (SSRIs), impacts cortical neural network function...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1109353108

    authors: Simpson KL,Weaver KJ,de Villers-Sidani E,Lu JY,Cai Z,Pang Y,Rodriguez-Porcel F,Paul IA,Merzenich M,Lin RC

    更新日期:2011-11-08 00:00:00

  • Carboxylic acid reductase is a versatile enzyme for the conversion of fatty acids into fuels and chemical commodities.

    abstract::Aliphatic hydrocarbons such as fatty alcohols and petroleum-derived alkanes have numerous applications in the chemical industry. In recent years, the renewable synthesis of aliphatic hydrocarbons has been made possible by engineering microbes to overaccumulate fatty acids. However, to generate end products with the de...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1216516110

    authors: Akhtar MK,Turner NJ,Jones PR

    更新日期:2013-01-02 00:00:00