Messenger RNA interactions in the decoding center control the rate of translocation.

abstract：:Although DNA replication is a fundamental aspect of biology, it is not known what determines where DNA replication starts and stops in the human genome. We directly identified and quantitatively compared sites of replication initiation and termination in untransformed human cells. We found that replication preferentia...

journal_title：Nature structural & molecular biology

authors： Chen YH,Keegan S,Kahli M,Tonzi P,Fenyö D,Huang TT,Smith DJ

更新日期：2019-01-01 00:00:00

abstract：:The asymmetric dimethylation of histone H3 arginine 2 (H3R2me2a) acts as a repressive mark that antagonizes trimethylation of H3 lysine 4. Here we report that H3R2 is also symmetrically dimethylated (H3R2me2s) by PRMT5 and PRMT7 and present in euchromatic regions. Profiling of H3-tail interactors by SILAC MS revealed ...

journal_title：Nature structural & molecular biology

authors： Migliori V,Müller J,Phalke S,Low D,Bezzi M,Mok WC,Sahu SK,Gunaratne J,Capasso P,Bassi C,Cecatiello V,De Marco A,Blackstock W,Kuznetsov V,Amati B,Mapelli M,Guccione E

更新日期：2012-01-08 00:00:00

abstract：:Green tea has held a long-standing place in traditional Asian medicine. Scientific research is now beginning to explain why. ...

journal_title：Nature structural & molecular biology

authors：

更新日期：2008-06-01 00:00:00

abstract：:Multiple Argonaute proteins are implicated in gene silencing by RNA interference (RNAi), but only one is known to be an endonuclease that can cleave target mRNAs. Chimeric Argonaute proteins now reveal an unexpected mechanism by which mutations distal to the catalytic center can unmask intrinsic catalytic activity, re...

journal_title：Nature structural & molecular biology

authors： Kidwell MA,Doudna JA

更新日期：2013-07-01 00:00:00

abstract：:Immunoglobulin G4 antibodies exhibit unusual properties with important biological consequences. We report the structure of the human full-length IgG4 S228P anti-PD1 antibody pembrolizumab, solved to 2.3-Å resolution. Pembrolizumab is a compact molecule, consistent with the presence of a short hinge region. The Fc doma...

journal_title：Nature structural & molecular biology

authors： Scapin G,Yang X,Prosise WW,McCoy M,Reichert P,Johnston JM,Kashi RS,Strickland C

更新日期：2015-12-01 00:00:00

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

authors： Pechmann S,Frydman J

更新日期：2013-02-01 00:00:00

abstract：:Binding of the gp120 envelope (Env) glycoprotein to the CD4 receptor is the first step in the HIV-1 infectious cycle. Although the CD4-binding site has been extensively characterized, the initial receptor interaction has been difficult to study because of major CD4-induced structural rearrangements. Here we used cryog...

journal_title：Nature structural & molecular biology

authors： Liu Q,Acharya P,Dolan MA,Zhang P,Guzzo C,Lu J,Kwon A,Gururani D,Miao H,Bylund T,Chuang GY,Druz A,Zhou T,Rice WJ,Wigge C,Carragher B,Potter CS,Kwong PD,Lusso P

更新日期：2017-04-01 00:00:00

abstract：:Translation has a fundamental function in defining the fate of the transcribed genome. RNA-sequencing (RNA-seq) data enable the quantification of complex transcript mixtures, often detecting several transcript isoforms of unknown functions for one gene. Here, we describe ORFquant, a method to annotate and quantify tra...

journal_title：Nature structural & molecular biology

authors： Calviello L,Hirsekorn A,Ohler U

更新日期：2020-08-01 00:00:00

abstract：:Biogenesis of the photosynthetic enzyme Rubisco, a complex of eight large (RbcL) and eight small (RbcS) subunits, requires assembly chaperones. Here we analyzed the role of Rubisco accumulation factor1 (Raf1), a dimer of ∼40-kDa subunits. We find that Raf1 from Synechococcus elongatus acts downstream of chaperonin-ass...

journal_title：Nature structural & molecular biology

authors： Hauser T,Bhat JY,Miličić G,Wendler P,Hartl FU,Bracher A,Hayer-Hartl M

更新日期：2015-09-01 00:00:00

abstract：:Phosphorylation of the spliceosome is essential for RNA splicing, yet how and to what extent kinase signaling affects splicing have not been defined on a genome-wide basis. Using a chemical genetic approach, we show in Schizosaccharomyces pombe that the SR protein kinase Dsk1 is required for efficient splicing of intr...

journal_title：Nature structural & molecular biology

authors： Lipp JJ,Marvin MC,Shokat KM,Guthrie C

更新日期：2015-08-01 00:00:00

abstract：:p53 binds as a tetramer to DNA targets consisting of two decameric half-sites separated by a variable spacer. Here we present high-resolution crystal structures of complexes between p53 core-domain tetramers and DNA targets consisting of contiguous half-sites. In contrast to previously reported p53-DNA complexes that ...

journal_title：Nature structural & molecular biology

authors： Kitayner M,Rozenberg H,Rohs R,Suad O,Rabinovich D,Honig B,Shakked Z

更新日期：2010-04-01 00:00:00

abstract：:The Saccharomyces cerevisiae proteasome comprises a 19-subunit regulatory particle and a 28-subunit core particle. To be degraded, substrates must cross the core particle-regulatory particle interface, a site for complex conformational changes and regulatory events. This interface includes two aligned heteromeric ring...

journal_title：Nature structural & molecular biology

authors： Tian G,Park S,Lee MJ,Huck B,McAllister F,Hill CP,Gygi SP,Finley D

更新日期：2011-10-30 00:00:00

abstract：:Spliceosomes catalyze the maturation of precursor mRNAs in organisms ranging from yeast to humans. Their catalytic core comprises three small nuclear RNAs (U2, U5 and U6) involved in substrate positioning and catalysis. It has been postulated, but never shown experimentally, that the U2-U6 complex adopts at least two ...

journal_title：Nature structural & molecular biology

authors： Guo Z,Karunatilaka KS,Rueda D

更新日期：2009-11-01 00:00:00

abstract：:Processing of transcribed precursor ribosomal RNA (pre-rRNA) to a mature state is a conserved aspect of ribosome biogenesis in vivo. We developed an affinity-purification system to isolate and analyze in vivo-formed pre-rRNA-containing ribonucleoprotein (RNP) particles (rRNPs) from wild-type E. coli. We observed that ...

journal_title：Nature structural & molecular biology

authors： Gupta N,Culver GM

更新日期：2014-10-01 00:00:00

abstract：:In bacteria, incorporation of selenocysteine, the 21(st) amino acid, into proteins requires elongation factor SelB, which has the unusual property of binding to both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity, the ...

journal_title：Nature structural & molecular biology

authors： Yoshizawa S,Rasubala L,Ose T,Kohda D,Fourmy D,Maenaka K

更新日期：2005-02-01 00:00:00

abstract：:The Mre11-Rad50-NBS1 (MRN) complex has many roles in response to DNA double-strand breaks, but its functions in repair by nonhomologous end joining (NHEJ) pathways are poorly understood. We have investigated requirements for MRN in class switch recombination (CSR), a programmed DNA rearrangement in B lymphocytes that ...

journal_title：Nature structural & molecular biology

authors： Dinkelmann M,Spehalski E,Stoneham T,Buis J,Wu Y,Sekiguchi JM,Ferguson DO

更新日期：2009-08-01 00:00:00

abstract：:P element transposase catalyzes the mobility of P element DNA transposons within the Drosophila genome. P element transposase exhibits several unique properties, including the requirement for a guanosine triphosphate cofactor and the generation of long staggered DNA breaks during transposition. To gain insights into t...

journal_title：Nature structural & molecular biology

authors： Ghanim GE,Kellogg EH,Nogales E,Rio DC

更新日期：2019-11-01 00:00:00

abstract：:Glucokinase (GK) is a glucose-phosphorylating enzyme that regulates insulin release and hepatic metabolism, and its loss of function is implicated in diabetes pathogenesis. GK activators (GKAs) are attractive therapeutics in diabetes; however, clinical data indicate that their benefits can be offset by hypoglycemia, o...

journal_title：Nature structural & molecular biology

authors： Szlyk B,Braun CR,Ljubicic S,Patton E,Bird GH,Osundiji MA,Matschinsky FM,Walensky LD,Danial NN

更新日期：2014-01-01 00:00:00

abstract：:Self-templating assemblies of the human prion protein are clinically associated with transmissible spongiform encephalopathies. Here we present the cryo-EM structure of a denaturant- and protease-resistant fibril formed in vitro spontaneously by a 9.7-kDa unglycosylated fragment of the human prion protein. This human ...

journal_title：Nature structural & molecular biology

authors： Glynn C,Sawaya MR,Ge P,Gallagher-Jones M,Short CW,Bowman R,Apostol M,Zhou ZH,Eisenberg DS,Rodriguez JA

更新日期：2020-05-01 00:00:00

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

authors： Huo J,Le Bas A,Ruza RR,Duyvesteyn HME,Mikolajek H,Malinauskas T,Tan TK,Rijal P,Dumoux M,Ward PN,Ren J,Zhou D,Harrison PJ,Weckener M,Clare DK,Vogirala VK,Radecke J,Moynié L,Zhao Y,Gilbert-Jaramillo J,Knight ML,Tr

更新日期：2020-11-01 00:00:00

abstract：:Chaperones increase the folding yields of soluble proteins by suppressing misfolding and aggregation, but how they modulate the folding of integral membrane proteins is not well understood. Here we use single-molecule force spectroscopy and NMR spectroscopy to observe the periplasmic holdase chaperones SurA and Skp sh...

journal_title：Nature structural & molecular biology

authors： Thoma J,Burmann BM,Hiller S,Müller DJ

更新日期：2015-10-01 00:00:00

abstract：:The Rbfox family of splicing factors regulate alternative splicing during animal development and in disease, impacting thousands of exons in the maturing brain, heart and muscle. Rbfox proteins have long been known to bind to the RNA sequence GCAUG with high affinity and specificity, but just half of Rbfox binding sit...

journal_title：Nature structural & molecular biology

authors： Begg BE,Jens M,Wang PY,Minor CM,Burge CB

更新日期：2020-10-01 00:00:00

abstract：:Structural maintenance of chromosome (SMC) complexes are central regulators of chromosome architecture that are essential in all domains of life. For decades, the structural biology field has been debating how these conserved protein complexes use their intricate ring-like structures to structurally organize DNA. Here...

journal_title：Nature structural & molecular biology

authors： Eeftens J,Dekker C

更新日期：2017-12-07 00:00:00

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

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

更新日期：2020-03-01 00:00:00

abstract：:Polycomb repressive complex 2 (PRC2) catalyzes methylation on lysine 27 of histone H3 (H3K27) and is required for maintaining transcriptional patterns and cellular identity, but the specification and maintenance of genomic PRC2 binding and H3K27 methylation patterns remain incompletely understood. Epigenetic mechanism...

journal_title：Nature structural & molecular biology

authors： Højfeldt JW,Laugesen A,Willumsen BM,Damhofer H,Hedehus L,Tvardovskiy A,Mohammad F,Jensen ON,Helin K

更新日期：2018-03-01 00:00:00

abstract：:Synthesis of ATP from ADP and phosphate, catalyzed by F(0)F(1)-ATP synthases, is the most abundant physiological reaction in almost any cell. F(0)F(1)-ATP synthases are membrane-bound enzymes that use the energy derived from an electrochemical proton gradient for ATP formation. We incorporated double-labeled F(0)F(1)-...

journal_title：Nature structural & molecular biology

authors： Diez M,Zimmermann B,Börsch M,König M,Schweinberger E,Steigmiller S,Reuter R,Felekyan S,Kudryavtsev V,Seidel CA,Gräber P

更新日期：2004-02-01 00:00:00

abstract：:TRIMCyps are primate antiretroviral proteins that potently inhibit HIV replication. Here we describe how rhesus macaque TRIMCyp (RhTC) has evolved to target and restrict HIV-2. We show that the ancestral cyclophilin A (CypA) domain of RhTC targets HIV-2 capsid with weak affinity, which is strongly increased in RhTC by...

journal_title：Nature structural & molecular biology

authors： Price AJ,Marzetta F,Lammers M,Ylinen LM,Schaller T,Wilson SJ,Towers GJ,James LC

更新日期：2009-10-01 00:00:00

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

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

abstract：:Core Qβ replicase comprises the Qβ virus-encoded RNA-dependent RNA polymerase (β-subunit) and the host Escherichia coli translational elongation factors EF-Tu and EF-Ts. The functions of the host proteins in the viral replicase are not clear. Structural analyses of RNA polymerization by core Qβ replicase reveal that a...

journal_title：Nature structural & molecular biology

authors： Takeshita D,Tomita K

更新日期：2012-01-15 00:00:00

abstract：:We describe a novel approach to separate two ribosome populations from the same cells and use this method in combination with RNA-seq to identify mRNAs bound to Saccharomyces cerevisiae ribosomes with and without Rps26, a protein linked to the pathogenesis of Diamond-Blackfan anemia (DBA). These analyses reveal that R...

journal_title：Nature structural & molecular biology

authors： Ferretti MB,Ghalei H,Ward EA,Potts EL,Karbstein K

更新日期：2017-09-01 00:00:00