当前位置： SCI文献检索 > JOURNAL OF MOLECULAR BIOLOGY期刊下所有文献 > Breaking the stereo barrier of amino acid attachment to tRNA by a single nucleotide.

Breaking the stereo barrier of amino acid attachment to tRNA by a single nucleotide.

Abstract：

:Aminoacyl-tRNA synthetases are responsible for attaching amino acid residues to the tRNA 3'-end. The two classes of synthetases approach tRNA as mirror images, with opposite but symmetrical stereochemistries that allow the class I enzymes to attach amino acid residues to the 2'-hydroxyl group of the terminal ribose, whereas, the class II enzymes attach amino acid residues to the 3'-hydroxyl group. However, we show here that the attachment of cysteine to tRNA(Cys) by the class I cysteinyl-tRNA synthetase (CysRS) is flexible; the enzyme is capable of using either the 2' or 3'-hydroxyl group as the attachment site. The molecular basis for this flexibility was investigated. Introduction of the nucleotide U73 of tRNA(Cys) into tRNA(Val) was found to confer the flexibility. While valylation of the wild-type tRNA(Val) by the class I ValRS was strictly dependent on the terminal 2'-hydroxyl group, that of the U73 mutant of tRNA(Val) occurred at either the 2' or 3'-hydroxyl group. Thus, the single nucleotide U73 of tRNA has the ability to break the stereo barrier of amino acid attachment to tRNA, by mobilizing the 2' and 3'-hydroxyl groups of A76 in flexible geometry with respect to the tRNA acceptor stem.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Shitivelband S,Hou YM

doi

10.1016/j.jmb.2005.02.023

keywords:

subject

Has Abstract

pub_date

2005-05-06 00:00:00

pages

513-21

issue

3

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(05)00175-0

journal_volume

348

pub_type

杂志文章

相关文献

JOURNAL OF MOLECULAR BIOLOGY文献大全
  • The structure of the cytochrome p450cam-putidaredoxin complex determined by paramagnetic NMR spectroscopy and crystallography.

    abstract：:Cytochrome P450cam catalyzes the hydroxylation of camphor in a complex process involving two electron transfers (ETs) from the iron-sulfur protein putidaredoxin. The enzymatic control of the successive steps of catalysis is critical for a highly efficient reaction. The injection of the successive electrons is part of ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2013.07.006

    authors： Hiruma Y,Hass MA,Kikui Y,Liu WM,Ölmez B,Skinner SP,Blok A,Kloosterman A,Koteishi H,Löhr F,Schwalbe H,Nojiri M,Ubbink M

    更新日期：2013-11-15 00:00:00

  • Linkage of protonation and anion binding to the folding of Sac7d.

    abstract：:The temperature, pH, and salt dependence of the folding of recombinant Sac7d from the hyperthermophile Sulfolobus acidocaldarius is mapped using multi-dimensional differential scanning calorimetry (DSC) and folding progress surfaces followed by circular dichroism. Linkage relations are derived to explain the observed ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1998.1500

    authors： McCrary BS,Bedell J,Edmondson SP,Shriver JW

    更新日期：1998-02-13 00:00:00

  • A two-site mechanism for the inhibition of IAPP amyloidogenesis by zinc.

    abstract：:Human islet amyloid polypeptide (hIAPP) is a highly amyloidogenic protein co-secreted with insulin in response to glucose levels. The formation of hIAPP amyloid plaques near islet cells has been linked to the death of insulin-secreting β-cells in humans and the progression of type II diabetes. Since both healthy indiv...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2011.05.015

    authors： Salamekh S,Brender JR,Hyung SJ,Nanga RP,Vivekanandan S,Ruotolo BT,Ramamoorthy A

    更新日期：2011-07-08 00:00:00

  • The crystal structures of the SH2 domain of p56lck complexed with two phosphonopeptides suggest a gated peptide binding site.

    abstract：:Src homology-2 (SH2) domains are protein modules found within a wide variety of cytoplasmic signalling molecules that bind with high affinity to phosphotyrosyl-containing protein sequences. In order to develop SH2 inhibitors that contain phosphotyrosyl analogues resistant to cellular phosphatases, we have solved the c...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1994.0089

    authors： Mikol V,Baumann G,Keller TH,Manning U,Zurini MG

    更新日期：1995-02-17 00:00:00

  • Sequence Specificity in the Entropy-Driven Binding of a Small Molecule and a Disordered Peptide.

    abstract：:Approximately one-third of the human proteome is made up of proteins that are entirely disordered or that contain extended disordered regions. Although these disordered proteins are closely linked with many major diseases, their binding mechanisms with small molecules remain poorly understood, and a major concern is w...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2017.07.016

    authors： Heller GT,Aprile FA,Bonomi M,Camilloni C,De Simone A,Vendruscolo M

    更新日期：2017-09-01 00:00:00

  • Solution structure of a C-terminal coiled-coil domain from bovine IF(1): the inhibitor protein of F(1) ATPase.

    abstract：:Bovine IF(1) is a basic, 84 amino acid residue protein that inhibits the hydrolytic action of the F(1)F(0) ATP synthase in mitochondria under anaerobic conditions. Its oligomerization state is dependent on pH. At a pH value below 6.5 it forms an active dimer. At higher pH values, two dimers associate to form an inacti...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2001.4570

    authors： Gordon-Smith DJ,Carbajo RJ,Yang JC,Videler H,Runswick MJ,Walker JE,Neuhaus D

    更新日期：2001-04-27 00:00:00

  • Role of the salt-bridge between switch-1 and switch-2 of Dictyostelium myosin.

    abstract：:Motifs N2 and N3, also referred to as switch-1 and switch-2, form part of the active site of molecular motors such as myosins and kinesins. In the case of myosin, N3 is thought to act as a gamma-phosphate sensor and moves almost 6 A relative to N2 during the catalysed turnover of ATP, opening and closing the active si...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1999.2921

    authors： Furch M,Fujita-Becker S,Geeves MA,Holmes KC,Manstein DJ

    更新日期：1999-07-16 00:00:00

  • Yeast Prions Compared to Functional Prions and Amyloids.

    abstract：:Saccharomyces cerevisiae is an occasional host to an array of prions, most based on self-propagating, self-templating amyloid filaments of a normally soluble protein. [URE3] is a prion of Ure2p, a regulator of nitrogen catabolism, while [PSI+] is a prion of Sup35p, a subunit of the translation termination factor Sup35...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jmb.2018.04.022

    authors： Wickner RB,Edskes HK,Son M,Bezsonov EE,DeWilde M,Ducatez M

    更新日期：2018-10-12 00:00:00

  • Insights into strand exchange in BTB domain dimers from the crystal structures of FAZF and Miz1.

    abstract：:The BTB domain is a widely distributed protein-protein interaction motif that is often found at the N-terminus of zinc finger transcription factors. Previous crystal structures of BTB domains have revealed tightly interwound homodimers, with the N-terminus from one chain forming a two-stranded anti-parallel beta-sheet...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2010.05.028

    authors： Stogios PJ,Cuesta-Seijo JA,Chen L,Pomroy NC,Privé GG

    更新日期：2010-07-30 00:00:00

  • The Bacillus subtilis and Bacillus halodurans Aspartyl-tRNA Synthetases Retain Recognition of tRNA(Asn).

    abstract：:Synthesis of asparaginyl-tRNA (Asn-tRNA(Asn)) in bacteria can be formed either by directly ligating Asn to tRNA(Asn) using an asparaginyl-tRNA synthetase (AsnRS) or by synthesizing Asn on the tRNA. In the latter two-step indirect pathway, a non-discriminating aspartyl-tRNA synthetase (ND-AspRS) attaches Asp to tRNA(As...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2016.01.014

    authors： Nair N,Raff H,Islam MT,Feen M,Garofalo DM,Sheppard K

    更新日期：2016-02-13 00:00:00

  • Structure of membrane-bound annexin A5 trimers: a hybrid cryo-EM - X-ray crystallography study.

    abstract：:Annexins constitute a family of phospholipid- and Ca(2+)-binding proteins involved in a variety of membrane-related processes. The property of several annexins, including annexin A5, to self-organize at the surface of lipid membranes into 2D ordered arrays has been proposed to be functionally relevant in cellular cont...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2000.4183

    authors： Oling F,Santos JS,Govorukhina N,Mazères-Dubut C,Bergsma-Schutter W,Oostergetel G,Keegstra W,Lambert O,Lewit-Bentley A,Brisson A

    更新日期：2000-12-08 00:00:00

  • Alternative oligomeric states of the yeast Rvb1/Rvb2 complex induced by histidine tags.

    abstract：:Rvb1 and Rvb2 are essential AAA(+) (ATPases associated with diverse cellular activities) helicases, which are important components of critical complexes such as chromatin remodeling and telomerase complexes. The oligomeric state of the Rvb proteins has been controversial. Independent studies from several groups have d...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2010.10.003

    authors： Cheung KL,Huen J,Kakihara Y,Houry WA,Ortega J

    更新日期：2010-12-03 00:00:00

  • DBC2 is essential for transporting vesicular stomatitis virus glycoprotein.

    abstract：:DBC2 is a tumor suppressor gene linked to breast and lung cancers. Although DBC2 belongs to the RHO GTPase family, it has a unique structure that contains a Broad-Complex/Tramtrack/Bric a Brac (BTB) domain at the C terminus instead of a typical CAAX motif. A limited number of functional studies on DBC2 have indicated ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2006.09.026

    authors： Chang FK,Sato N,Kobayashi-Simorowski N,Yoshihara T,Meth JL,Hamaguchi M

    更新日期：2006-12-01 00:00:00

  • Selective Autophagy Receptors in Neuronal Health and Disease.

    abstract：:Neurons are electrically excitable, postmitotic cells that perform sensory, relaying, and motor functions. Because of their unique morphological and functional specialization, cells of this type are sensitive to the stress caused by accumulation of misfolded proteins or damaged organelles. Autophagy is the fundamental...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jmb.2019.10.013

    authors： Conway O,Akpinar HA,Rogov VV,Kirkin V

    更新日期：2020-04-03 00:00:00

  • Mismatch repair factor MSH2-MSH3 binds and alters the conformation of branched DNA structures predicted to form during genetic recombination.

    abstract：:Genetic studies in Saccharomyces cerevisiae predict that the mismatch repair (MMR) factor MSH2-MSH3 binds and stabilizes branched recombination intermediates that form during single strand annealing and gene conversion. To test this model, we constructed a series of DNA substrates that are predicted to form during the...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2006.05.032

    authors： Surtees JA,Alani E

    更新日期：2006-07-14 00:00:00

  • Recognition of protein substrates by the prolyl isomerase trigger factor is independent of proline residues.

    abstract：:The trigger factor is associated with bacterial ribosomes and catalyzes proline-limited protein folding reactions. Its folding activity is very high and conserved in evolution, as shown for the homologous enzymes from Escherichia coli and Mycoplasma genitalium. The folding protein substrate (a variant of ribonuclease ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1997.1604

    authors： Scholz C,Mücke M,Rape M,Pecht A,Pahl A,Bang H,Schmid FX

    更新日期：1998-04-03 00:00:00

  • Models for the structure of outer-membrane proteins of Escherichia coli derived from raman spectroscopy and prediction methods.

    abstract：:The secondary structure of porin, maltoporin and OmpA protein reconstituted in lipid membranes is determined by Raman spectroscopy. The three proteins have similar structures consisting of 50 to 60% beta-strand, about 20% beta-turn, and less than 15% alpha-helix. Employing a method for structural prediction that accou...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(86)90292-5

    authors： Vogel H,Jähnig F

    更新日期：1986-07-20 00:00:00

  • Stalling of human DNA (cytosine-5) methyltransferase at single-strand conformers from a site of dynamic mutation.

    abstract：:Single-strand conformers (SSCs) from the C-rich strand of the triplet repeat at the FMR-1 locus are rapidly and selectively methylated by the human DNA (cytosine-5) methyltransferase. The apparent affinity of the enzyme for the FMR-1 SSC is about tenfold higher than it is for a control Watson-Crick paired duplex. The ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1997.1430

    authors： Kho MR,Baker DJ,Laayoun A,Smith SS

    更新日期：1998-01-09 00:00:00

  • The activity and stability of the intrinsically disordered Cip/Kip protein family are regulated by non-receptor tyrosine kinases.

    abstract：:The Cip/Kip family of cyclin-dependent kinase (Cdk) inhibitors includes p21(Cip1), p27(Kip1) and p57(Kip2). Their kinase inhibitory activities are mediated by a homologous N-terminal kinase inhibitory domain. The Cdk inhibitory activity and stability of p27 have been shown to be regulated by a two-step phosphorylation...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2014.11.011

    authors： Huang Y,Yoon MK,Otieno S,Lelli M,Kriwacki RW

    更新日期：2015-01-30 00:00:00

  • Active site trapping of nucleotide by smooth and non-muscle myosins.

    abstract：:The folded 10 S monomer conformation of smooth muscle myosin traps the hydrolysis products ADP and Pi in its active sites. To test the significance of this, we have searched for equivalent trapping in other conformational and assembly states of avian gizzard and brush border myosins, using formycin triphosphate (FTP) ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(88)90100-3

    authors： Cross RA,Jackson AP,Citi S,Kendrick-Jones J,Bagshaw CR

    更新日期：1988-09-05 00:00:00

  • ADP-binding to origin recognition complex of Saccharomyces cerevisiae.

    abstract：:The origin recognition complex (ORC), a possible initiator of chromosomal DNA replication in eukaryotes, binds to ATP through its subunits Orc1p and Orc5p. Orc1p possesses ATPase activity. As for DnaA, the Escherichia coli initiator, the ATP-DnaA complex is active but the ADP-DnaA complex is inactive for DNA replicati...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2004.04.045

    authors： Takenaka H,Makise M,Kuwae W,Takahashi N,Tsuchiya T,Mizushima T

    更新日期：2004-06-25 00:00:00

  • Congenital Cataract-Causing Mutation G129C in γC-Crystallin Promotes the Accumulation of Two Distinct Unfolding Intermediates That Form Highly Toxic Aggregates.

    abstract：:Cataract is a lens opacification disease prevalent worldwide. Cataract-causing mutations in crystallins generally lead to the formation of light-scattering particles in the lens. However, it remains unclear for the detailed structural and pathological mechanisms of most mutations. In this study, we showed that the G12...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2015.07.001

    authors： Xi YB,Chen XJ,Zhao WJ,Yan YB

    更新日期：2015-08-28 00:00:00

  • Contribution of the hydrophobic effect to globular protein stability.

    abstract：:The decrease in conformational stability, delta(delta G), has been measured for 72 aliphatic side-chain mutants from four proteins in which a larger side-chain is replaced by a smaller side-chain so that steric effects are minimal. When these delta(delta G) values are corrected to the same accessibility, namely 100% b...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(92)90121-y

    authors： Pace CN

    更新日期：1992-07-05 00:00:00

  • Alanine scan of core positions in ubiquitin reveals links between dynamics, stability, and function.

    abstract：:Mutations at solvent-inaccessible core positions in proteins can impact function through many biophysical mechanisms including alterations to thermodynamic stability and protein dynamics. As these properties of proteins are difficult to investigate, the impacts of core mutations on protein function are poorly understo...

    journal_title：Journal of molecular biology

    pub_type： 评论,杂志文章

    doi：10.1016/j.jmb.2013.10.042

    authors： Lee SY,Pullen L,Virgil DJ,Castañeda CA,Abeykoon D,Bolon DN,Fushman D

    更新日期：2014-04-03 00:00:00

  • Minor structural changes in a mutated human melanoma antigen correspond to dramatically enhanced stimulation of a CD4+ tumor-infiltrating lymphocyte line.

    abstract：:While most immunotherapies for cancer have focused on eliciting specific CD8+ cytotoxic T lymphocyte killing of tumor cells, a mounting body of evidence suggests that stimulation of anti-tumor CD4+ T cell help may be required for highly effective therapy. Several MHC class II-restricted tumor antigens that specificall...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/S0022-2836(02)00370-4

    authors： Sundberg EJ,Sawicki MW,Southwood S,Andersen PS,Sette A,Mariuzza RA

    更新日期：2002-05-31 00:00:00

  • Assembly of the archaeal box C/D sRNP can occur via alternative pathways and requires temperature-facilitated sRNA remodeling.

    abstract：:Archaeal dual-guide box C/D small nucleolar RNA-like RNAs (sRNAs) bind three core proteins in sequential order at both terminal box C/D and internal C'/D' motifs to assemble two ribonuclear protein (RNP) complexes active in guiding nucleotide methylation. Experiments have investigated the process of box C/D sRNP assem...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2006.07.091

    authors： Gagnon KT,Zhang X,Agris PF,Maxwell ES

    更新日期：2006-10-06 00:00:00

  • Ensemble Modeling and Intracellular Aggregation of an Engineered Immunoglobulin-Like Domain.

    abstract：:The production of recombinant proteins in Escherichia coli frequently results in the formation of insoluble protein aggregates called inclusion bodies (IBs). The determinants of IB formation remain poorly understood and are of much interest for biotechnological and research applications, as well as offering insight in...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2016.02.016

    authors： Trainor K,Gingras Z,Shillingford C,Malakian H,Gosselin M,Lipovšek D,Meiering EM

    更新日期：2016-03-27 00:00:00

  • An unusual conformation of NAD+ bound to sorbitol dehydrogenase? A time-dependent transferred nuclear Overhauser effect study.

    abstract：:The conformation of NAD+ in the sheep liver sorbitol dehydrogenase-NAD+ binary complex has been investigated using time-dependent proton-proton transferred nuclear Overhauser enhancement measurements to determine interproton distance ratios and distances between bound NAD+ protons. The conformation about both the aden...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(84)80023-6

    authors： Gronenborn AM,Clore GM,Jeffery J

    更新日期：1984-02-05 00:00:00

  • RGG/RG Motif Regions in RNA Binding and Phase Separation.

    abstract：:RGG/RG motifs are RNA binding segments found in many proteins that can partition into membraneless organelles. They occur in the context of low-complexity disordered regions and often in multiple copies. Although short RGG/RG-containing regions can sometimes form high-affinity interactions with RNA structures, multipl...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jmb.2018.06.014

    authors： Chong PA,Vernon RM,Forman-Kay JD

    更新日期：2018-11-02 00:00:00

  • Resolution of a disordered region at the entrance of the human sex hormone-binding globulin steroid-binding site.

    abstract：:The crystal structure of human sex hormone-binding globulin (SHBG) has revealed how 5alpha-dihydrotestosterone intercalates between the two seven-stranded beta-sheets of its amino-terminal laminin G-like domain. However, a region of disorder (residues 130 to 135 of SHBG) was identified together with a zinc-binding sit...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/S0022-2836(02)00169-9

    authors： Grishkovskaya I,Avvakumov GV,Hammond GL,Muller YA

    更新日期：2002-05-03 00:00:00