Crystals of threonyl-tRNA synthetase from Thermus thermophilus. Preliminary crystallographic data.


:Crystals have been obtained of threonyl-tRNA synthetase from the extreme thermophile Thermus thermophilus using sodium formate as a precipitant. The crystals are very stable and diffract to at least 2.4 A. The crystals belong to space group P2(1)2(1)2(1) with cell parameters a = 61.4 A, b = 156.1 A, c = 177.3 A.


J Mol Biol


Garber MB,Yaremchuk AD,Tukalo MA,Egorova SP,Fomenkova NP,Nikonov SV




Has Abstract


1990-08-20 00:00:00














  • phi29 DNA polymerase active site: role of residue Val250 as metal-dNTP complex ligand and in protein-primed initiation.

    abstract::DNA polymerases require two acidic residues to coordinate metal ions A and B at their polymerisation active site during catalysis of nucleotide incorporation. Crystallographic resolution of varphi29 DNA polymerase ternary complex showed that metal B coordination also depends on the carbonyl group of Val250 that belong...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Pérez-Arnaiz P,Lázaro JM,Salas M,de Vega M

    更新日期:2010-01-15 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


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

    更新日期:2006-12-01 00:00:00

  • First glimpses at structure-function relationships of the nucleocapsid protein of retroviruses.

    abstract::Retroviruses are a family of widespread small animal viruses about 110 nm in diameter, composed of an inner core surrounded by an outer envelope formed of a lipid bilayer of cellular origin in which are anchored viral glycoproteins. The inner core is formed by an outer shell of capsid protein molecules (CA protein) su...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审


    authors: Darlix JL,Lapadat-Tapolsky M,de Rocquigny H,Roques BP

    更新日期:1995-12-08 00:00:00

  • Relative binding affinities of OmpR and OmpR-phosphate at the ompF and ompC regulatory sites.

    abstract::In Escherichia coli, porin gene expression is regulated, in part, by the two-component regulatory system consisting of the two proteins EnvZ and OmpR. EnvZ is an integral inner membrane protein that is phosphorylated by cytoplasmic ATP on a histidine residue. EnvZ modulates the activity of OmpR by phosphorylation and ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Head CG,Tardy A,Kenney LJ

    更新日期:1998-09-04 00:00:00

  • Flexibility and variability of TIMP binding: X-ray structure of the complex between collagenase-3/MMP-13 and TIMP-2.

    abstract::The excessive activity of matrix metalloproteinases (MMPs) contributes to pathological processes such as arthritis, tumor growth and metastasis if not balanced by the tissue inhibitors of metalloproteinases (TIMPs). In arthritis, the destruction of fibrillar (type II) collagen is one of the hallmarks, with MMP-1 (coll...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Maskos K,Lang R,Tschesche H,Bode W

    更新日期:2007-03-02 00:00:00

  • Vibrio cholerae YaeO is a Structural Homologue of RNA Chaperone Hfq that Inhibits Rho-dependent Transcription Termination by Dissociating its Hexameric State.

    abstract::Rho-dependent transcription termination is a well-conserved process in bacteria. The Psu and YaeO proteins are the two established inhibitors of the ATP-dependent RNA helicase Rho protein of Escherichia coli. Here, we show a detailed sequence and phylogenetic analysis demonstrating that Vibrio cholerae YaeO (VcYaeO) i...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Pal K,Yadav M,Jain S,Ghosh B,Sen R,Sen U

    更新日期:2019-12-06 00:00:00

  • Solution state NMR structure and dynamics of KpOmpA, a 210 residue transmembrane domain possessing a high potential for immunological applications.

    abstract::The three-dimensional structure of the outer membrane protein A from Klebsiella pneumoniae transmembrane domain was determined by NMR.This protein induces specific humoral and cytotoxic responses, and is a potent carrier protein. This is one of the largest integral membrane proteins(210 residues) for which nearly comp...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Renault M,Saurel O,Czaplicki J,Demange P,Gervais V,Löhr F,Réat V,Piotto M,Milon A

    更新日期:2009-01-09 00:00:00

  • Structural analysis of the rate-limiting transition states in the folding of Im7 and Im9: similarities and differences in the folding of homologous proteins.

    abstract::The bacterial immunity proteins Im7 and Im9 fold with mechanisms of different kinetic complexity. Whilst Im9 folds in a two-state transition at pH 7.0 and 10 degrees C, Im7 populates an on-pathway intermediate under these conditions. In order to assess the role of sequence versus topology in the folding of these prote...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Friel CT,Capaldi AP,Radford SE

    更新日期:2003-02-07 00:00:00

  • Effect of inorganic phosphate on FMN binding and loop flexibility in Desulfovibrio desulfuricans apo-flavodoxin.

    abstract::The complex between flavin mononucleotide (FMN) and apo-flavodoxin is dominated by isoalloxazine-stacking interactions and 5'-phosphate hydrogen bonds. We show here that FMN binding to Desulfovibrio desulfuricans apo-flavodoxin is faster and the affinity is higher in the presence of inorganic phosphate as compared to ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Muralidhara BK,Chen M,Ma J,Wittung-Stafshede P

    更新日期:2005-05-27 00:00:00

  • Identification of protein interaction partners and protein-protein interaction sites.

    abstract::Rigid-body docking has become quite successful in predicting the correct conformations of binary protein complexes, at least when the constituent proteins do not undergo large conformational changes upon binding. However, determining whether two given proteins interact is a more difficult problem. Successful docking p...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Sacquin-Mora S,Carbone A,Lavery R

    更新日期:2008-10-24 00:00:00

  • Fibrillization propensity for short designed hexapeptides predicted by computer simulation.

    abstract::Assembly of normally soluble proteins into ordered aggregates, known as amyloid fibrils, is a cause or associated symptom of numerous human disorders, including Alzheimer's and the prion diseases. Here, we test the ability of discontinuous molecular dynamics (DMD) simulations based on PRIME20, a new intermediate-resol...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Wagoner VA,Cheon M,Chang I,Hall CK

    更新日期:2012-03-02 00:00:00

  • Solution structure of GDP-tubulin double rings to 3 nm resolution and comparison with microtubules.

    abstract::GDP liganded tubulin, which is inactive in microtubule assembly, polymerizes into rings more readily than the active GTP liganded protein. The structure of double rings made of highly purified GDP-tubulin has been characterized to 3 nm resolution with synchrotron X-ray solution scattering. The scattering profile has c...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Díaz JF,Pantos E,Bordas J,Andreu JM

    更新日期:1994-04-29 00:00:00

  • Functional hydration and conformational gating of proton uptake in cytochrome c oxidase.

    abstract::Cytochrome c oxidase couples the reduction of dioxygen to proton pumping against an electrochemical gradient. The D-channel, a 25-A-long cavity, provides the principal pathway for the uptake of chemical and pumped protons. A water chain is thought to mediate the relay of protons via a Grotthuss mechanism through the D...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Henry RM,Yu CH,Rodinger T,Pomès R

    更新日期:2009-04-17 00:00:00

  • Modular structure in developmentally eliminated DNA in Tetrahymena may be a consequence of frequent insertions and deletions.

    abstract::The work reported here describes insertion-deletion (Indel) polymorphisms in two internally eliminated sequences (IESs, that are deleted during development in Tetrahymena): a 1.8 kb Indel at one end of the 1.1 kb H1 IES and a 0.5 kb Indel inside the 1.4 kb calmodulin (C) IES. These two IESs are located in the proximit...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Huvos P

    更新日期:2004-03-05 00:00:00

  • Self-assembly of brome mosaic virus protein into capsids. Initial and final states of aggregation.

    abstract::The pH and ionic strength dependence of the states of aggregation of brome mosaic virus protein has been investigated by small angle neutron scattering, quasielastic light-scattering, analytical centrifugation and electron microscopy. At pH above neutrality, protein oligomers are found in dynamical equilibrium, compri...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Cuillel M,Zulauf M,Jacrot B

    更新日期:1983-03-15 00:00:00

  • Membrane biogenesis of subunit II of cytochrome bo oxidase: contrasting requirements for insertion of N-terminal and C-terminal domains.

    abstract::The membrane assembly of the respiratory complexes requires the membrane insertases Oxa1 in mitochondria and YidC in bacteria. Oxa1 is responsible for the insertion of the mitochondrial cytochrome c oxidase subunit II (CoxII). Here, we investigated whether YidC, the bacterial Oxa1 homolog, plays a crucial role in the ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Celebi N,Yi L,Facey SJ,Kuhn A,Dalbey RE

    更新日期:2006-04-14 00:00:00

  • Control of actin dynamics in cell motility.

    abstract::Actin polymerization plays a major role in cell movement. The controls of actin sequestration/desequestration and of filament turnover are two important features of cell motility. Actin binding proteins use properties derived from the steady-state monomer-polymer cycle of actin in the presence of ATP, to control the F...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审


    authors: Carlier MF,Pantaloni D

    更新日期:1997-06-20 00:00:00

  • Mutations in the conserved P loop perturb the conformation of two structural elements in the peptidyl transferase center of 23 S ribosomal RNA.

    abstract::Evidence is presented for the participation of the P loop (nucleotides G2250-C2254) of 23 S rRNA in establishing the tertiary structure of the peptidyl transferase center. Single base substitutions were introduced into the P loop, which participates in peptide bond formation through direct interaction with the CCA end...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Gregory ST,Dahlberg AE

    更新日期:1999-01-29 00:00:00

  • Asymmetric dimeric structure of ferredoxin-NAD(P)+ oxidoreductase from the green sulfur bacterium Chlorobaculum tepidum: implications for binding ferredoxin and NADP+.

    abstract::Ferredoxin-NAD(P)(+) oxidoreductase (FNR) catalyzes the reduction of NAD(P)(+) to NAD(P)H with the reduced ferredoxin (Fd) during the final step of the photosynthetic electron transport chain. FNR from the green sulfur bacterium Chlorobaculum tepidum is functionally analogous to plant-type FNR but shares a structural ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Muraki N,Seo D,Shiba T,Sakurai T,Kurisu G

    更新日期:2010-08-20 00:00:00

  • Interaction of the Dengue virus fusion peptide with membranes assessed by NMR: The essential role of the envelope protein Trp101 for membrane fusion.

    abstract::Dengue virus (DV) infection depends on a step of membrane fusion, which occurs in the acidic environment of the endosome. This process is mediated by virus surface envelope glycoprotein, in which the loop between residues D98-G112 is considered to be crucial, acting as a fusion peptide. Here, we have characterized fun...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Melo MN,Sousa FJ,Carneiro FA,Castanho MA,Valente AP,Almeida FC,Da Poian AT,Mohana-Borges R

    更新日期:2009-09-25 00:00:00

  • APOBEC3B and AID have similar nuclear import mechanisms.

    abstract::Members of the APOBEC (apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like) protein family catalyze DNA cytosine deamination and underpin a variety of immune defenses. For instance, several family members, including APOBEC3B (A3B), elicit strong retrotransposon and retrovirus restriction activities. Howev...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Lackey L,Demorest ZL,Land AM,Hultquist JF,Brown WL,Harris RS

    更新日期:2012-06-22 00:00:00

  • Bulge-induced bends in RNA: quantification by transient electric birefringence.

    abstract::Bulges represent one of the most common non-helical elements in RNA, often displaying a strong degree of phylogenetic conservation, both in location and sequence, within larger RNA molecules. Thus, knowledge of the conformation and flexibility of RNA bulges is an important prerequisite for understanding the rules gove...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Zacharias M,Hagerman PJ

    更新日期:1995-03-31 00:00:00

  • An additional dimer linkage structure in Moloney murine leukemia virus RNA.

    abstract::We have identified an additional dimerization linkage structure in the genome of Moloney murine leukemia virus (MoMLV). Retroviral genomes have long been known to be linked at their 5' ends to form dimers. In MoMLV, a hairpin loop functioning as a dimer linkage structure (DLS) has previously been identified at nucleot...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Oroudjev EM,Kang PC,Kohlstaedt LA

    更新日期:1999-08-20 00:00:00

  • Detection of transmembrane linkages between immunoglobulin or complement receptors and the neutrophil's cortical microfilaments by resonance energy transfer microscopy.

    abstract::By exploiting the 1/r4 (where r is the separation distance between fluorochromes) dependence of energy transfer between parallel lamellae, we have observed transmembrane energy transfer between membrane receptors and cortical microfilaments. Receptors were labeled with donor- or acceptor-conjugated Fab fragments, wher...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Zhou MJ,Todd RF 3rd,Petty HR

    更新日期:1991-03-20 00:00:00

  • NMR structures of two variants of bovine pancreatic trypsin inhibitor (BPTI) reveal unexpected influence of mutations on protein structure and stability.

    abstract::Here we determined NMR solution structures of two mutants of bovine pancreatic trypsin inhibitor (BPTI) to reveal structural reasons of their decreased thermodynamic stability. A point mutation, A16V, in the solvent-exposed loop destabilizes the protein by 20 degrees C, in contrast to marginal destabilization observed...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Cierpicki T,Otlewski J

    更新日期:2002-08-23 00:00:00

  • Small-angle X-ray scattering and single-molecule FRET spectroscopy produce highly divergent views of the low-denaturant unfolded state.

    abstract::The results of more than a dozen single-molecule Förster resonance energy transfer (smFRET) experiments suggest that chemically unfolded polypeptides invariably collapse from an expanded random coil to more compact dimensions as the denaturant concentration is reduced. In sharp contrast, small-angle X-ray scattering (...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Yoo TY,Meisburger SP,Hinshaw J,Pollack L,Haran G,Sosnick TR,Plaxco K

    更新日期:2012-05-04 00:00:00

  • Hydrogen exchange kinetics of surface peptide amides in bovine pancreatic trypsin inhibitor.

    abstract::The acid and base catalytic rate constants, kH, obs and kOH, obs and the pH at the minimum rate, pHmin, of 25 rapidly exchanging protons in bovine pancreatic trypsin inhibitor have been determined. Here we report the labeling procedure giving 1H nuclear magnetic resonance spectral resolution of seven additional rapidl...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Tüchsen E,Woodward C

    更新日期:1987-02-20 00:00:00

  • Identifying interacting regions in the beta subunit of Escherichia coli RNA polymerase.

    abstract::Numerous physical and genetic approaches have identified residues in the alpha, beta, beta' and sigma subunits of Escherichia coli RNA polymerase that are involved in transcriptional processes; in contrast, relatively little data exist to demonstrate interacting regions within or between the subunits themselves. As a ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Tavormina PL,Reznikoff WS,Gross CA

    更新日期:1996-05-03 00:00:00

  • tRNA 3' end maturation in archaea has eukaryotic features: the RNase Z from Haloferax volcanii.

    abstract::Here, we report the first characterization and partial purification of an archaeal tRNA 3' processing activity, the RNase Z from Haloferax volcanii. The activity identified here is an endonuclease, which cleaves tRNA precursors 3' to the discriminator. Thus tRNA 3' processing in archaea resembles the eukaryotic 3' pro...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Schierling K,Rösch S,Rupprecht R,Schiffer S,Marchfelder A

    更新日期:2002-03-01 00:00:00

  • High affinity cooperative DNA binding by the yeast Mlh1-Pms1 heterodimer.

    abstract::We demonstrate here that the Saccharomyces cerevisiae Mlh1-Pms1 heterodimer required for DNA mismatch repair and other cellular processes is a DNA binding protein. Binding was evaluated using a variety of single and double-stranded DNA molecules. Mlh1-Pms1 bound short substrates with low affinity and showed a slight p...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章


    authors: Hall MC,Wang H,Erie DA,Kunkel TA

    更新日期:2001-09-28 00:00:00