Tunicate muscle actin genes. Structure and organization as a gene cluster.

Abstract:

:We have isolated and determined the complete nucleotide sequences of two genes, HrMA4a and HrMA2, which encode the same muscle actin protein of the tunicate Halocynthia roretzi. HrMA4a and HrMA2 contain three exons, and the genes have intron-exon splice junctions at the same positions. The 5' flanking region of HrMA4a gene contains several potential regulatory elements. A TATA box is located at -30 and a CArG box found in regulatory region of vertebrate muscle-specific genes is located at -116. Seven E-box consensus sequences (CANNTG) known as binding sites for vertebrate myogenic determination factors are found within a 500 base-pair portion of the 5' flanking region of HrMA4a gene. HrMA4a and HrMA2 are separated by 1600 bases in genomic DNA and transcribed in the same direction. In addition to these genes, we have identified three other actin genes encoding muscle-type actins. All five actin genes are located in a 30 x 10(3) base-pair region of the genome and aligned in the same direction. This is the first report of a cluster of "vertebrate-type" muscle actin genes. The consensus sequences of 5' flanking region are conserved among these five genes, suggesting that the expression of the genes is controlled coordinately. This may be advantageous for the accumulation of considerable amounts of actin proteins in rapidly developing embryos of this animal.

journal_name

J Mol Biol

authors

Kusakabe T,Makabe KW,Satoh N

doi

10.1016/0022-2836(92)90237-e

keywords:

subject

Has Abstract

pub_date

1992-10-05 00:00:00

pages

955-60

issue

3

eissn

0022-2836

issn

1089-8638

pii

0022-2836(92)90237-E

journal_volume

227

pub_type

杂志文章
  • Regulation of IS1 transposition by the insA gene product.

    abstract::The IS1 element contains two adjacent genes called insA and insB, both required for IS1 transposition and IS1-mediated plasmid cointegration. These two genes are transcribed polycistronically from the promoter in the left terminal inverted repeat of IS1 (insL). We constructed overexpression systems of these genes with...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(89)90148-4

    authors: Machida C,Machida Y

    更新日期:1989-08-20 00:00:00

  • The cobalamin-independent methionine synthase enzyme captured in a substrate-induced closed conformation.

    abstract::The cobalamin-independent methionine synthase enzyme catalyzes a challenging reaction: the direct transfer of a methyl from 5-methyl-tetrahydrofolate-glutamate3 to the l-homocysteine thiol. The enzyme has a dual (βα)8 TIM barrel structure that binds, activates and brings the reactants into reaction proximity by confor...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2014.12.014

    authors: Ubhi DK,Robertus JD

    更新日期:2015-02-27 00:00:00

  • A specific hydrophobic core in the alpha-lactalbumin molten globule.

    abstract::Molten globules are partially structured protein folding intermediates that adopt a native-like overall backbone topology in the absence of extensive detectable tertiary interactions. It is important to determine the extent of specific tertiary structure present in molten globules and to understand the role of specifi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.1825

    authors: Wu LC,Kim PS

    更新日期:1998-07-03 00:00:00

  • The human telomeric protein TRF1 specifically recognizes nucleosomal binding sites and alters nucleosome structure.

    abstract::Telomeres are dynamic nucleoprotein structures that cap the ends of eukaryotic chromosomes. In humans, the long (TTAGGG)(n) double-stranded telomeric DNA repeats are bound specifically by the two related proteins TRF1 and TRF2, and are organized in nucleosomes. Whereas the role of TRF1 and TRF2 in telomeric function h...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.04.071

    authors: Galati A,Rossetti L,Pisano S,Chapman L,Rhodes D,Savino M,Cacchione S

    更新日期:2006-07-07 00:00:00

  • Binding mode prediction for a flexible ligand in a flexible pocket using multi-conformation simulated annealing pseudo crystallographic refinement.

    abstract::We describe multi-conformation simulated annealing-pseudo-crystallographic refinement (MCSA-PCR), a technique developed for predicting the binding mode of a flexible ligand in a flexible binding pocket. To circumvent the local-minimum problem efficiently, this method performs multiple independent cycles of simulated a...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5147

    authors: Ota N,Agard DA

    更新日期:2001-11-30 00:00:00

  • Foundations and Emerging Paradigms for Computing in Living Cells.

    abstract::Genetic circuits, composed of complex networks of interacting molecular machines, enable living systems to sense their dynamic environments, perform computation on the inputs, and formulate appropriate outputs. By rewiring and expanding these circuits with novel parts and modules, synthetic biologists have adapted liv...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2016.02.018

    authors: Ma KC,Perli SD,Lu TK

    更新日期:2016-02-27 00:00:00

  • Preliminary crystallographic study of the phenylalanyl-tRNA synthetase from Thermus thermophilus HB8.

    abstract::Phenylalanyl-tRNA synthetase (EC 6.1.1.20) from the extreme thermophile Thermus thermophilus HB8 has been isolated and crystallized. The enzyme was found to consist of two types of subunits with molecular masses 38 X 10(3) (alpha) and 94 X 10(3) (beta) and is likely to be a tetrameric protein with a molecular mass of ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(87)90301-9

    authors: Chernaya MM,Korolev SV,Reshetnikova LS,Safro MG

    更新日期:1987-12-05 00:00:00

  • The positive transcription elongation factor b is an essential cofactor for the activation of transcription by myocyte enhancer factor 2.

    abstract::The positive transcription elongation factor b (P-TEFb), composed of cyclin-dependent kinase 9 and cyclin T1, stimulates the elongation of transcription by hyperphosphorylating the C-terminal region of RNA polymerase II. Aberrant activation of P-TEFb results in manifestations of cardiac hypertrophy in mice, suggesting...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2008.07.017

    authors: Nojima M,Huang Y,Tyagi M,Kao HY,Fujinaga K

    更新日期:2008-10-03 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

    doi:10.1016/j.jmb.2006.11.072

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

    更新日期:2007-03-02 00:00:00

  • Structural characterization of protein-protein complexes by integrating computational docking with small-angle scattering data.

    abstract::X-ray crystallography and NMR can provide detailed structural information of protein-protein complexes, but technical problems make their application challenging in the high-throughput regime. Other methods such as small-angle X-ray scattering (SAXS) are more promising for large-scale application, but at the cost of l...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.08.029

    authors: Pons C,D'Abramo M,Svergun DI,Orozco M,Bernadó P,Fernández-Recio J

    更新日期:2010-10-22 00:00:00

  • Structural organization and assembly of flagellar hook protein from Salmonella typhimurium.

    abstract::The terminal regions of monomeric hook protein from Salmonella typhimurium are known to be highly mobile and exposed to the solvent. Although hook protein exhibits an unusual far-UV circular dichroism spectrum, resembling that of random coil structures, our calorimetric experiments clearly demonstrate that the molecul...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0453

    authors: Vonderviszt F,Závodszky P,Ishimura M,Uedaira H,Namba K

    更新日期:1995-08-25 00:00:00

  • Mapping transient partial unfolding by protein engineering and native-state proteolysis.

    abstract::Transient partial unfolding of proteins under native conditions may have significant consequences in the biochemical and biophysical properties of proteins. Native-state proteolysis offers a facile way to investigate the thermodynamic and kinetic accessibilities of partially unfolded forms (cleavable forms) under nati...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.08.006

    authors: Chang Y,Park C

    更新日期:2009-10-23 00:00:00

  • Computer modelling of the alpha-helical coiled coil: packing of side-chains in the inner core.

    abstract::In order to predict the structure of alpha-helical coiled-coil proteins from their sequences, it is necessary to know how the side-chains pack in the interface between the alpha-helical strands. Since in alpha-fibrous proteins leucine is the most common residue at both the a and d positions of the heptad repeat, which...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0352

    authors: Offer G,Sessions R

    更新日期:1995-06-23 00:00:00

  • Isolation and characterization of ribosomal DNA variants from Sciara coprophila.

    abstract::The ribosomal RNA multigene family in the fungus fly Sciara coprophila contains a total of only 65 to 70 repeat units. We explored the types and frequencies of variant repeats in this small multigene family by characterizing different cloned rDNA variants from Sciara. Although we did not observe any intergenic spacer ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(89)90286-6

    authors: Kerrebrock AW,Srivastava R,Gerbi SA

    更新日期:1989-11-05 00:00:00

  • Crystallization and preliminary crystallographic investigation of methanol dehydrogenase from Methylobacterium extorquens AM1.

    abstract::Single crystals of methanol dehydrogenase (MDH) from Methylobacterium extorquens AM1 have been grown by the vapour diffusion method. These crystals diffract to beyond 2 A resolution and are suitable for X-ray crystallography. They belong to the orthorhombic space group P2(1)2(1)2(1) and have the following unit cell pa...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(92)90509-i

    authors: Ghosh M,Harlos K,Blake CC,Richardson I,Anthony C

    更新日期:1992-11-05 00:00:00

  • Molecular Organization of Soluble Type III Secretion System Sorting Platform Complexes.

    abstract::Many medically relevant Gram-negative bacteria use the type III secretion system (T3SS) to translocate effector proteins into the host for their invasion and intracellular survival. A multi-protein complex located at the cytosolic interface of the T3SS is proposed to act as a sorting platform by selecting and targetin...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.07.004

    authors: Bernal I,Börnicke J,Heidemann J,Svergun D,Horstmann JA,Erhardt M,Tuukkanen A,Uetrecht C,Kolbe M

    更新日期:2019-09-06 00:00:00

  • Substitution of a single bacteriophage T3 residue in bacteriophage T7 RNA polymerase at position 748 results in a switch in promoter specificity.

    abstract::The bacteriophage T3 and T7 RNA polymerases (RNAP) are closely related, yet exhibit high specificity for their own promoter sequences. In this work the primary determinant of T7 versus T3 promoter specificity has been localized to a single amino acid residue at position 748 in the T7 RNAP. Substitution of this residue...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(92)90838-b

    authors: Raskin CA,Diaz G,Joho K,McAllister WT

    更新日期:1992-11-20 00:00:00

  • Thermodynamic and kinetic basis for the relaxed DNA sequence specificity of "promiscuous" mutant EcoRI endonucleases.

    abstract::Promiscuous mutant EcoRI endonucleases produce lethal to sublethal effects because they cleave Escherichia coli DNA despite the presence of the EcoRI methylase. Three promiscuous mutant forms, Ala138Thr, Glu192Lys and His114Tyr, have been characterized with respect to their binding affinities and first-order cleavage ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.02.051

    authors: Sapienza PJ,Dela Torre CA,McCoy WH 4th,Jana SV,Jen-Jacobson L

    更新日期:2005-04-29 00:00:00

  • Targeted Killing of Pseudomonas aeruginosa by Pyocin G Occurs via the Hemin Transporter Hur.

    abstract::Pseudomonas aeruginosa is a priority pathogen for the development of new antibiotics, particularly because multi-drug-resistant strains of this bacterium cause serious nosocomial infections and are the leading cause of death in cystic fibrosis patients. Pyocins, bacteriocins of P. aeruginosa, are potent and diverse pr...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2020.04.020

    authors: Atanaskovic I,Mosbahi K,Sharp C,Housden NG,Kaminska R,Walker D,Kleanthous C

    更新日期:2020-06-12 00:00:00

  • Crystallization and preliminary crystallographic analysis of a DNA (cytosine-5)-methyltransferase from Haemophilus aegyptius bound covalently to DNA.

    abstract::A DNA (cytosine)-5-methyltransferase from Haemophilus aegyptius (M.Hae III), which catalyzes methyl transfer from S-adenosyl-L-methionine to DNA, has been crystallized as a covalent complex with a suicide oligonucleotide substrate. Crystals of the co-complex were grown by vapor diffusion with hanging droplets, using p...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1319

    authors: Reinisch KM,Chen L,Verdine GL,Lipscomb WN

    更新日期:1994-05-13 00:00:00

  • Extending the accuracy limits of prediction for side-chain conformations.

    abstract::Current techniques for the prediction of side-chain conformations on a fixed backbone have an accuracy limit of about 1.0-1.5 A rmsd for core residues. We have carried out a detailed and systematic analysis of the factors that influence the prediction of side-chain conformation and, on this basis, have succeeded in ex...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4865

    authors: Xiang Z,Honig B

    更新日期:2001-08-10 00:00:00

  • Dimer form of phosphorylated Spo0A, a transcriptional regulator, stimulates the spo0F transcription at the initiation of sporulation in Bacillus subtilis.

    abstract::The Spo0A protein of Bacillus subtilis is a transcriptional regulator that shows extensive homology to the regulator proteins in bacterial two-component regulatory systems. Phosphorylation of Spo0A is absolutely necessary for the initiation of sporulation. We now show that phospho-Spo0A is a dimer, binds specifically ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0354

    authors: Asayama M,Yamamoto A,Kobayashi Y

    更新日期:1995-06-30 00:00:00

  • The protein synthesis inhibitors, oxazolidinones and chloramphenicol, cause extensive translational inaccuracy in vivo.

    abstract::The oxazolidinone family is a new class of synthetic antibiotics that bind to the bacterial 50S ribosomal subunit. Two members of the family, linezolid and XA043, were examined for their effects on translational fidelity using a lacZ reporter gene in vivo. Both promoted highly significant frameshifting and nonsense su...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(02)00784-2

    authors: Thompson J,O'Connor M,Mills JA,Dahlberg AE

    更新日期:2002-09-13 00:00:00

  • Recent Advances and Current Trends in Nucleotide Second Messenger Signaling in Bacteria.

    abstract::The "International Symposium on Nucleotide Second Messenger Signaling in Bacteria" (September 30-October 3, 2018, Berlin), which was organized within the framework of DFG Priority Programme 1879 (www.spp1879.de), brought together 125 participants from 20 countries to discuss recent progress and future trends in this f...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.01.014

    authors: Hengge R,Häussler S,Pruteanu M,Stülke J,Tschowri N,Turgay K

    更新日期:2019-03-01 00:00:00

  • The folding energy landscape of the dimerization domain of Escherichia coli Trp repressor: a joint experimental and theoretical investigation.

    abstract::Enhanced structural insights into the folding energy landscape of the N-terminal dimerization domain of Escherichia coli tryptophan repressor, [2-66]2 TR, were obtained from a combined experimental and theoretical analysis of its equilibrium folding reaction. Previous studies have shown that the three intertwined heli...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.07.080

    authors: Simler BR,Levy Y,Onuchic JN,Matthews CR

    更新日期:2006-10-13 00:00:00

  • A 50th order reaction predicted and observed for sickle hemoglobin nucleation.

    abstract::Sickle hemoglobin polymerization exhibits a striking sensitivity to initial concentration, with characteristic reaction times that exhibit 30th power dependence on concentration. This extraordinary reaction order is encompassed by a novel double nucleation mechanism that predicts 50th power dependence of the homogeneo...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0079

    authors: Cao Z,Ferrone FA

    更新日期:1996-02-23 00:00:00

  • Isolation and characterization of mutants affecting functional domains of ColE1 RNAI.

    abstract::The control of DNA replication initiation in the plasmid ColE1 is mediated by RNAI, a 108 nucleotide plasmid-encoded RNA that is entirely complementary to the 5'-terminal region of the replication primer RNA. RNAI acts in trans to inhibit primer maturation. Previously, we constructed a plasmid in which the ColE1 RNAI ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(85)90259-1

    authors: Dooley TP,Tamm J,Polisky B

    更新日期:1985-11-05 00:00:00

  • Crystal structure of the antitoxin-toxin protein complex RelB-RelE from Methanococcus jannaschii.

    abstract::Here we present the crystal structure of the Methanococcus jannaschii RelE-RelB (RelBE) toxin-antitoxin (TA) protein complex determined by the MIRAS (multiple isomorphous replacement with anomalous signal) method. The genes encoding this TA system are located in the chromosome of this archaeon and involved in stress r...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.08.048

    authors: Francuski D,Saenger W

    更新日期:2009-11-06 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

    doi:10.1016/j.jmb.2008.10.021

    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

  • X-ray scattering study of pike olfactory nerve: elastic, thermodynamic and physiological properties of the axonal membrane.

    abstract::The effects of several agents, sugars, isotonic KCl, and a variety of drugs, on the structure of the axonal membranes of unmyelinated pike olfactory nerve have been studied by synchrotron radiation X-ray scattering experiments. The main effects of the sugars are: (i) to increase the electron density of the extra-axona...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.08.029

    authors: Luzzati V,Benoit E,Charpentier G,Vachette P

    更新日期:2004-10-08 00:00:00