Yeast RNase III as a key processing enzyme in small nucleolar RNAs metabolism.

abstract：:We have examined the nuclease sensitivity of the 5' flanking region of the rabbit beta 1 globin gene in bone marrow nuclei and in supercoiled plasmids. A DNase I hypersensitive site was found about 100 base-pairs 5' to the cap site in bone marrow nuclei. S1 nuclease can introduce a specific double-strand cut in the DN...

journal_title：Journal of molecular biology

authors： Margot JB,Hardison RC

更新日期：1985-07-20 00:00:00

abstract：:Gram-negative pathogens secrete effector proteins into human cells to modulate normal cellular processes and establish a bacterial replication niche. Shigella and pathogenic Escherichia coli possess homologous effector kinases, OspG and NleH1/2, respectively. Upon translocation, OspG but not NleH binds to ubiquitin an...

journal_title：Journal of molecular biology

authors： Grishin AM,Barber KR,Gu RX,Tieleman DP,Shaw GS,Cygler M

更新日期：2018-07-06 00:00:00

abstract：:MeCP2 is a reader of the DNA methylome that occupies a large proportion of the genome due to its high abundance and the frequency of its target sites. It has been the subject of extensive study because of its link with 'MECP2-related disorders', of which Rett syndrome is the most prevalent. This review integrates evid...

journal_title：Journal of molecular biology

authors： Tillotson R,Bird A

更新日期：2019-10-17 00:00:00

abstract：:The periplasmic C-terminal domain of the Escherichia coli DsbD protein (cDsbD) has a thioredoxin fold. The two cysteine residues in the CXXC motif serve as the reductant for the disulfide bond of the N-terminal domain which can in turn act as a reductant for various periplasmic partners. The resulting disulfide bond i...

journal_title：Journal of molecular biology

authors： Mavridou DA,Stevens JM,Ferguson SJ,Redfield C

更新日期：2007-07-20 00:00:00

abstract：:The tandemly repeated sea urchin alpha-histone genes are developmentally regulated. These genes are transcribed up to the early blastula stage and permanently silenced as the embryos approach gastrulation. As previously described, expression of the alpha-H2A gene depends on the binding of the MBF-1 activator to the 5'...

journal_title：Journal of molecular biology

authors： Di Caro V,Cavalieri V,Melfi R,Spinelli G

更新日期：2007-02-02 00:00:00

abstract：:Experimental approaches for the identification of functionally important regions on the surface of a protein involve mutagenesis, in which exposed residues are replaced one after another while the change in binding to other proteins or changes in activity are recorded. However, practical considerations limit the use o...

journal_title：Journal of molecular biology

authors： Armon A,Graur D,Ben-Tal N

更新日期：2001-03-16 00:00:00

abstract：:Aggregation of Cu, Zn superoxide dismutase (SOD1) is often found in amyotrophic lateral sclerosis patients. The fibrillar aggregates formed by wild type and various disease-associated mutants have recently been found to have distinct cores and morphologies. Previous computational and experimental studies of wild-type ...

journal_title：Journal of molecular biology

authors： Ding F,Furukawa Y,Nukina N,Dokholyan NV

更新日期：2012-08-24 00:00:00

abstract：:We present evidence that the transcription termination factor Rho is autogenously regulated in Escherichia coli. The steady-state level of Rho is increased approximately tenfold in rho mutant cells. In the rho+ revertants, the content of Rho is similar to the wild-type level. A rho-/rho+ merodiploid produces equimolar...

journal_title：Journal of molecular biology

authors： Barik S,Bhattacharya P,Das A

更新日期：1985-04-20 00:00:00

abstract：:Many point mutations in human Cu,Zn superoxide dismutase (SOD) cause familial amyotrophic lateral sclerosis (FALS), a fatal neurodegenerative disorder in heterozygotes. Here we show that these mutations cluster in protein regions influencing architectural integrity. Furthermore, crystal structures of SOD wild-type and...

journal_title：Journal of molecular biology

authors： DiDonato M,Craig L,Huff ME,Thayer MM,Cardoso RM,Kassmann CJ,Lo TP,Bruns CK,Powers ET,Kelly JW,Getzoff ED,Tainer JA

更新日期：2003-09-19 00:00:00

abstract：:Cytosolic heat shock protein 90 (Hsp90) has been shown to be essential for many infectious pathogens and is considered a potential target for drug development. In this study, we have carried out biochemical characterization of Hsp90 from a poorly studied protozoan parasite of clinical importance, Entamoeba histolytica...

journal_title：Journal of molecular biology

authors： Singh M,Shah V,Tatu U

更新日期：2014-04-17 00:00:00

abstract：:Most loss-of-function diseases are caused by aberrant folding of important proteins. These proteins often misfold due to mutations. The disease marble brain syndrome (MBS), known also as carbonic anhydrase II deficiency syndrome (CADS), can manifest in carriers of point mutations in the human carbonic anhydrase II (HC...

journal_title：Journal of molecular biology

authors： Almstedt K,Lundqvist M,Carlsson J,Karlsson M,Persson B,Jonsson BH,Carlsson U,Hammarström P

更新日期：2004-09-10 00:00:00

abstract：:Historically referred to as "the GTPase center", the L11 binding region (L11BR) of Escherichia coli 23 S rRNA is a highly conserved structure that has been implicated in several essential functions during protein synthesis. Here, in vivo expression of an RNA fragment containing that structure was found to affect trans...

journal_title：Journal of molecular biology

authors： Van Dyke N,Xu W,Murgola EJ

更新日期：2002-05-31 00:00:00

abstract：:The binding of tryptophan repressor (TrpR) to its operators was examined quantitatively using in vitro and in vivo methods. DNA sequence requirements for 1:1 and tandem 2:1 (TrpR:DNA) binding in various sequence contexts were studied. The results indicate that the optimal half-site sequence for recognition by one heli...

journal_title：Journal of molecular biology

authors： Yang J,Gunasekera A,Lavoie TA,Jin L,Lewis DE,Carey J

更新日期：1996-04-26 00:00:00

abstract：:The Fv fragment from an anti-dansyl antibody was optimally crystallized into two crystal forms having slightly different lattice dimensions at pH 5.25 and 6.75. The two crystal structures were determined and refined at high resolution at 112 K (at 1.45 A for the crystal at pH 5.25 and at 1.55 A for that at pH 6.75). I...

journal_title：Journal of molecular biology

authors： Nakasako M,Takahashi H,Shimba N,Shimada I,Arata Y

更新日期：1999-08-06 00:00:00

abstract：:The recombination-activating protein, RAG1, a key component of the V(D)J recombinase, binds multiple Zn(2+) ions in its catalytically required core region. However, the role of zinc in the DNA cleavage activity of RAG1 is not well resolved. To address this issue, we determined the stoichiometry of Zn(2+) ions bound to...

journal_title：Journal of molecular biology

authors： Gwyn LM,Peak MM,De P,Rahman NS,Rodgers KK

更新日期：2009-07-31 00:00:00

abstract：:Recently, a number of methods have been proposed that are designed to extract contributions to the change in free energy associated with a given perturbation or mutation of a protein originating from specific residue-residue or atom-atom interactions, both based on theoretical calculations and on experimental data. We...

journal_title：Journal of molecular biology

authors： Mark AE,van Gunsteren WF

更新日期：1994-07-08 00:00:00

abstract：:The termination signal that limits transcription through the early region of bacteriophage T3 (T3Te) has been cloned and sequenced. The nucleotide sequence of T3Te is identical with that of T7Te, with the exception of a single G to U substitution in the 3' tail of the terminated transcript, and addition of an AC to th...

journal_title：Journal of molecular biology

authors： Briat JF,Bollag G,Kearney CA,Molineux I,Chamberlin MJ

更新日期：1987-11-05 00:00:00

abstract：:Using synthetic oligonucleotides, we have constructed a collection of Escherichia coli amber suppressor tRNA genes. In order to determine their specificities, these tRNAs were each used to suppress an amber (UAG) nonsense mutation in the E. coli dihydrofolate reductase gene fol. The mutant proteins were purified and s...

journal_title：Journal of molecular biology

authors： Normanly J,Kleina LG,Masson JM,Abelson J,Miller JH

更新日期：1990-06-20 00:00:00

abstract：:We have measured the solubility, and the rates of homogeneous and heterogeneous nucleation on sickle hemoglobin (HbS beta 6 Glu-->Val) additionally modified by site-directed mutagenesis to possess Ala rather than Leu at beta 88, which forms part of the receptor site for beta 6 Val in the sickle polymer. The solubility...

journal_title：Journal of molecular biology

authors： Cao Z,Liao D,Mirchev R,Martin de Llano JJ,Himanen JP,Manning JM,Ferrone FA

更新日期：1997-02-07 00:00:00

abstract：:The movement of the bacterial insertion sequence IS1 often generates cointegrate structures in which donor and target replicons are connected by direct repeats of IS1. The experiments reported here were designed to understand how IS1 transposition is controlled. Our physical characterization of the structures of coint...

journal_title：Journal of molecular biology

authors： Biel SW,Adelt G,Berg DE

更新日期：1984-04-05 00:00:00

abstract：:Here, we have investigated the specificity of purified recombinant tRNA:m(2)(2)G10 methyltransferase of Pyrococcus abyssi ((Pab)Trm-m(2)(2)G10 enzyme). This archaeal enzyme catalyses mono- and dimethylation of the N(2)-exocyclic amino group of guanine at position 10 of several tRNA species. Our results indicate that o...

journal_title：Journal of molecular biology

authors： Urbonavicius J,Armengaud J,Grosjean H

更新日期：2006-03-24 00:00:00

abstract：:The molten globule has been assumed to be a major intermediate state of protein folding. To extend our understanding of protein folding it is important to elucidate the thermodynamic mechanism of conformational stability of the molten globule. To clarify the role of electrostatic charge repulsion in the stability of t...

journal_title：Journal of molecular biology

authors： Goto Y,Nishikiori S

更新日期：1991-12-05 00:00:00

abstract：:The three-dimensional structure of 2H1, a protective monoclonal antibody to Cryptococcus neoformans, has been solved at 2.4 A resolution, in both its unbound form and in complex with the 12 amino acid residue peptide PA1 (GLQYTPSWMLVG). PA1 was previously identified as a potential mimotope of the cryptococcal capsular...

journal_title：Journal of molecular biology

authors： Young AC,Valadon P,Casadevall A,Scharff MD,Sacchettini JC

更新日期：1997-12-12 00:00:00

abstract：:Most bacteria possess two type IIA topoisomerases, DNA gyrase and topo IV, that together help manage chromosome integrity and topology. Gyrase primarily introduces negative supercoils into DNA, an activity mediated by the C-terminal domain of its DNA binding subunit (GyrA). Although closely related to gyrase, topo IV ...

journal_title：Journal of molecular biology

authors： Corbett KD,Schoeffler AJ,Thomsen ND,Berger JM

更新日期：2005-08-19 00:00:00

abstract：:Unlike most viral assembly systems, two scaffolding proteins, B and D, mediate bacteriophage øX174 morphogenesis. The external scaffolding protein D is highly ordered in the atomic structure and proper function is very sensitive to mutation. In contrast, the internal scaffolding protein B is relatively unordered and e...

journal_title：Journal of molecular biology

authors： Chen M,Uchiyama A,Fane BA

更新日期：2007-10-19 00:00:00

abstract：:The 69 nucleotide left-terminal domain (T(L)) of the potato spindle tuber RNA viroid (PSTVd) constitutes one of its five structural elements. Due to a twofold complementary sequence repeat, two possible conformations are proposed for the T(L) secondary structure; an elongated-rod and a bifurcated form. In the present ...

journal_title：Journal of molecular biology

authors： Dingley AJ,Steger G,Esters B,Riesner D,Grzesiek S

更新日期：2003-12-05 00:00:00

abstract：:By binding to the DNA site OE at position -60.5 in the gal operon, the GalR protein activates transcription from the P2 promoter located on the opposite face of DNA (position -5) and represses transcription from the P1 promoter located on the same face (position +1). GalR increases RNA polymerase binding at P2 and inh...

journal_title：Journal of molecular biology

authors： Choy HE,Hanger RR,Aki T,Mahoney M,Murakami K,Ishihama A,Adhya S

更新日期：1997-09-26 00:00:00

abstract：:The exceptional versatility of calmodulin (CaM) three-dimensional arrangement is reflected in the growing number of structural models of CaM/protein complexes currently available in the Protein Data Bank (PDB) database, revealing a great diversity of conformations, domain organization, and structural responses to Ca(2...

journal_title：Journal of molecular biology

authors： Villarroel A,Taglialatela M,Bernardo-Seisdedos G,Alaimo A,Agirre J,Alberdi A,Gomis-Perez C,Soldovieri MV,Ambrosino P,Malo C,Areso P

更新日期：2014-07-29 00:00:00

abstract：:We describe here the error specificity of mammalian DNA polymerase eta (pol eta), an enzyme that performs translesion DNA synthesis and may participate in somatic hypermutation of immunoglobulin genes. Both mouse and human pol eta lack intrinsic proofreading exonuclease activity and both copy undamaged DNA inaccuratel...

journal_title：Journal of molecular biology

authors： Matsuda T,Bebenek K,Masutani C,Rogozin IB,Hanaoka F,Kunkel TA

更新日期：2001-09-14 00:00:00

abstract：:The GTPase Center (GAC) RNA domain in bacterial 23S rRNA is directly bound by ribosomal protein L11, and this complex is essential to ribosome function. Previous cocrystal structures of the 58-nucleotide GAC RNA bound to L11 revealed the intricate tertiary fold of the RNA domain, with one monovalent and several divale...

journal_title：Journal of molecular biology

authors： Welty R,Rau M,Pabit S,Dunstan MS,Conn GL,Pollack L,Hall KB

更新日期：2020-02-14 00:00:00