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1,248 Newest Publications in proceedings of the national academy of sciences current issue

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An alternative polyadenylation mechanism coopted to the Arabidopsis RPP7 gene through intronic retrotransposon domestication [Plant Biology]

10-09-2013 | Tokuji Tsuchiya; Thomas Eulgem, Proceedings of the National Academy of Sciences current issue, 2013

Transposable elements (TEs) can drive evolution by creating genetic and epigenetic variation. Although examples of adaptive TE insertions are accumulating, proof that epigenetic information carried by such “domesticated” TEs has been coopted to control host gene function is still limited. We show ...

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Lessons from application of the UNRES force field to predictions of structures of CASP10 targets [Biophysics and Computational Biology]

10-09-2013 | Yi He; Magdalena A. Mozolewska; Paweł Krupa; Adam K. Sieradzan; Tomasz K. Wirecki; Adam Liwo; Khatuna Kachlishvili; ..., Proceedings of the National Academy of Sciences current issue, 2013

The performance of the physics-based protocol, whose main component is the United Residue (UNRES) physics-based coarse-grained force field, developed in our laboratory for the prediction of protein structure from amino acid sequence, is illustrated. Candidate models are selected, based on ...

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Structure of the transition state for the binding of c-Myb and KIX highlights an unexpected order for a disordered system [Biophysics and Computational Biology]

10-09-2013 | Rajanish Giri; Angela Morrone; Angelo Toto; Maurizio Brunori; Stefano Gianni, Proceedings of the National Academy of Sciences current issue, 2013

A classical dogma of molecular biology dictates that the 3D structure of a protein is necessary for its function. However, a considerable fraction of the human proteome, although functional, does not adopt a defined folded state under physiological conditions. These intrinsically disordered ...

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Anion translocation through an Slc26 transporter mediates lumen expansion during tubulogenesis [Developmental Biology]

10-09-2013 | Wei Deng; Florian Nies; Anja Feuer; Ivana Bočina; Dominik Oliver; Di Jiang, Proceedings of the National Academy of Sciences current issue, 2013

Lumen formation is a critical event in biological tube formation, yet its molecular mechanisms remain poorly understood. Specifically, how lumen expansion is coordinated with other processes of tubulogenesis is not well known, and the role of membrane transporters in tubulogenesis during ...

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Correction for Gushchin et al., Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria [Correction]

03-09-2013 | Proceedings of the National Academy of Sciences current issue, 2013

BIOPHYSICS AND COMPUTATIONAL BIOLOGY Correction for “Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria,” by Ivan Gushchin, Pavel Chervakov, Pavel Kuzmichev, Alexander N. Popov, Ekaterina Round, Valentin Borshchevskiy, Andrii Ishchenko, Lada ...

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The growth speed of microtubules with XMAP215-coated beads coupled to their ends is increased by tensile force [Biophysics and Computational Biology]

03-09-2013 | Anastasiya Trushko; Erik Schäffer; Jonathon Howard, Proceedings of the National Academy of Sciences current issue, 2013

The generation of pulling and pushing forces is one of the important functions of microtubules, which are dynamic and polarized structures. The ends of dynamic microtubules are able to form relatively stable links to cellular structures, so that when a microtubule grows it can exert a pushing ...

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Consequences of domain insertion on sequence-structure divergence in a superfold [Biophysics and Computational Biology]

03-09-2013 | Chetanya Pandya; Shoshana Brown; Ursula Pieper; Andrej Sali; Debra Dunaway-Mariano; Patricia C. Babbitt; Yu Xia; Kar ..., Proceedings of the National Academy of Sciences current issue, 2013

Although the universe of protein structures is vast, these innumerable structures can be categorized into a finite number of folds. New functions commonly evolve by elaboration of existing scaffolds, for example, via domain insertions. Thus, understanding structural diversity of a protein fold ...

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Alteration of genic 5-hydroxymethylcytosine patterning in olfactory neurons correlates with changes in gene expression and cell identity [Developmental Biology]

03-09-2013 | Bradley M. Colquitt; William E. Allen; Gilad Barnea; Stavros Lomvardas, Proceedings of the National Academy of Sciences current issue, 2013

The modified DNA base 5-hydroxymethylcytosine (5hmC) is enriched in neurons where it may contribute to gene regulation and cellular identity. To determine how 5hmC influences gene expression in an in vivo neuronal population, we assessed the patterning and function of the base along the ...

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Torso-like functions independently of Torso to regulate Drosophila growth and developmental timing [Developmental Biology]

03-09-2013 | Travis K. Johnson; Tova Crossman; Karyn A. Foote; Michelle A. Henstridge; Melissa J. Saligari; Lauren Forbes Beadle; ..., Proceedings of the National Academy of Sciences current issue, 2013

Activation of the Drosophila receptor tyrosine kinase Torso (Tor) only at the termini of the embryo is achieved by the localized expression of the maternal gene Torso-like (Tsl). Tor has a second function in the prothoracic gland as the receptor for prothoracicotropic hormone (PTTH) that ...

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Two-state dynamics of the SH3-SH2 tandem of Abl kinase and the allosteric role of the N-cap [Biophysics and Computational Biology]

03-09-2013 | Carles Corbi-Verge; Fabrizio Marinelli; Ana Zafra-Ruano; Javier Ruiz-Sanz; Irene Luque; José D. Faraldo-Gómez, Proceedings of the National Academy of Sciences current issue, 2013

The regulation and localization of signaling enzymes is often mediated by accessory modular domains, which frequently function in tandems. The ability of these tandems to adopt multiple conformations is as important for proper regulation as the individual domain specificity. A paradigmatic ...

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