Table of Contents

Biological Sciences

• Applied Biological Sciences

  • Open Access

    Evolution of new nonantibody proteins via iterative somatic hypermutation

    Lei Wang, W. Coyt Jackson, Paul A. Steinbach, and Roger Y. Tsien

    PNAS November 30, 2004 101 (48) 16745-16749; https://doi.org/10.1073/pnas.0407752101

• Biochemistry

  • Open Access

    Structural analysis of the inactive state of the Escherichia coli DNA polymerase clamp-loader complex

    Steven L. Kazmirski, Marjetka Podobnik, Tanya F. Weitze, Mike O'Donnell, and John Kuriyan

    PNAS November 30, 2004 101 (48) 16750-16755; https://doi.org/10.1073/pnas.0407904101
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    Evidence that translocation of anthrax toxin's lethal factor is initiated by entry of its N terminus into the protective antigen channel

    Sen Zhang, Alan Finkelstein, and R. John Collier

    PNAS November 30, 2004 101 (48) 16756-16761; https://doi.org/10.1073/pnas.0405754101
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    The human Rad9–Rad1–Hus1 checkpoint complex stimulates flap endonuclease 1

    Wensheng Wang, Patrick Brandt, Marie L. Rossi, Laura Lindsey-Boltz, Vladimir Podust, Ellen Fanning, Aziz Sancar, and Robert A. Bambara

    PNAS November 30, 2004 101 (48) 16762-16767; https://doi.org/10.1073/pnas.0407686101
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    Inhibition of vascular endothelial growth factor with a sequence-specific hypoxia response element antagonist

    Bogdan Z. Olenyuk, Guo-Jun Zhang, Jeffery M. Klco, Nicholas G. Nickols, William G. Kaelin Jr., and Peter B. Dervan

    PNAS November 30, 2004 101 (48) 16768-16773; https://doi.org/10.1073/pnas.0407617101
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    On the mechanism and biology of cytochrome oxidase inhibition by nitric oxide

    Fernando Antunes, Alberto Boveris, and Enrique Cadenas

    PNAS November 30, 2004 101 (48) 16774-16779; https://doi.org/10.1073/pnas.0405368101

• Biophysics

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    Prediction of the structural motifs of sandwich proteins

    A. S. Fokas, I. M. Gelfand, and A. E. Kister

    PNAS November 30, 2004 101 (48) 16780-16783; https://doi.org/10.1073/pnas.0407570101
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    Running on water: Three-dimensional force generation by basilisk lizards

    S. Tonia Hsieh and George V. Lauder

    PNAS November 30, 2004 101 (48) 16784-16788; https://doi.org/10.1073/pnas.0405736101
  • Open Access

    Halogen bonds in biological molecules

    Pascal Auffinger, Franklin A. Hays, Eric Westhof, and P. Shing Ho

    PNAS November 30, 2004 101 (48) 16789-16794; https://doi.org/10.1073/pnas.0407607101

• Cell Biology

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    Defective lysosomal exocytosis and plasma membrane repair in Chediak–Higashi/beige cells

    • From the Cover

    Chau Huynh, Doris Roth, Diane M. Ward, Jerry Kaplan, and Norma W. Andrews

    PNAS November 30, 2004 101 (48) 16795-16800; https://doi.org/10.1073/pnas.0405905101
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    Reversible transdifferentiation of secretory epithelial cells into adipocytes in the mammary gland

    Manrico Morroni, Antonio Giordano, Maria Cristina Zingaretti, Romina Boiani, Rita De Matteis, Barbara B. Kahn, Enzo Nisoli, Cristina Tonello, Catalina Pisoschi, Michele M. Luchetti, Mariella Marelli, and Saverio Cinti

    PNAS November 30, 2004 101 (48) 16801-16806; https://doi.org/10.1073/pnas.0407647101
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    Sarcolipin retention in the endoplasmic reticulum depends on its C-terminal RSYQY sequence and its interaction with sarco(endo)plasmic Ca²+-ATPases

    Anthony O. Gramolini, Thomas Kislinger, Michio Asahi, Wenping Li, Andrew Emili, and David H. MacLennan

    PNAS November 30, 2004 101 (48) 16807-16812; https://doi.org/10.1073/pnas.0407815101
  • Open Access

    Bv8 and endocrine gland-derived vascular endothelial growth factor stimulate hematopoiesis and hematopoietic cell mobilization

    Jennifer LeCouter, Constance Zlot, Max Tejada, Franklin Peale, and Napoleone Ferrara

    PNAS November 30, 2004 101 (48) 16813-16818; https://doi.org/10.1073/pnas.0407697101

• Evolution

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    Recurrent evolution of herbivory in small, cold-climate lizards: Breaking the ecophysiological rules of reptilian herbivory

    • From the Cover

    Robert E. Espinoza, John J. Wiens, and C. Richard Tracy

    PNAS November 30, 2004 101 (48) 16819-16824; https://doi.org/10.1073/pnas.0401226101

    See companion article:

    • Shifting paradigms: Herbivory and body size in lizards

      - Nov 30, 2004
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    Coding sequences of functioning human genes derived entirely from mobile element sequences

    Roy J. Britten

    PNAS November 30, 2004 101 (48) 16825-16830; https://doi.org/10.1073/pnas.0406985101

• Genetics

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    dsu functions in a MYO5A-independent pathway to suppress the coat color of dilute mice

    T. Norene O'Sullivan, Xufeng S. Wu, Rivka A. Rachel, Jiang-Dong Huang, Deborah A. Swing, Lydia E. Matesic, John A. Hammer III, Neal G. Copeland, and Nancy A. Jenkins

    PNAS November 30, 2004 101 (48) 16831-16836; https://doi.org/10.1073/pnas.0407339101
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    Discovery of functional noncoding elements by digital analysis of chromatin structure

    Peter J. Sabo, Michael Hawrylycz, James C. Wallace, Richard Humbert, Man Yu, Anthony Shafer, Janelle Kawamoto, Robert Hall, Joshua Mack, Michael O. Dorschner, Michael McArthur, and John A. Stamatoyannopoulos

    PNAS November 30, 2004 101 (48) 16837-16842; https://doi.org/10.1073/pnas.0407387101
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    Changes in genomewide occupancy of core transcriptional regulators during heat stress

    Sara J. Zanton and B. Franklin Pugh

    PNAS November 30, 2004 101 (48) 16843-16848; https://doi.org/10.1073/pnas.0404988101
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    A gene encoding a putative FAD-dependent l-2-hydroxyglutarate dehydrogenase is mutated in l-2-hydroxyglutaric aciduria

    Rim Rzem, Maria Veiga-da-Cunha, Gaëtane Noël, Sophie Goffette, Marie-Cécile Nassogne, Brahim Tabarki, Christina Schöller, Thorsten Marquardt, Miikka Vikkula, and Emile Van Schaftingen

    PNAS November 30, 2004 101 (48) 16849-16854; https://doi.org/10.1073/pnas.0404840101
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    GC/AT-content spikes as genomic punctuation marks

    Lingang Zhang, Simon Kasif, Charles R. Cantor, and Natalia E. Broude

    PNAS November 30, 2004 101 (48) 16855-16860; https://doi.org/10.1073/pnas.0407821101
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    Differentiation-induced replication-timing changes are restricted to AT-rich/long interspersed nuclear element (LINE)-rich isochores

    Ichiro Hiratani, Amanda Leskovar, and David M. Gilbert

    PNAS November 30, 2004 101 (48) 16861-16866; https://doi.org/10.1073/pnas.0406687101

• Immunology

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    Solution structure of the CD3εδ ectodomain and comparison with CD3εγ as a basis for modeling T cell receptor topology and signaling

    Zhen-Yu J. Sun, Sun Taek Kim, Il Chul Kim, Amr Fahmy, Ellis L. Reinherz, and Gerhard Wagner

    PNAS November 30, 2004 101 (48) 16867-16872; https://doi.org/10.1073/pnas.0407576101
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    Human and murine inhibitory natural killer cell receptors transfer from natural killer cells to target cells

    Bruno Vanherberghen, Katja Andersson, Leo M. Carlin, Esther N. M. Nolte-`t Hoen, Geoffrey S. Williams, Petter Höglund, and Daniel M. Davis

    PNAS November 30, 2004 101 (48) 16873-16878; https://doi.org/10.1073/pnas.0406240101
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    Activation of the complement system generates antibacterial peptides

    Emma Andersson Nordahl, Victoria Rydengård, Patrik Nyberg, D. Patric Nitsche, Matthias Mörgelin, Martin Malmsten, Lars Björck, and Artur Schmidtchen

    PNAS November 30, 2004 101 (48) 16879-16884; https://doi.org/10.1073/pnas.0406678101
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    The molecular program induced in T cells undergoing homeostatic proliferation

    Ananda W. Goldrath, C. John Luckey, Richard Park, Christophe Benoist, and Diane Mathis

    PNAS November 30, 2004 101 (48) 16885-16890; https://doi.org/10.1073/pnas.0407417101

• Medical Sciences

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    Transplanted human bone marrow contributes to vascular endothelium

    Shuguang Jiang, Luke Walker, Michael Afentoulis, Daniel A. Anderson, Linda Jauron-Mills, Christopher L. Corless, and William H. Fleming

    PNAS November 30, 2004 101 (48) 16891-16896; https://doi.org/10.1073/pnas.0404398101
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    SMAC/Diablo-dependent apoptosis induced by nonsteroidal antiinflammatory drugs (NSAIDs) in colon cancer cells

    Manu Kohli, Jian Yu, Craig Seaman, Alberto Bardelli, Kenneth W. Kinzler, Bert Vogelstein, Christoph Lengauer, and Lin Zhang

    PNAS November 30, 2004 101 (48) 16897-16902; https://doi.org/10.1073/pnas.0403405101
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    Correction of kinetic and stability defects by tetrahydrobiopterin in phenylketonuria patients with certain phenylalanine hydroxylase mutations

    • From the Cover

    Heidi Erlandsen, Angel L. Pey, Alejandra Gámez, Belén Pérez, Lourdes R. Desviat, Cristina Aguado, Richard Koch, Sankar Surendran, Stephen Tyring, Reuben Matalon, Charles R. Scriver, Magdalena Ugarte, Aurora Martínez, and Raymond C. Stevens

    PNAS November 30, 2004 101 (48) 16903-16908; https://doi.org/10.1073/pnas.0407256101
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    Bioluminescent imaging of a marking transgene and correction of Fabry mice by neonatal injection of recombinant lentiviral vectors

    Makoto Yoshimitsu, Takeya Sato, Kesheng Tao, Jagdeep S. Walia, Vanessa I. Rasaiah, Gillian T. Sleep, Gary J. Murray, Armando G. Poeppl, John Underwood, Lori West, Roscoe O. Brady, and Jeffrey A. Medin

    PNAS November 30, 2004 101 (48) 16909-16914; https://doi.org/10.1073/pnas.0407572101
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    Dynamical resonance can account for seasonality of influenza epidemics

    Jonathan Dushoff, Joshua B. Plotkin, Simon A. Levin, and David J. D. Earn

    PNAS November 30, 2004 101 (48) 16915-16916; https://doi.org/10.1073/pnas.0407293101

• Microbiology

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    Interspecies communication in Streptococcus gordonii–Veillonella atypica biofilms: Signaling in flow conditions requires juxtaposition

    Paul G. Egland, Robert J. Palmer Jr., and Paul E. Kolenbrander

    PNAS November 30, 2004 101 (48) 16917-16922; https://doi.org/10.1073/pnas.0407457101
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    Metastability of Helicobacter pylori bab adhesin genes and dynamics in Lewis b antigen binding

    • From the Cover

    Anna Bäckström, Carina Lundberg, Dangeruta Kersulyte, Douglas E. Berg, Thomas Borén, and Anna Arnqvist

    PNAS November 30, 2004 101 (48) 16923-16928; https://doi.org/10.1073/pnas.0404817101
  • Open Access

    Anaerobic growth of Methanosarcina acetivorans C2A on carbon monoxide: An unusual way of life for a methanogenic archaeon

    Michael Rother and William W. Metcalf

    PNAS November 30, 2004 101 (48) 16929-16934; https://doi.org/10.1073/pnas.0407486101

    See companion article:

    • An unconventional pathway for reduction of CO₂ to methane in CO-grown Methanosarcina acetivorans revealed by proteomics

      - Nov 21, 2006

• Neuroscience

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    Experimental test of the birdsong error-correction model

    Anthony Leonardo

    PNAS November 30, 2004 101 (48) 16935-16940; https://doi.org/10.1073/pnas.0407870101
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    The organization of orientation and spatial frequency in primary visual cortex

    Lawrence Sirovich and Robert Uglesich

    PNAS November 30, 2004 101 (48) 16941-16946; https://doi.org/10.1073/pnas.0407450101
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    Perceptual deficits in patients with impaired recognition of biological motion after temporal lobe lesions

    Lucia M. Vaina and Charles G. Gross

    PNAS November 30, 2004 101 (48) 16947-16951; https://doi.org/10.1073/pnas.0407668101
  • Open Access

    Ca²⁺ activity at GABA_B receptors constitutively promotes metabotropic glutamate signaling in the absence of GABA

    Toshihide Tabata, Kenji Araishi, Kouichi Hashimoto, Yuki Hashimotodani, Herman van der Putten, Bernhard Bettler, and Masanobu Kano

    PNAS November 30, 2004 101 (48) 16952-16957; https://doi.org/10.1073/pnas.0405387101

• Pharmacology

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    Differential nitros(yl)ation of blood and tissue constituents during glyceryl trinitrate biotransformation in vivo

    David R. Janero, Nathan S. Bryan, Fumito Saijo, Vijay Dhawan, David J. Schwalb, Michael C. Warren, and Martin Feelisch

    PNAS November 30, 2004 101 (48) 16958-16963; https://doi.org/10.1073/pnas.0406075101
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    Function recovery after chemobleaching (FRAC): Evidence for activity silent membrane receptors on cell surface

    Haiyan Sun, Sojin Shikano, Qiaojie Xiong, and Min Li

    PNAS November 30, 2004 101 (48) 16964-16969; https://doi.org/10.1073/pnas.0404178101

• Physiology

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    Coping with cold: An integrative, multitissue analysis of the transcriptome of a poikilothermic vertebrate

    Andrew Y. Gracey, E. Jane Fraser, Weizhong Li, Yongxiang Fang, Ruth R. Taylor, Jane Rogers, Andrew Brass, and Andrew R. Cossins

    PNAS November 30, 2004 101 (48) 16970-16975; https://doi.org/10.1073/pnas.0403627101

• Plant Biology

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    A highly specific l-galactose-1-phosphate phosphatase on the path to ascorbate biosynthesis

    William A. Laing, Sean Bulley, Michele Wright, Janine Cooney, Dwayne Jensen, Di Barraclough, and Elspeth MacRae

    PNAS November 30, 2004 101 (48) 16976-16981; https://doi.org/10.1073/pnas.0407453101