| | This journal provides immediate access to some articles. Commentaries RNA polymerase II at initiation Francisco J. Asturias and John L. Craighead PMCID: PMC165798 When houseguests become parasites: Sympatric speciation in ants Stewart H. Berlocher PMCID: PMC165799 Dengue virus envelope glycoprotein structure: New insight into its interactions during viral entry Félix A. Rey PMCID: PMC165800 Making virtual screening a reality John T. Koh PMCID: PMC165801 Physical Sciences Applied Mathematics Hypergeometric generating functions for values of Dirichlet and other L functions Jeremy Lovejoy and Ken Ono PMCID: PMC165802 Chemistry Breakdown of chlorophyll: A nonenzymatic reaction accounts for the formation of the colorless “nonfluorescent” chlorophyll catabolites Michael Oberhuber, Joachim Berghold, Kathrin Breuker, Stefan Hörtensteiner, and Bernhard Kraütler PMCID: PMC165803 Seaweed resistance to microbial attack: A targeted chemical defense against marine fungi Julia Kubanek, Paul R. Jensen, Paul A. Keifer, M. Cameron Sullards, Dwight O. Collins, and William Fenical PMCID: PMC165804 Mathematics Phase transitions and symmetry breaking in singular diffusion Jochen Denzler and Robert J. McCann PMCID: PMC165805 Physics Ligand dynamics in a protein internal cavity Jan M. Kriegl, Karin Nienhaus, Pengchi Deng, Jochen Fuchs, and G. Ulrich Nienhaus PMCID: PMC165831 Biological Sciences Anthropology The shape of the Neandertal femur is primarily the consequence of a hyperpolar body form Timothy D. Weaver PMCID: PMC165806 Descent of the larynx in chimpanzee infants Takeshi Nishimura, Akichika Mikami, Juri Suzuki, and Tetsuro Matsuzawa PMCID: PMC165807 Applied Biological Sciences Crystalline monoclonal antibodies for subcutaneous delivery Mark X. Yang, Bhami Shenoy, Matthew Disttler, Reena Patel, Margaret McGrath, Sergey Pechenov, and Alexey L. Margolin PMCID: PMC165808 Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS Scott A. Gerber, John Rush, Olaf Stemman, Marc W. Kirschner, and Steven P. Gygi PMCID: PMC165809 Viral assembly of oriented quantum dot nanowires Chuanbin Mao, Christine E. Flynn, Andrew Hayhurst, Rozamond Sweeney, Jifa Qi, George Georgiou, Brent Iverson, and Angela M. Belcher PMCID: PMC165810 A global view of the selectivity of zinc deprivation and excess on genes expressed in human THP-1 mononuclear cells Robert J. Cousins, Raymond K. Blanchard, Michael P. Popp, Li Liu, Jay Cao, J. Bernadette Moore, and Calvert L. Green PMCID: PMC165811 Predicting survival in patients with metastatic kidney cancer by gene-expression profiling in the primary tumor James R. Vasselli, Joanna H. Shih, Shuba R. Iyengar, Jodi Maranchie, Joseph Riss, Robert Worrell, Carlos Torres-Cabala, Ray Tabios, Andra Mariotti, Robert Stearman, Maria Merino, McClellan M. Walther, Richard Simon, Richard D. Klausner, and W. Marston Linehan PMCID: PMC165812 Biochemistry From the Cover:
Architecture of initiation-competent 12-subunit RNA polymerase II Karim-Jean Armache, Hubert Kettenberger, and Patrick Cramer PMCID: PMC165813 From the Cover:
Complete, 12-subunit RNA polymerase II at 4.1-Å resolution: Implications for the initiation of transcription David A. Bushnell and Roger D. Kornberg PMCID: PMC165814 A role for Z-DNA binding in vaccinia virus pathogenesis Yang-Gyun Kim, Maneesha Muralinath, Teresa Brandt, Matthew Pearcy, Kevin Hauns, Ky Lowenhaupt, Bertram L. Jacobs, and Alexander Rich PMCID: PMC165815 Correlated motion and the effect of distal mutations in dihydrofolate reductase Thomas H. Rod, Jennifer L. Radkiewicz, and Charles L. Brooks, III PMCID: PMC165816 From the Cover:
A ligand-binding pocket in the dengue virus envelope glycoprotein Yorgo Modis, Steven Ogata, David Clements, and Stephen C. Harrison PMCID: PMC165817 Crystal structure of a bifunctional aldolase–dehydrogenase: Sequestering a reactive and volatile intermediate Babu A. Manjasetty, Justin Powlowski, and Alice Vrielink PMCID: PMC165818 Peripheral heme substituents control the hydrogen-atom abstraction chemistry in cytochromes P450 Victor Guallar, Mu-Hyun Baik, Stephen J. Lippard, and Richard A. Friesner PMCID: PMC165819 NMR structure of the active conformation of the Varkud satellite ribozyme cleavage site Bernd Hoffmann, G. Thomas Mitchell, Patrick Gendron, François Major, Angela A. Andersen, Richard A. Collins, and Pascale Legault PMCID: PMC165820 A major role for the TATA box in recruitment of chromatin modifying complexes to a globin gene promoter Chang-yun Gui and Ann Dean PMCID: PMC165821 3D electron microscopy reveals the variable deposition and protein dynamics of the peripheral pyruvate dehydrogenase component about the core Yingqi Gu, Z. Hong Zhou, Diane B. McCarthy, Lester J. Reed, and James K. Stoops PMCID: PMC165822 Cu/Zn superoxide dismutase mutants associated with amyotrophic lateral sclerosis show enhanced formation of aggregates in vitro P. B. Stathopulos, J. A. O. Rumfeldt, G. A. Scholz, R. A. Irani, H. E. Frey, R. A. Hallewell, J. R. Lepock, and E. M. Meiering PMCID: PMC165823 Rapid biosynthesis of N-linolenoyl-l-glutamine, an elicitor of plant volatiles, by membrane-associated enzyme(s) in Manduca sexta Cameron G. Lait, Hans T. Alborn, Peter E. A. Teal, and James H. Tumlinson, III PMCID: PMC165824 Purifying mRNAs with a high-affinity eIF4E mutant identifies the short 3′ poly(A) end phenotype Youkyung Hwang Choi and Curt H. Hagedorn PMCID: PMC165825 Biophysics Direct observation of photolysis-induced tertiary structural changes in hemoglobin Shin-ichi Adachi, Sam-Yong Park, Jeremy R. H. Tame, Yoshitsugu Shiro, and Naoya Shibayama PMCID: PMC165826 Defective importin β recognition and nuclear import of the sex-determining factor SRY are associated with XY sex-reversing mutations Vincent R. Harley, Sharon Layfield, Claire L. Mitchell, Jade K. Forwood, Anna P. John, Lyndall J. Briggs, Sharon G. McDowall, and David A. Jans PMCID: PMC165827 Toward a detailed computational model for the mammalian circadian clock Jean-Christophe Leloup and Albert Goldbeter PMCID: PMC165828 Protein structure change studied by hydrogen-deuterium exchange, functional labeling, and mass spectrometry Joan J. Englander, Charyl Del Mar, Will Li, S. Walter Englander, Jack S. Kim, David D. Stranz, Yoshitomo Hamuro, and Virgil L. Woods, Jr. PMCID: PMC165829 Liquid–vapor oscillations of water in hydrophobic nanopores Oliver Beckstein and Mark S. P. Sansom PMCID: PMC165830 Ligand dynamics in a protein internal cavity Jan M. Kriegl, Karin Nienhaus, Pengchi Deng, Jochen Fuchs, and G. Ulrich Nienhaus PMCID: PMC165831 Live tissue intrinsic emission microscopy using multiphoton-excited native fluorescence and second harmonic generation Warren R. Zipfel, Rebecca M. Williams, Richard Christie, Alexander Yu Nikitin, Bradley T. Hyman, and Watt W. Webb PMCID: PMC165832 Uniform polarity microtubule assemblies imaged in native brain tissue by second-harmonic generation microscopy Daniel A. Dombeck, Karl A. Kasischke, Harshad D. Vishwasrao, Martin Ingelsson, Bradley T. Hyman, and Watt W. Webb PMCID: PMC165833 Folding and misfolding of the papillomavirus E6 interacting peptide E6ap Bianxiao Cui, Min-Yi Shen, and Karl F. Freed PMCID: PMC165834 Cell Biology Transcriptome signature of irreversible senescence in human papillomavirus-positive cervical cancer cells Susanne I. Wells, Bruce J. Aronow, Trisha M. Wise, Sarah S. Williams, Jennifer A. Couget, and Peter M. Howley PMCID: PMC165835 The BglF sensor recruits the BglG transcription regulator to the membrane and releases it on stimulation Livnat Lopian, Anat Nussbaum-Shochat, Kathryn O'Day-Kerstein, Andrew Wright, and Orna Amster-Choder PMCID: PMC165836 The transient receptor potential channel on the yeast vacuole is mechanosensitive Xin-Liang Zhou, Ann F. Batiza, Stephen H. Loukin, Chris P. Palmer, Ching Kung, and Yoshiro Saimi PMCID: PMC165837 An autoregulatory loop controls peroxisome proliferator-activated receptor γ coactivator 1α expression in muscle Christoph Handschin, James Rhee, Jiandie Lin, Paul T. Tarr, and Bruce M. Spiegelman PMCID: PMC165838 Developmental Biology Human pancreatic precursor cells secrete FGF2 to stimulate clustering into hormone-expressing islet-like cell aggregates Anandwardhan A. Hardikar, Bernice Marcus-Samuels, Elizabeth Geras-Raaka, Bruce M. Raaka, and Marvin C. Gershengorn PMCID: PMC165839 Aberrant lamination in the cerebral cortex of mouse embryos lacking DNA topoisomerase IIβ Yi Lisa Lyu and James C. Wang PMCID: PMC165840 Myocardin is a master regulator of smooth muscle gene expression Zhigao Wang, Da-Zhi Wang, G. C. Teg Pipes, and Eric N. Olson PMCID: PMC165841 Retinoid activation of retinoic acid receptor but not retinoid X receptor is sufficient to rescue lethal defect in retinoic acid synthesis Felix A. Mic, Andrei Molotkov, Doris M. Benbrook, and Gregg Duester PMCID: PMC165842 Ecology Seaweed resistance to microbial attack: A targeted chemical defense against marine fungi Julia Kubanek, Paul R. Jensen, Paul A. Keifer, M. Cameron Sullards, Dwight O. Collins, and William Fenical PMCID: PMC165804 Variation in Ginkgo biloba L. leaf characters across a climatic gradient in China Bainian Sun, David L. Dilcher, David J. Beerling, Chengjun Zhang, Defei Yan, and Elizabeth Kowalski PMCID: PMC165843 The economic value of ecological stability Paul R. Armsworth and Joan E. Roughgarden PMCID: PMC165844 Evolution Codon bias and frequency-dependent selection on the hemagglutinin epitopes of influenza A virus Joshua B. Plotkin and Jonathan Dushoff PMCID: PMC165845 Large-scale comparison of intron positions in mammalian genes shows intron loss but no gain Scott W. Roy, Alexei Fedorov, and Walter Gilbert PMCID: PMC165846 From the Cover:
Pseudo-cryptic speciation in coccolithophores Alberto G. Sáez, Ian Probert, Markus Geisen, Patrick Quinn, Jeremy R. Young, and Linda K. Medlin PMCID: PMC165847 From the Cover:
Sympatric speciation through intraspecific social parasitism Riitta Savolainen and Kari Vepsäläinen PMCID: PMC165848 A novel social polymorphism in a primitively eusocial bee Miriam H. Richards, Eric J. von Wettberg, and Amy C. Rutgers PMCID: PMC165849 INAUGURAL ARTICLE by a Recently Elected Academy Member: Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: Enlarging genus HomoDerek E. Wildman, Monica Uddin, Guozhen Liu, Lawrence I. Grossman, and Morris Goodman PMCID: PMC165850 Genetics Previously uncharacterized roles of platelet-activating factor acetylhydrolase 1b complex in mouse spermatogenesis Wei Yan, Amir H. Assadi, Anthony Wynshaw-Boris, Gregor Eichele, Martin M. Matzuk, and Gary D. Clark PMCID: PMC165851 Allele-specific silencing of dominant disease genes Victor M. Miller, Haibin Xia, Ginger L. Marrs, Cynthia M. Gouvion, Gloria Lee, Beverly L. Davidson, and Henry L. Paulson PMCID: PMC165852 BRCA2 cooperates with histone acetyltransferases in androgen receptor-mediated transcription Sook Shin and Inder M. Verma PMCID: PMC165853 Recombineering with overlapping single-stranded DNA oligonucleotides: Testing a recombination intermediate Daiguan Yu, James A. Sawitzke, Hilary Ellis, and Donald L. Court PMCID: PMC165854 A postgenomic method for predicting essential genes at subsaturation levels of mutagenesis: Application to Mycobacterium tuberculosis Gyanu Lamichhane, Matteo Zignol, Natalie J. Blades, Deborah E. Geiman, Annette Dougherty, Jacques Grosset, Karl W. Broman, and William R. Bishai PMCID: PMC165855 UV wavelength-dependent regulation of transcription-coupled nucleotide excision repair in p53-deficient human cells Géraldine Mathonnet, Caroline Léger, Julie Desnoyers, Régen Drouin, Jean-Philippe Therrien, and Elliot A. Drobetsky PMCID: PMC165856 Efficiency of single-nucleotide polymorphism haplotype estimation from pooled DNA Yaning Yang, Jingshan Zhang, Josephine Hoh, Fumihiko Matsuda, Peng Xu, Mark Lathrop, and Jurg Ott PMCID: PMC165857 Immunology Microangiectasias: Structural regulators of lymphocyte transmigration Timothy W. Secomb, Moritz A. Konerding, Charles A. West, Mei Su, Alan J. Young, and Steven J. Mentzer PMCID: PMC165858 Protection and compensation in the influenza virus-specific CD8+ T cell response Richard J. Webby, Samita Andreansky, John Stambas, Jerold E. Rehg, Robert G. Webster, Peter C. Doherty, and Stephen J. Turner PMCID: PMC165859 Redirection of B cell responsiveness by transforming growth factor β receptor Jürgen Roes, B. Ken Choi, and Balthazar B. Cazac PMCID: PMC165860 Medical Sciences A role for LIM kinase in cancer invasion Kiyoko Yoshioka, Victoria Foletta, Ora Bernard, and Kazuyuki Itoh PMCID: PMC165861 Reversal of hyperglycemia in mice by using human expandable insulin-producing cells differentiated from fetal liver progenitor cells Michal Zalzman, Sanjeev Gupta, Ranjit K. Giri, Irina Berkovich, Baljit S. Sappal, Ohad Karnieli, Mark A. Zern, Norman Fleischer, and Shimon Efrat PMCID: PMC165862 Involvement of multiple signaling pathways in follicular lymphoma transformation: p38-mitogen-activated protein kinase as a target for therapy Kojo S. J. Elenitoba-Johnson, Stephen D. Jenson, Robert T. Abbott, Robert A. Palais, Sandra D. Bohling, Zhaosheng Lin, Sheryl Tripp, Paul J. Shami, Lai Y. Wang, Robert W. Coupland, Rena Buckstein, Bayardo Perez-Ordonez, Sherrie L. Perkins, Ian D. Dube, and Megan S. Lim PMCID: PMC165863 Monocyte chemoattractant protein 1 in obesity and insulin resistance Peter Sartipy and David J. Loskutoff PMCID: PMC165864 Hepatitis C virus glycoproteins mediate pH-dependent cell entry of pseudotyped retroviral particles Mayla Hsu, Jie Zhang, Mike Flint, Carine Logvinoff, Cecilia Cheng-Mayer, Charles M. Rice, and Jane A. McKeating PMCID: PMC165865 Primary hyperoxaluria type 1 in the Canary Islands: A conformational disease due to I244T mutation in the P11L-containing alanine:glyoxylate aminotransferase A. Santana, E. Salido, A. Torres, and L. J. Shapiro PMCID: PMC165866 Probucol prevents early coronary heart disease and death in the high-density lipoprotein receptor SR-BI/apolipoprotein E double knockout mouse Anne Braun, Songwen Zhang, Helena E. Miettinen, Shamsah Ebrahim, Teresa M. Holm, Eliza Vasile, Mark J. Post, Danita M. Yoerger, Michael H. Picard, Joshua L. Krieger, Nancy C. Andrews, Michael Simons, and Monty Krieger PMCID: PMC165867 Microbiology A single mutation in poliovirus RNA-dependent RNA polymerase confers resistance to mutagenic nucleotide analogs via increased fidelity Julie K. Pfeiffer and Karla Kirkegaard PMCID: PMC165868 Tight-adherence genes of Actinobacillus actinomycetemcomitans are required for virulence in a rat model Helen C. Schreiner, Kathy Sinatra, Jeffrey B. Kaplan, David Furgang, Scott C. Kachlany, Paul J. Planet, Brenda A. Perez, David H. Figurski, and Daniel H. Fine PMCID: PMC165869 Targeted mutation of the outer membrane protein P66 disrupts attachment of the Lyme disease agent, Borrelia burgdorferi, to integrin αvβ3 Jenifer Coburn and Carla Cugini PMCID: PMC165870 Decorin-binding proteins A and B confer distinct mammalian cell type-specific attachment by Borrelia burgdorferi, the Lyme disease spirochete Joshua R. Fischer, Nikhat Parveen, Loranne Magoun, and John M. Leong PMCID: PMC165871 Predicting gene expression levels from codon biases in α-proteobacterial genomes Samuel Karlin, Melanie J. Barnett, Allan M. Campbell, Robert F. Fisher, and Jan Mrázek PMCID: PMC165872 Neuroscience In vivo two-photon calcium imaging of neuronal networks Christoph Stosiek, Olga Garaschuk, Knut Holthoff, and Arthur Konnerth PMCID: PMC165873 Neural stem cells and cholinergic neurons: Regulation by immunolesion and treatment with mitogens, retinoic acid, and nerve growth factor Laura Calzà, Alessandro Giuliani, Mercedes Fernandez, Stefania Pirondi, Giulia D'Intino, Luigi Aloe, and Luciana Giardino PMCID: PMC165874 Transcriptional profiling of the Sonic hedgehog response: A critical role for N-myc in proliferation of neuronal precursors Trudy G. Oliver, Linda L. Grasfeder, Audra L. Carroll, Constanze Kaiser, Christine L. Gillingham, Simon M. Lin, Rasika Wickramasinghe, Matthew P. Scott, and Robert J. Wechsler-Reya PMCID: PMC165875 RGS3 mediates a calcium-dependent termination of G protein signaling in sensory neurons Patrizia Tosetti, Narendra Pathak, Michele H. Jacob, and Kathleen Dunlap PMCID: PMC165876 Behavioral performance in adult honey bees is influenced by the temperature experienced during their pupal development Jürgen Tautz, Sven Maier, Claudia Groh, Wolfgang Rössler, and Axel Brockmann PMCID: PMC165877 Decoding neuronal spike trains: How important are correlations? Sheila Nirenberg and Peter E. Latham PMCID: PMC165878 Pharmacology From the Cover:
Discovery of diverse thyroid hormone receptor antagonists by high-throughput docking Matthieu Schapira, Bruce M. Raaka, Sharmistha Das, Li Fan, Maxim Totrov, Zhiguo Zhou, Stephen R. Wilson, Ruben Abagyan, and Herbert H. Samuels PMCID: PMC165879 Physiology Glycerol replacement corrects defective skin hydration, elasticity, and barrier function in aquaporin-3-deficient mice Mariko Hara and A. S. Verkman PMCID: PMC165880 The hSK4 (KCNN4) isoform is the Ca2+-activated K+ channel (Gardos channel) in human red blood cells Joseph F. Hoffman, William Joiner, Keith Nehrke, Olga Potapova, Kristen Foye, and Amittha Wickrema PMCID: PMC165881 Pure-tone birdsong by resonance filtering of harmonic overtones Gabriël J. L. Beckers, Roderick A. Suthers, and Carel ten Cate PMCID: PMC165882 Myasthenic syndrome caused by mutation of the SCN4A sodium channel Akira Tsujino, Chantal Maertens, Kinji Ohno, Xin-Ming Shen, Taku Fukuda, C. Michael Harper, Stephen C. Cannon, and Andrew G. Engel PMCID: PMC165883 Plant Biology Breakdown of chlorophyll: A nonenzymatic reaction accounts for the formation of the colorless “nonfluorescent” chlorophyll catabolites Michael Oberhuber, Joachim Berghold, Kathrin Breuker, Stefan Hörtensteiner, and Bernhard Kraütler PMCID: PMC165803 Apparent homology of expressed genes from wood-forming tissues of loblolly pine (Pinus taeda L.) with Arabidopsis thaliana Matias Kirst, Arthur F. Johnson, Christie Baucom, Erin Ulrich, Kristy Hubbard, Rod Staggs, Charles Paule, Ernest Retzel, Ross Whetten, and Ronald Sederoff PMCID: PMC165884 A unique mechanism for protein processing and degradation in Arabidopsis thaliana Enrique Rojo, Jan Zouhar, Clay Carter, Valentina Kovaleva, and Natasha V. Raikhel PMCID: PMC165885 Crystal structure of soybean 11S globulin: Glycinin A3B4 homohexamer Motoyasu Adachi, Jiro Kanamori, Taro Masuda, Kazuhiro Yagasaki, Keisuke Kitamura, Bunzo Mikami, and Shigeru Utsumi PMCID: PMC165886 Population Biology Spatial parasite transmission, drug resistance, and the spread of rare genes S. J. Cornell, V. S. Isham, G. Smith, and B. T. Grenfell PMCID: PMC165887 Psychology Mapping the genetic variation of executive attention onto brain activity Jin Fan, John Fossella, Tobias Sommer, Yanghong Wu, and Michael I. Posner PMCID: PMC165888 Competition and representation during memory retrieval: Roles of the prefrontal cortex and the posterior parietal cortex Myeong-Ho Sohn, Adam Goode, V. Andrew Stenger, Cameron S. Carter, and John R. Anderson PMCID: PMC165889 Social Sciences Anthropology INAUGURAL ARTICLE by a Recently Elected Academy Member: Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: Enlarging genus HomoDerek E. Wildman, Monica Uddin, Guozhen Liu, Lawrence I. Grossman, and Morris Goodman PMCID: PMC165850 Corrections Proc Natl Acad Sci U S A. 2003 June 10; 100(12): 7418. doi: 10.1073/pnas.1232163100.PMCID: PMC165890 Corrects: Elizabeth Rhoades, et al. Watching proteins fold one molecule at a time. Proc Natl Acad Sci U S A. 2003 March 18; 100(6): 3197–3202. Proc Natl Acad Sci U S A. 2003 June 10; 100(12): 7418. doi: 10.1073/pnas.1332514100.PMCID: PMC165891 Corrects: Eric Hosy, et al. The Arabidopsis outward K+ channel GORK is involved in regulation of stomatal movements and plant transpiration. Proc Natl Acad Sci U S A. 2003 April 29; 100(9): 5549–5554. |
