Commentaries

  • Commentary:
    • B. Kalyanaraman

    Nitrated lipids: A class of cell-signaling molecules

    PNAS 2004 101:11527-11528; published ahead of print August 3, 2004, doi:10.1073/pnas.0404309101
    • See companion article on page 11577 in issue 32 of volume 101
  • Commentary:
    • Burkhard Ludewig
    • and Jon D. Laman

    The in and out of monocytes in atherosclerotic plaques: Balancing inflammation through migration

    PNAS 2004 101:11529-11530; published ahead of print August 3, 2004, doi:10.1073/pnas.0404612101
    • See companion article on page 11779 in issue 32 of volume 101

Physical Sciences

Chemistry

  • Physical Sciences - Chemistry - Biological Sciences - Biophysics:
    • Ariel Fernández,
    • Kristina Rogale,
    • Ridgway Scott,
    • and Harold A. Scheraga

    Inhibitor design by wrapping packing defects in HIV-1 proteins

    PNAS 2004 101:11640-11645; published ahead of print August 2, 2004, doi:10.1073/pnas.0404641101

Physics

  • Physical Sciences - Physics - Biological Sciences - Evolution:
    • David J. Earl
    • and Michael W. Deem

    Evolvability is a selectable trait

    PNAS 2004 101:11531-11536; published ahead of print August 2, 2004, doi:10.1073/pnas.0404656101
  • Physical Sciences - Physics:
    • David A. Stone
    • and Raymond E. Goldstein

    Tubular precipitation and redox gradients on a bubbling template

    PNAS 2004 101:11537-11541; published ahead of print July 29, 2004, doi:10.1073/pnas.0404544101

Biological Sciences

Applied Biological Sciences

  • Biological Sciences - Applied Biological Sciences:
    • Sung Bae Kim,
    • Takeaki Ozawa,
    • Shigeaki Watanabe,
    • and Yoshio Umezawa

    High-throughput sensing and noninvasive imaging of protein nuclear transport by using reconstitution of split Renilla luciferase

    PNAS 2004 101:11542-11547; published ahead of print August 2, 2004, doi:10.1073/pnas.0401722101

Biochemistry

  • Biological Sciences - Biochemistry:
    • Alexey J. Merz
    • and William T. Wickner

    Resolution of organelle docking and fusion kinetics in a cell-free assay

    PNAS 2004 101:11548-11553; published ahead of print July 30, 2004, doi:10.1073/pnas.0404583101
  • Biological Sciences - Biochemistry:
    • James L. Smith,
    • Wendy J. Freebern,
    • Irene Collins,
    • Adriana De Siervi,
    • Idalia Montano,
    • Cynthia M. Haggerty,
    • Markey C. McNutt,
    • Wayne G. Butscher,
    • Inna Dzekunova,
    • David W. Petersen,
    • Ernest Kawasaki,
    • Juanita L. Merchant,
    • and Kevin Gardner

    Kinetic profiles of p300 occupancy in vivo predict common features of promoter structure and coactivator recruitment

    PNAS 2004 101:11554-11559; published ahead of print July 30, 2004, doi:10.1073/pnas.0402156101
  • Biological Sciences - Biochemistry:
    • Mohammed A. S. Khan,
    • Hammou Oubrahim,
    • and Earl R. Stadtman

    Inhibition of apoptosis in acute promyelocytic leukemia cells leads to increases in levels of oxidized protein and LMP2 immunoproteasome

    PNAS 2004 101:11560-11565; published ahead of print July 29, 2004, doi:10.1073/pnas.0404101101
  • Biological Sciences - Biochemistry:
    • J. Kaplan
    • and W. F. DeGrado

    De novo design of catalytic proteins

    PNAS 2004 101:11566-11570; published ahead of print August 3, 2004, doi:10.1073/pnas.0404387101
  • Biological Sciences - Biochemistry:
    • Albrecht Messerschmidt,
    • Holger Niessen,
    • Dietmar Abt,
    • Oliver Einsle,
    • Bernhard Schink,
    • and Peter M. H. Kroneck

    Crystal structure of pyrogallol–phloroglucinol transhydroxylase, an Mo enzyme capable of intermolecular hydroxyl transfer between phenols

    PNAS 2004 101:11571-11576; published ahead of print July 29, 2004, doi:10.1073/pnas.0404378101
  • Biological Sciences - Biochemistry:
    • Paul R. S. Baker,
    • Francisco J. Schopfer,
    • Scott Sweeney,
    • and Bruce A. Freeman

    From the Cover: Red cell membrane and plasma linoleic acid nitration products: Synthesis, clinical identification, and quantitation

    PNAS 2004 101:11577-11582; published ahead of print July 23, 2004, doi:10.1073/pnas.0402587101
    • See commentary article on page 11527 in issue 32 of volume 101
  • Biological Sciences - Biochemistry:
    • Mohammad S. Yousef,
    • Walter A. Baase,
    • and Brian W. Matthews

    Use of sequence duplication to engineer a ligand-triggered, long-distance molecular switch in T4 lysozyme

    PNAS 2004 101:11583-11586; published ahead of print July 30, 2004, doi:10.1073/pnas.0404482101
  • Biological Sciences - Biochemistry:
    • Zhibin Wu,
    • Jerry Alexandratos,
    • Bryan Ericksen,
    • Jacek Lubkowski,
    • Robert C. Gallo,
    • and Wuyuan Lu

    Total chemical synthesis of N-myristoylated HIV-1 matrix protein p17: Structural and mechanistic implications of p17 myristoylation

    PNAS 2004 101:11587-11592; published ahead of print July 27, 2004, doi:10.1073/pnas.0404649101
  • Biological Sciences - Biochemistry:
    • F. Jeffrey Dilworth,
    • Karen J. Seaver,
    • Anna L. Fishburn,
    • Steve L. Htet,
    • and Stephen J. Tapscott

    In vitro transcription system delineates the distinct roles of the coactivators pCAF and p300 during MyoD/E47-dependent transactivation

    PNAS 2004 101:11593-11598; published ahead of print August 2, 2004, doi:10.1073/pnas.0404192101
  • Biological Sciences - Biochemistry:
    • Wenlin Shao,
    • Erika Krasnickas Keeton,
    • Donald P. McDonnell,
    • and Myles Brown

    Coactivator AIB1 links estrogen receptor transcriptional activity and stability

    PNAS 2004 101:11599-11604; published ahead of print August 2, 2004, doi:10.1073/pnas.0402997101

Biophysics

  • Biological Sciences - Biophysics:
    • Roee Amit,
    • Opher Gileadi,
    • and Joel Stavans

    Direct observation of RuvAB-catalyzed branch migration of single Holliday junctions

    PNAS 2004 101:11605-11610; published ahead of print August 3, 2004, doi:10.1073/pnas.0404332101
  • Biological Sciences - Biophysics:
    • A. Dawid,
    • V. Croquette,
    • M. Grigoriev,
    • and F. Heslot

    Single-molecule study of RuvAB-mediated Holliday-junction migration

    PNAS 2004 101:11611-11616; published ahead of print August 3, 2004, doi:10.1073/pnas.0404369101
  • Biological Sciences - Biophysics:
    • Lina Salomonsson,
    • Alex Lee,
    • Robert B. Gennis,
    • and Peter Brzezinski

    A single-amino-acid lid renders a gas-tight compartment within a membrane-bound transporter

    PNAS 2004 101:11617-11621; published ahead of print August 2, 2004, doi:10.1073/pnas.0402242101
  • Biological Sciences - Biophysics:
    • Roger S. Armen,
    • Mari L. DeMarco,
    • Darwin O. V. Alonso,
    • and Valerie Daggett

    Pauling and Corey's α-pleated sheet structure may define the prefibrillar amyloidogenic intermediate in amyloid disease

    PNAS 2004 101:11622-11627; published ahead of print July 27, 2004, doi:10.1073/pnas.0401781101
  • Biological Sciences - Biophysics:
    • Bärbel Kaufmann,
    • Alan A. Simpson,
    • and Michael G. Rossmann

    The structure of human parvovirus B19

    PNAS 2004 101:11628-11633; published ahead of print August 2, 2004, doi:10.1073/pnas.0402992101
  • Biological Sciences - Biophysics:
    • Qing-Hua Xu,
    • Brent S. Gaylord,
    • Shu Wang,
    • Guillermo C. Bazan,
    • Daniel Moses,
    • and Alan J. Heeger

    Time-resolved energy transfer in DNA sequence detection using water-soluble conjugated polymers: The role of electrostatic and hydrophobic interactions

    PNAS 2004 101:11634-11639; published ahead of print July 28, 2004, doi:10.1073/pnas.0404574101
  • Physical Sciences - Chemistry - Biological Sciences - Biophysics:
    • Ariel Fernández,
    • Kristina Rogale,
    • Ridgway Scott,
    • and Harold A. Scheraga

    Inhibitor design by wrapping packing defects in HIV-1 proteins

    PNAS 2004 101:11640-11645; published ahead of print August 2, 2004, doi:10.1073/pnas.0404641101
  • Biological Sciences - Biophysics:
    • Sang-Youn Park,
    • Bryan D. Beel,
    • Melvin I. Simon,
    • Alexandrine M. Bilwes,
    • and Brian R. Crane

    In different organisms, the mode of interaction between two signaling proteins is not necessarily conserved

    PNAS 2004 101:11646-11651; published ahead of print August 2, 2004, doi:10.1073/pnas.0401038101

Cell Biology

  • Biological Sciences - Cell Biology:
    • Jinping Ma,
    • Heide Plesken,
    • Jessica E. Treisman,
    • Irit Edelman-Novemsky,
    • and Mindong Ren

    Lightoid and Claret: A rab GTPase and its putative guanine nucleotide exchange factor in biogenesis of Drosophila eye pigment granules

    PNAS 2004 101:11652-11657; published ahead of print August 2, 2004, doi:10.1073/pnas.0401926101
  • Biological Sciences - Cell Biology:
    • Lynn K. Chang,
    • Guillermo Garcia-Cardeña,
    • Filip Farnebo,
    • Michael Fannon,
    • Emy J. Chen,
    • Catherine Butterfield,
    • Marsha A. Moses,
    • Richard C. Mulligan,
    • Judah Folkman,
    • and Arja Kaipainen

    Dose-dependent response of FGF-2 for lymphangiogenesis

    PNAS 2004 101:11658-11663; published ahead of print August 2, 2004, doi:10.1073/pnas.0404272101
  • Biological Sciences - Cell Biology:
    • Yvonne Lange,
    • Jin Ye,
    • and Theodore L. Steck

    How cholesterol homeostasis is regulated by plasma membrane cholesterol in excess of phospholipids

    PNAS 2004 101:11664-11667; published ahead of print August 2, 2004, doi:10.1073/pnas.0404766101
  • Biological Sciences - Cell Biology:
    • So Ra Kim,
    • Nathan Fishkin,
    • Jian Kong,
    • Koji Nakanishi,
    • Rando Allikmets,
    • and Janet R. Sparrow

    Rpe65 Leu450Met variant is associated with reduced levels of the retinal pigment epithelium lipofuscin fluorophores A2E and iso-A2E

    PNAS 2004 101:11668-11672; published ahead of print July 26, 2004, doi:10.1073/pnas.0403499101

Developmental Biology

  • Biological Sciences - Developmental Biology:
    • Brent Y. Hamaoka,
    • Charles E. Dann, III,
    • Brian V. Geisbrecht,
    • and Daniel J. Leahy

    Crystal structure of Caenorhabditis elegans HER-1 and characterization of the interaction between HER-1 and TRA-2A

    PNAS 2004 101:11673-11678; published ahead of print August 2, 2004, doi:10.1073/pnas.0402559101

Ecology

  • Biological Sciences - Ecology:
    • Dag Ø Hjermann,
    • Geir Ottersen,
    • and Nils Chr. Stenseth

    Competition among fishermen and fish causes the collapse of Barents Sea capelin

    PNAS 2004 101:11679-11684; published ahead of print July 30, 2004, doi:10.1073/pnas.0402904101

Environmental Sciences

  • Biological Sciences - Environmental Sciences:
    • Joachim D. Pleil,
    • Alan F. Vette,
    • Brent A. Johnson,
    • and Stephen M. Rappaport

    Air levels of carcinogenic polycyclic aromatic hydrocarbons after the World Trade Center disaster

    PNAS 2004 101:11685-11688; published ahead of print July 27, 2004, doi:10.1073/pnas.0404499101

Evolution

  • Physical Sciences - Physics - Biological Sciences - Evolution:
    • David J. Earl
    • and Michael W. Deem

    Evolvability is a selectable trait

    PNAS 2004 101:11531-11536; published ahead of print August 2, 2004, doi:10.1073/pnas.0404656101

Genetics

  • Biological Sciences - Genetics:
    • Erik G. Puffenberger,
    • Diane Hu-Lince,
    • Jennifer M. Parod,
    • David W. Craig,
    • Seth E. Dobrin,
    • Andrew R. Conway,
    • Elizabeth A. Donarum,
    • Kevin A. Strauss,
    • Travis Dunckley,
    • Javier F. Cardenas,
    • Kara R. Melmed,
    • Courtney A. Wright,
    • Winnie Liang,
    • Phillip Stafford,
    • C. Robert Flynn,
    • D. Holmes Morton,
    • and Dietrich A. Stephan

    Mapping of sudden infant death with dysgenesis of the testes syndrome (SIDDT) by a SNP genome scan and identification of TSPYL loss of function

    PNAS 2004 101:11689-11694; published ahead of print July 23, 2004, doi:10.1073/pnas.0401194101
  • Biological Sciences - Genetics:
    • Jan Rohozinski
    • and Colin E. Bishop

    The mouse juvenile spermatogonial depletion ( jsd ) phenotype is due to a mutation in the X-derived retrogene, mUtp14b

    PNAS 2004 101:11695-11700; published ahead of print August 2, 2004, doi:10.1073/pnas.0401130101
  • Biological Sciences - Genetics:
    • Chia-Lin Wei,
    • Patrick Ng,
    • Kuo Ping Chiu,
    • Chee Hong Wong,
    • Chin Chin Ang,
    • Leonard Lipovich,
    • Edison T. Liu,
    • and Yijun Ruan

    5′ Long serial analysis of gene expression (LongSAGE) and 3′ LongSAGE for transcriptome characterization and genome annotation

    PNAS 2004 101:11701-11706; published ahead of print July 22, 2004, doi:10.1073/pnas.0403514101
  • Biological Sciences - Genetics:
    • Sean Caenepeel,
    • Glen Charydczak,
    • Sucha Sudarsanam,
    • Tony Hunter,
    • and Gerard Manning

    The mouse kinome: Discovery and comparative genomics of all mouse protein kinases

    PNAS 2004 101:11707-11712; published ahead of print August 2, 2004, doi:10.1073/pnas.0306880101
  • Biological Sciences - Genetics:
    • Sungpil Yoon,
    • Chhabi K. Govind,
    • Hongfang Qiu,
    • Soon-ja Kim,
    • Jinsheng Dong,
    • and Alan G. Hinnebusch

    Recruitment of the ArgR/Mcm1p repressor is stimulated by the activator Gcn4p: A self-checking activation mechanism

    PNAS 2004 101:11713-11718; published ahead of print August 2, 2004, doi:10.1073/pnas.0404652101
  • Biological Sciences - Genetics:
    • Shaobin Zhong,
    • Arkady Khodursky,
    • Daniel E. Dykhuizen,
    • and Antony M. Dean

    Evolutionary genomics of ecological specialization

    PNAS 2004 101:11719-11724; published ahead of print August 2, 2004, doi:10.1073/pnas.0404397101
  • Biological Sciences - Genetics:
    • Mark W. Neff,
    • Kathryn R. Robertson,
    • Aaron K. Wong,
    • Noa Safra,
    • Karl W. Broman,
    • Montgomery Slatkin,
    • Katrina L. Mealey,
    • and Niels C. Pedersen

    From the Cover: Breed distribution and history of canine mdr1-1Δ , a pharmacogenetic mutation that marks the emergence of breeds from the collie lineage

    PNAS 2004 101:11725-11730; published ahead of print August 2, 2004, doi:10.1073/pnas.0402374101

Immunology

  • Biological Sciences - Immunology:
    • Elizaveta Padalko,
    • Tomokazu Ohnishi,
    • Kenji Matsushita,
    • Henry Sun,
    • Karen Fox-Talbot,
    • Clare Bao,
    • William M. Baldwin, III,
    • and Charles J. Lowenstein

    Peroxynitrite inhibition of Coxsackievirus infection by prevention of viral RNA entry

    PNAS 2004 101:11731-11736; published ahead of print July 30, 2004, doi:10.1073/pnas.0400518101
  • Biological Sciences - Immunology:
    • Mark Howarth,
    • Anthony Williams,
    • Anne B. Tolstrup,
    • and Tim Elliott

    Tapasin enhances MHC class I peptide presentation according to peptide half-life

    PNAS 2004 101:11737-11742; published ahead of print July 30, 2004, doi:10.1073/pnas.0306294101
  • Biological Sciences - Immunology:
    • Joel N. H. Stern,
    • Zsolt Illés,
    • Jayagopala Reddy,
    • Derin B. Keskin,
    • Eric Sheu,
    • Masha Fridkis-Hareli,
    • Hiroyuki Nishimura,
    • Celia F. Brosnan,
    • Laura Santambrogio,
    • Vijay K. Kuchroo,
    • and Jack L. Strominger

    Amelioration of proteolipid protein 139–151-induced encephalomyelitis in SJL mice by modified amino acid copolymers and their mechanisms

    PNAS 2004 101:11743-11748; published ahead