J P Whitelegge

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc Electrospray-ionization mass spectrometry of intact intrinsic membrane proteins
    J P Whitelegge
    Center for Molecular and Medical Sciences Mass Spectrometry, Department of Chemistry and Biochemistry, University of California, Los Angeles 90095 1569, USA
    Protein Sci 7:1423-30. 1998
  2. ncbi request reprint Expression, purification, crystallization, and preliminary X-ray analysis of recombinant human saposin B
    Victoria E Ahn
    Department of Medical Biophysics, University of Toronto, 610 University Avenue, Toronto, Ont, Canada M5G 2M9
    Protein Expr Purif 27:186-93. 2003
  3. ncbi request reprint Mass spectral analysis of pig (Sus scrofa) apo HDL: Identification of pig apoA-II, a dimeric apolipoprotein
    Donald L Puppione
    The Molecular Biology Institute and The Department of Chemistry and Biochemistry, University of California at Los Angeles, Los Angeles, CA 90095, USA
    Comp Biochem Physiol B Biochem Mol Biol 141:89-94. 2005
  4. ncbi request reprint Plant peptides and peptidomics
    Naser Farrokhi
    National Institute of Genetic Engineering and Biotechnology, Pajoohesh Blvd, Tehran Karaj Highway, 17th Km, Tehran, Iran
    Plant Biotechnol J 6:105-34. 2008
  5. pmc Initiation and elongation in fibrillation of ALS-linked superoxide dismutase
    Madhuri Chattopadhyay
    Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 105:18663-8. 2008
  6. ncbi request reprint Gas-Phase Structure of the E. coli OmpA Dimer
    Julian Whitelegge
    Pasarow Mass Spectrometry Laboratory, NPI Semel Institute, David Geffen School of Medicine, UCLA, Los Angeles, CA 90095, USA Electronic address
    Structure 22:666-7. 2014
  7. pmc Phenotypic and genomic analysis of hypervirulent human-associated Bordetella bronchiseptica
    Umesh Ahuja
    Department of Microbiology, Immunology and Molecular Genetics, University of California, BSRB 254, 615 Charles E, Young Drive East, Los Angeles, CA 90095 1747, USA
    BMC Microbiol 12:167. 2012
  8. doi request reprint Intact protein mass spectrometry and top-down proteomics
    Julian Whitelegge
    The Pasarow Mass Spectrometry Laboratory, UCLA, Jane and Terry Semel Institute for Neuroscience and Human Behavior, Los Angeles, CA 90095, USA
    Expert Rev Proteomics 10:127-9. 2013
  9. pmc Integral membrane proteins and bilayer proteomics
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, The NPI Semel Institute for Neuroscience and Human Behavior, The David Geffen School of Medicine, University of California, Los Angeles, 760 Westwood Plaza, Los Angeles, California 90095, United States
    Anal Chem 85:2558-68. 2013
  10. ncbi request reprint Top-down mass spectrometry of integral membrane proteins
    Julian Whitelegge
    University of California, Pasarow Mass Spectrometry Laboratory, Jane and Terry Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, Los Angeles, CA 90024, USA
    Expert Rev Proteomics 3:585-96. 2006

Detail Information

Publications92

  1. pmc Electrospray-ionization mass spectrometry of intact intrinsic membrane proteins
    J P Whitelegge
    Center for Molecular and Medical Sciences Mass Spectrometry, Department of Chemistry and Biochemistry, University of California, Los Angeles 90095 1569, USA
    Protein Sci 7:1423-30. 1998
    ..The apparent retention of structure by bacteriorhodopsin during the analysis raises the potential of obtaining tertiary structure information using more developed ESI-MS experiments...
  2. ncbi request reprint Expression, purification, crystallization, and preliminary X-ray analysis of recombinant human saposin B
    Victoria E Ahn
    Department of Medical Biophysics, University of Toronto, 610 University Avenue, Toronto, Ont, Canada M5G 2M9
    Protein Expr Purif 27:186-93. 2003
    ..The three-dimensional structure of saposin B protein will provide insights into how this 79 amino acid protein is able to solubilize relatively large membrane-bound lipid ligands...
  3. ncbi request reprint Mass spectral analysis of pig (Sus scrofa) apo HDL: Identification of pig apoA-II, a dimeric apolipoprotein
    Donald L Puppione
    The Molecular Biology Institute and The Department of Chemistry and Biochemistry, University of California at Los Angeles, Los Angeles, CA 90095, USA
    Comp Biochem Physiol B Biochem Mol Biol 141:89-94. 2005
    ..In addition to being the first to report on the presence of apoA-II in pig plasma, we also obtained values for the molecular masses of apoA-I, apoC-III, apoD and serum amyloid A protein...
  4. ncbi request reprint Plant peptides and peptidomics
    Naser Farrokhi
    National Institute of Genetic Engineering and Biotechnology, Pajoohesh Blvd, Tehran Karaj Highway, 17th Km, Tehran, Iran
    Plant Biotechnol J 6:105-34. 2008
    ..This review describes known plant peptides and introduces the use of peptidomics for the detection of novel plant peptides...
  5. pmc Initiation and elongation in fibrillation of ALS-linked superoxide dismutase
    Madhuri Chattopadhyay
    Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 105:18663-8. 2008
    ..Our findings provide a rare glimpse into the specific changes in a protein that can lead to nucleation and into the ability of amyloid nuclei to recruit diverse forms of the same protein into fibrils...
  6. ncbi request reprint Gas-Phase Structure of the E. coli OmpA Dimer
    Julian Whitelegge
    Pasarow Mass Spectrometry Laboratory, NPI Semel Institute, David Geffen School of Medicine, UCLA, Los Angeles, CA 90095, USA Electronic address
    Structure 22:666-7. 2014
    ..coli outer membrane OmpA. CCS of the dimer supports a model of paired periplasmic C-terminal domains projecting away from the transmembrane porins. ..
  7. pmc Phenotypic and genomic analysis of hypervirulent human-associated Bordetella bronchiseptica
    Umesh Ahuja
    Department of Microbiology, Immunology and Molecular Genetics, University of California, BSRB 254, 615 Charles E, Young Drive East, Los Angeles, CA 90095 1747, USA
    BMC Microbiol 12:167. 2012
    ..bronchiseptica subpopulations, designated complexes I and IV. Complex IV isolates appear to have a bias for infecting humans; however, little is known regarding their epidemiology, virulence properties, or comparative genomics...
  8. doi request reprint Intact protein mass spectrometry and top-down proteomics
    Julian Whitelegge
    The Pasarow Mass Spectrometry Laboratory, UCLA, Jane and Terry Semel Institute for Neuroscience and Human Behavior, Los Angeles, CA 90095, USA
    Expert Rev Proteomics 10:127-9. 2013
    ....
  9. pmc Integral membrane proteins and bilayer proteomics
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, The NPI Semel Institute for Neuroscience and Human Behavior, The David Geffen School of Medicine, University of California, Los Angeles, 760 Westwood Plaza, Los Angeles, California 90095, United States
    Anal Chem 85:2558-68. 2013
    ....
  10. ncbi request reprint Top-down mass spectrometry of integral membrane proteins
    Julian Whitelegge
    University of California, Pasarow Mass Spectrometry Laboratory, Jane and Terry Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, Los Angeles, CA 90024, USA
    Expert Rev Proteomics 3:585-96. 2006
    ..Top down offers a more detail-orientated approach to post-transcriptional and post-translational diversity allowing an enhanced insight beyond genomic translation, which has now extended into the bilayer proteome...
  11. ncbi request reprint Full subunit coverage liquid chromatography electrospray ionization mass spectrometry (LCMS+) of an oligomeric membrane protein: cytochrome b(6)f complex from spinach and the cyanobacterium Mastigocladus laminosus
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry, Neuropsychiatric Institute, University of California, Los Angeles, California 90095, USA
    Mol Cell Proteomics 1:816-27. 2002
    ..Full subunit coverage of an oligomeric intrinsic membrane protein complex by LCMS+ presents a new facet to intact mass proteomics...
  12. ncbi request reprint Characterization of a recombinant molecule covalently indistinguishable from human cerebroside-sulfate activator protein (CSAct or Saposin B)
    J P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, The Neuropsychiatric Institute, University of California, 405 Hilgard Ave, Los Angeles, CA 90095, USA
    Cell Mol Biol (Noisy-le-grand) 49:799-807. 2003
    ..It is concluded that while glycosylation is unnecessary for in vitro and ex vivo activity of CSAct, modification of the native N21 is necessary to prevent loss of ex vivo activity, possibly via protection from degradation...
  13. ncbi request reprint HPLC and mass spectrometry of intrinsic membrane proteins
    Julian P Whitelegge
    Department of Psychiatry and Biobehavioral Sciences, University of California, LosAngeles, CA, USA
    Methods Mol Biol 251:323-40. 2004
  14. ncbi request reprint Subtle modification of isotope ratio proteomics; an integrated strategy for expression proteomics
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry, University of California, Los Angeles, CA 90095, USA
    Phytochemistry 65:1507-15. 2004
    ..It is suggested that subtle modification of isotope ratio proteomics (SMIRP) offers a convenient approach to in vivo isotope coding of plants and might ultimately be extended to mammals including humans...
  15. ncbi request reprint Mass spectrometry for high throughput quantitative proteomics in plant research: lessons from thylakoid membranes
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, David Geffen School of Medicine and College of Letters and Sciences, University of California, Los Angeles, CA, USA
    Plant Physiol Biochem 42:919-27. 2004
    ....
  16. pmc Plant proteomics: BLASTing out of a MudPIT
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, and Neuropsychiatric Institute, University of California, 405 Hilgard Avenue, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 99:11564-6. 2002
  17. pmc Toward the bilayer proteome, electrospray ionization-mass spectrometry of large, intact transmembrane proteins
    J P Whitelegge
    Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 96:10695-8. 1999
    ..Furthermore, ESI-MS is used to titrate reactive thiols with N-ethylmaleimide. Treatment of the native protein solubilized in detergent micelles reveals only two reactive thiols, and both are protected by a substrate analog...
  18. ncbi request reprint Sequencing covalent modifications of membrane proteins
    Julian P Whitelegge
    The Pasarow Mass Spectrometry Laboratory, and the Jane and Terry Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California, 405 Hilgard Avenue, Los Angeles, CA 90095, USA
    J Exp Bot 57:1515-22. 2006
    ....
  19. pmc Methionine oxidation within the cerebroside-sulfate activator protein (CSAct or Saposin B)
    J P Whitelegge
    Pasarow Mass Spectrometry Laboratory, University of California, Los Angeles 90095, USA
    Protein Sci 9:1618-30. 2000
    ..This, in turn, could contribute to the onset and progression of neurodegenerative disease, especially in situations where the catabolism of these materials is marginal...
  20. ncbi request reprint Disulfide connectivity in cerebroside sulfate activator is not necessary for biological activity or alpha-helical content but is necessary for trypsin resistance and strong ligand binding
    K F Faull
    Pasarow Mass Spectrometry Laboratory, UCLA, Los Angeles, California 90095, USA
    Arch Biochem Biophys 376:266-74. 2000
    ..Some revision of our thoughts on the importance of the disulfide connectivities in the structure and function of the protein are necessary...
  21. ncbi request reprint Hydrogen-deuterium exchange signature of porcine cerebroside sulfate activator protein
    K F Faull
    Department of Psychiatry and Biobehavioral Sciences and the Neuropsychiatric Institute, UCLA, Los Angeles, California 90095, USA
    J Mass Spectrom 35:392-401. 2000
    ..The hydrogen-deuterium exchange profile will be a valuable criterion for characterizing mutant forms of CSAct produced by recombinant and synthetic paradigms and also the native and mutant forms of related proteins...
  22. ncbi request reprint Structure of the asparagine-linked sugar chains of porcine kidney and human urine cerebroside sulfate activator protein
    K F Faull
    Department of Chemistry and Biochemistry, UCLA, Los Angeles, California, 90095, USA
    J Mass Spectrom 35:1416-24. 2000
    ..The procedures developed will be useful for sequencing other oligosaccharides including those from other members of the lipid-binding protein class to which cerebroside sulfate activator belongs. (c) 2000 John Wiley & Sons, Ltd...
  23. ncbi request reprint Proteomics on full-length membrane proteins using mass spectrometry
    J le Coutre
    Howard Hughes Medical Institute, Departments of Physiology and of Microbiology and Molecular Genetics, Molecular Biology Institute, University of California, Los Angeles 90095, USA
    Biochemistry 39:4237-42. 2000
    ..Finally, using in-line LC-MS, unknown proteins can be identified from solubilized Escherichia coli membranes without prior purification...
  24. ncbi request reprint Cerebroside sulfate activator protein (Saposin B): chromatographic and electrospray mass spectrometric properties
    K F Faull
    Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences and the Neuropsychiatric Institute and Department of Chemistry and Biochemistry, UCLA, Los Angeles, California 90095, USA
    J Mass Spectrom 34:1040-54. 1999
    ....
  25. ncbi request reprint Molecular characterization of Vibrio parahaemolyticus vSGLT: a model for sodium-coupled sugar cotransporters
    E Turk
    Department of Physiology, University of California, Los Angeles 90095 1751, USA
    J Biol Chem 275:25711-6. 2000
    ..It is further demonstrated that ESI-MS is a powerful tool for the study of proteomics of membrane transporters...
  26. ncbi request reprint The chloroplast grana proteome defined by intact mass measurements from liquid chromatography mass spectrometry
    Stephen M Gómez
    The Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, The Neuropsychiatric Institute and the Department of Chemistry and Biochemistry, UCLA, Los Angeles, California 90095, USA
    Mol Cell Proteomics 1:46-59. 2002
    ..Intact mass proteomics of organellar subfractions and more highly purified protein complexes provides increasingly detailed insights into functional genomics of photosynthetic membranes...
  27. ncbi request reprint Analysis of enzyme kinetics using electrospray ionization mass spectrometry and multiple reaction monitoring: fucosyltransferase V
    A J Norris
    Crump Institute for Molecular Imaging, Departments of Molecular and Medical Pharmacology, Chemistry and Biochemistry, University of California, Los Angeles, California 90095, USA
    Biochemistry 40:3774-9. 2001
    ....
  28. ncbi request reprint Transit peptide cleavage sites of integral thylakoid membrane proteins
    Stephen M Gómez
    Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, University of California, Los Angeles, California 90095, USA
    Mol Cell Proteomics 2:1068-85. 2003
    ....
  29. ncbi request reprint A novel mass spectrometric assay for the cerebroside sulfate activator protein (saposin B) and arylsulfatase A
    Andrew J Norris
    Pasarow Mass Spectrometry Laboratory, Department of Psychiatry, and Neuropsychiatric Institute, University of California Los Angeles, Los Angeles, CA 90024, USA
    J Lipid Res 46:2254-64. 2005
    ..The modified assay for the coupled ASA/CSAct reaction could find applicability in settings in which the assay could not be performed previously because of the need for radiolabeled substrate, which is now not required...
  30. ncbi request reprint Mass spectral analysis of the apolipoproteins on mouse high density lipoproteins. Detection of post-translational modifications
    Donald L Puppione
    The Molecular Biology Institute and The Department of Chemistry and Biochemistry, University of California at Los Angeles, Los Angeles, CA 90095, USA
    Biochim Biophys Acta 1764:1363-71. 2006
    ....
  31. pmc Hepatic lipase maturation: a partial proteome of interacting factors
    Mark H Doolittle
    Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA
    J Lipid Res 50:1173-84. 2009
    ..BiP/Grp94 may stabilize misfolded HL during its transition between cycles of CNX binding and may help direct its eventual degradation...
  32. pmc Identification of a novel phosphorylation site in c-jun directly targeted in vitro by protein kinase D
    Richard T Waldron
    Unit of Signal Transduction and Gastrointestinal Cancer, Division of Digestive Diseases, Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, USA
    Biochem Biophys Res Commun 356:361-7. 2007
    ..These data were further supported by kinase reactions using truncations or point-mutations of GST-c-jun. Together, these data suggest that PKD-mediated phosphorylation modulates c-jun at the level of its N-terminal functional domains...
  33. ncbi request reprint Mass spectral analysis of domestic and wild equine apoA-I and A-II: detection of unique dimeric forms of apoA-II
    Donald L Puppione
    The Molecular Biology Institute and The Department of Chemistry and Biochemistry, University of California at Los Angeles, 90095, USA
    Comp Biochem Physiol B Biochem Mol Biol 142:369-73. 2005
    ..In addition, our data indicate that small amounts of apoA-I and apoA-II apparently are acylated...
  34. ncbi request reprint Integrating mass spectrometry into membrane protein drug discovery
    Adam B Weinglass
    Howard Hughes Medical Institute, Departments of Physiology and Microbiology and Molecular Genetics Molecular Biology Institute, University of California Los Angeles, Los Angeles, CA 90095 1662, USA
    Curr Opin Drug Discov Devel 7:589-99. 2004
    ....
  35. pmc A monoclonal antibody that conveys in vitro killing and partial protection in experimental syphilis binds a phosphorylcholine surface epitope of Treponema pallidum
    David R Blanco
    A2 087G Center for Health Sciences, UCLA School of Medicine, Los Angeles, CA 90095, USA
    Infect Immun 73:3083-95. 2005
    ..This is the first physical demonstration of an antigen on the T. pallidum surface and indication that such a surface antigen can be a target of immunity...
  36. pmc Temporal analysis of the antigenic composition of Borrelia burgdorferi during infection in rabbit skin
    Timothy R Crother
    Department of Medicine, Division of Infectious Diseases, University of California, Los Angeles, 37 121 Center for Health Sciences, 10833 LeConte Ave, Los Angeles, CA 90095, USA
    Infect Immun 72:5063-72. 2004
    ..This marked diminution in VlsE lower forms paralleled the clearance of the spirochete from skin...
  37. ncbi request reprint Purification and proteomic analysis of outer membrane vesicles from a clinical isolate of Leptospira interrogans serovar Copenhageni
    Jarlath E Nally
    Division of Infectious Diseases, Department of Medicine, University of California, Los Angeles, CA 90095, USA
    Proteomics 5:144-52. 2005
    ....
  38. doi request reprint Cysteine string protein beta is prominently associated with nerve terminals and secretory organelles in mouse brain
    Cameron B Gundersen
    the Department of Molecular and Medical Pharmacology, David Geffen School of Medicine at UCLA, Los Angeles, CA 90095, USA
    Brain Res 1332:1-11. 2010
    ..Collectively, the enrichment of CSP-beta in synaptosomes and the association of CSP-beta with synaptic vesicles suggest that CSP-beta, like CSP-alpha, may be an important component of the regulated secretory machinery in mouse brain...
  39. pmc Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation
    Christopher M Ryan
    The Pasarow Mass Spectrometry Laboratory, The Neuropsychiatric Institute NPI Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90024, USA
    Mol Cell Proteomics 9:791-803. 2010
    ....
  40. pmc Mass spectral analyses of the two major apolipoproteins of great ape high density lipoproteins
    Donald L Puppione
    The Molecular Biology Institute, UCLA, Los Angeles, CA 90095, USA
    Comp Biochem Physiol Part D Genomics Proteomics 4:305-9. 2009
    ..Post-translational modification of these apolipoproteins, involving truncation and oxidation of methionine, are also reported...
  41. ncbi request reprint Sequence of horse (Equus caballus) apoA-II. Another example of a dimer forming apolipoprotein
    Donald L Puppione
    Boyer Hall, The Molecular Biology Institute and The Department of Chemistry and Biochemistry, University of California at Los Angeles, Los Angeles, CA 90095, USA
    Comp Biochem Physiol B Biochem Mol Biol 138:213-20. 2004
    ..The data are compared with other mammalian sequences of apoA-II and are discussed in terms of resulting similarities and variations in the primary sequences...
  42. pmc Defining intact protein primary structures from saliva: a step toward the human proteome project
    F Halgand
    NPI Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90024, United States
    Anal Chem 84:4383-95. 2012
    ..This led us to propose guidelines for an iterative processing workflow of MS and MSMS data sets that allow researchers to completely assign the identity and the structure of a protein...
  43. pmc Demonstration by mass spectrometry that purified native Treponema pallidum rare outer membrane protein 1 (Tromp1) has a cleaved signal peptide
    D R Blanco
    Department of Microbiology, Immunology, and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    J Bacteriol 181:5094-8. 1999
    ..These studies confirm that Tromp1 is processed and does not contain an uncleaved signal peptide as previously reported...
  44. ncbi request reprint Kinetic characterization of enzyme inhibitors using electrospray-ionization mass spectrometry coupled with multiple reaction monitoring
    A J Norris
    Crump Institute for Molecular Imaging, Department of Molecular and Medical Pharmacology, UCLA School of Medicine, Los Angeles, California 90095-1770, USA
    Anal Chem 73:6024-9. 2001
    ..ESI-MS/MRM is therefore a powerful tool for the kinetic characterization of enzyme inhibitors, providing complete disclosure of the mechanism of action of 1 as an inhibitor...
  45. pmc Characterization of the outer membrane proteome of Leptospira interrogans expressed during acute lethal infection
    Jarlath E Nally
    Division of Infectious Diseases, Department of Medicine, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, USA
    Infect Immun 75:766-73. 2007
    ..Significant amounts of LipL32 are also expressed by Leptospira during acute infection of guinea pigs...
  46. ncbi request reprint Intrinsic membrane association of Drosophila cysteine string proteins
    A Mastrogiacomo
    Department of Molecular and Medical Pharmacology and Crump Institute for Biological Imaging, UCLA School of Medicine, Los Angeles, CA 90095, USA
    FEBS Lett 436:85-91. 1998
    ..Thus, we conclude that under physiological conditions csps are integral membrane proteins of secretory organelles, and that the cysteine string domain plays a vital role in the membrane association of these proteins...
  47. ncbi request reprint Proteomics. Making sense of genomic information for drug discovery
    J P Whitelegge
    Department of Chemistry and Biochemistry, Pasarow Mass Spectrometry Laboratory, University of California Los Angeles, Los Angeles, California, USA
    Am J Pharmacogenomics 1:29-35. 2001
    ....
  48. ncbi request reprint Differential association of hemoglobin with proinflammatory high density lipoproteins in atherogenic/hyperlipidemic mice. A novel biomarker of atherosclerosis
    Junji Watanabe
    Atherosclerosis Research Unit, Department of Medicine Cardiology, University of California, Los Angeles, California 90095, USA
    J Biol Chem 282:23698-707. 2007
    ..Our data suggest that Hb contributes to the proinflammatory nature of HDL in mouse and human models of atherosclerosis and may serve as a novel biomarker for atherosclerosis...
  49. pmc Detection of two distinct forms of apoC-I in great apes
    Donald L Puppione
    The Molecular Biology Institute, University of California, Los Angeles, CA 90095, USA
    Comp Biochem Physiol Part D Genomics Proteomics 5:73-9. 2010
    ..Genomic variations in chromosome 19 among great apes, baboons and macaques as they relate to both genes for apoC-I and the pseudogene are compared and discussed...
  50. pmc Identification of differentially expressed proteins in murine embryonic and postnatal cortical neural progenitors
    Lorelei D Shoemaker
    Pasarow Mass Spectrometry Laboratory, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, United States of America
    PLoS ONE 5:e9121. 2010
    ..The study of NSPC would be greatly facilitated by the identification of additional proteins that mediate their function and that would distinguish amongst different progenitor populations...
  51. pmc Mass spectrometry (LC-MS/MS) site-mapping of N-glycosylated membrane proteins for breast cancer biomarkers
    Stephen A Whelan
    Revlon UCLA Breast Center, Department of Surgery, Neuropsychiatric Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, Los Angeles, California 90095, USA
    J Proteome Res 8:4151-60. 2009
    ..Analyzing the N-glycoproteins from membranes of breast cancer cell lines highlights the usefulness of the procedure for generating a practical set of potential biomarkers...
  52. pmc Similar energetic contributions of packing in the core of membrane and water-soluble proteins
    Nathan H Joh
    Department of Chemistry and Biochemistry, UCLA DOE Center for Genomics and Proteomics, Molecular Biology Institute, University of California, Los Angeles, California 90095, USA
    J Am Chem Soc 131:10846-7. 2009
    ..We observed little difference in the packing energetics of water and membrane soluble proteins. Our results imply that other mechanisms are employed to stabilize the structure of membrane proteins...
  53. pmc Anthrax lethal toxin induced lysosomal membrane permeabilization and cytosolic cathepsin release is Nlrp1b/Nalp1b-dependent
    Kathleen M Averette
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, Los Angeles, California, USA
    PLoS ONE 4:e7913. 2009
    ..These data reveal a role for lysosomal membrane permeabilization in the cellular response to bacterial pathogens and demonstrate a shared requirement for cytosolic relocalization of cathepsins in pyroptosis and pyronecrosis...
  54. ncbi request reprint Yeast ribosomal/cytochrome c SET domain methyltransferase subfamily: identification of Rpl23ab methylation sites and recognition motifs
    Tanya R Porras-Yakushi
    Department of Chemistry and Biochemistry, The Molecular Biology Institute, UCLA, Los Angeles, CA 90095 1569, USA
    J Biol Chem 282:12368-76. 2007
    ..Finally, we show the presence of Rkm1 homologs in fungi, plants, and mammals including humans...
  55. pmc Novel role for Na,K-ATPase in phosphatidylinositol 3-kinase signaling and suppression of cell motility
    Sonali P Barwe
    Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California, Los Angeles, CA 90095, USA
    Mol Biol Cell 16:1082-94. 2005
    ..Thus, these results demonstrate a new role for Na,K-ATPase in regulating carcinoma cell motility...
  56. ncbi request reprint Local unfolding in a destabilized, pathogenic variant of superoxide dismutase 1 observed with H/D exchange and mass spectrometry
    Bryan Francis Shaw
    Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, CA 90095, USA
    J Biol Chem 281:18167-76. 2006
    ..These local and global unfolding events could facilitate intermolecular protein-protein interactions that cause the aggregation or neurotoxicity of A4V SOD1...
  57. doi request reprint Micro-heterogeneity of human saliva Peptide P-C characterized by high-resolution top-down Fourier-transform mass spectrometry
    Frederic Halgand
    The Pasarow Mass Spectrometry Laboratory, NPI Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, USA
    J Am Soc Mass Spectrom 21:868-77. 2010
    ..While the biological significance of such subtle variations in protein structure remains unclear, their importance cannot be assigned without their characterization, as is reported here for one of the major salivary proteins...
  58. pmc Rpe65 isomerase associates with membranes through an electrostatic interaction with acidic phospholipid headgroups
    Quan Yuan
    Jules Stein Eye Institute, UCLA School of Medicine, Los Angeles, California 90095, USA
    J Biol Chem 285:988-99. 2010
    ..The interaction of Rpe65 with acidic phospholipids is therefore biologically relevant...
  59. ncbi request reprint Tumor proteomic profiling predicts the susceptibility of breast cancer to chemotherapy
    Jianbo He
    Department of Surgery, Gonda UCLA Breast Cancer Research Laboratory, University of California at Los Angeles, Los Angeles, CA 90095, USA
    Int J Oncol 35:683-92. 2009
    ..9% of the tumors with pathologically complete response, and 91.7% of the resistant tumors. The data suggest that breast cancer protein biomarkers may be used to pre-select patients for optimal chemotherapeutic treatment...
  60. pmc Detergent-insoluble aggregates associated with amyotrophic lateral sclerosis in transgenic mice contain primarily full-length, unmodified superoxide dismutase-1
    Bryan F Shaw
    Department of Chemistry and Biochemistry, David Geffen School of Medicine, UCLA, Los Angeles, CA 90095, USA
    J Biol Chem 283:8340-50. 2008
    ..The results demonstrate that the principal protein in the high molecular mass aggregates whose appearance correlates with symptoms of the disease is the unmodified, full-length SOD1 polypeptide...
  61. ncbi request reprint Cardiovascular-related proteins identified in human plasma by the HUPO Plasma Proteome Project pilot phase
    Beniam T Berhane
    Department of Physiology and Medicine Division of Cardiology, David Geffen School of Medicine at UCLA, Los Angeles, CA 90095, USA
    Proteomics 5:3520-30. 2005
    ....
  62. pmc Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins
    Nathan Hyunjoong Joh
    Department of Chemistry and Biochemistry, UCLA DOE Center for Genomics and Proteomics, Molecular Biology Institute, USA
    Nature 453:1266-70. 2008
    ..Weak hydrogen-bonding should be reflected in considerations of membrane protein folding, dynamics, design, evolution and function...
  63. pmc Confident assignment of intact mass tags to human salivary cystatins using top-down Fourier-transform ion cyclotron resonance mass spectrometry
    Christopher M Ryan
    The Pasarow Mass Spectrometry Laboratory, The NPI Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90024, USA
    J Am Soc Mass Spectrom 21:908-17. 2010
    ..With fully characterized cystatin intact mass tags it will now be possible to examine the correlation between the abundance of these molecules and human health and disease...
  64. pmc Interactions between partner switcher orthologs BtrW and BtrV regulate type III secretion in Bordetella
    Natalia A Kozak
    Department of Microbiology, Immunology and Molecular Genetics, David Geffen School of Medicine at UCLA, 10833 Le Conte Ave, Los Angeles, CA 90095 1747, USA
    J Bacteriol 187:5665-76. 2005
    ....
  65. pmc Elucidation of substrate binding interactions in a membrane transport protein by mass spectrometry
    Adam B Weinglass
    Department of Physiology, Molecular Biology Institute, University of California Los Angeles, Los Angeles, CA 90095 1662, USA
    EMBO J 22:1467-77. 2003
    ..The approach demonstrates that mass spectrometry can provide a powerful means of analyzing ligand interactions with integral membrane proteins...
  66. ncbi request reprint Characterization of serum biomarkers for detection of early stage ovarian cancer
    Katherine R Kozak
    Department of Obstetrics and Gynecology, University of California, Los Angeles, USA
    Proteomics 5:4589-96. 2005
    ..955). We conclude that TTR, Hb, ApoAI and TF, when combined with CA125 should significantly improve the detection of early stage ovarian cancer...
  67. ncbi request reprint Proteomics of membrane proteins
    Julian P Whitelegge
    Pasarow Mass Spectrometry Laboratory, Department of Psychiatry and Biobehavioral Sciences, Department of Chemistry and Biochemistry, Neuropsychiatric Institute, University of California Los Angeles, Los Angeles, California 90095, USA
    Adv Protein Chem 65:271-307. 2003
  68. ncbi request reprint Detection of breast cancer biomarkers in nipple aspirate fluid by SELDI-TOF and their identification by combined liquid chromatography-tandem mass spectrometry
    Jianbo He
    Gonda UCLA Breast Cancer Research Laboratory, David Geffen School of Medicine, Los Angeles, CA 90095, USA
    Int J Oncol 30:145-54. 2007
    ....
  69. pmc Identification of protein N-terminal methyltransferases in yeast and humans
    Kristofor J Webb
    Department of Chemistry and Biochemistry and Molecular Biology Institute, University of California, Los Angeles, 607 Charles E Young Drive East, Los Angeles, California 90095, USA
    Biochemistry 49:5225-35. 2010
    ..We conclude that protein X-Pro-Lys N-terminal methylation reactions catalyzed by the enzymes described here may be widespread in nature...
  70. ncbi request reprint Identification of the molecular chaperone alpha B-crystallin in demineralized bone powder and osteoblast-like cells
    Keyvan Behnam
    Department of Physiological Sciences, University of California, Los Angeles, Los Angeles, CA 90024, USA
    J Orthop Res 20:1190-6. 2002
    ....
  71. doi request reprint A new endogenous form of PYY isolated from canine ileum: Gly-extended PYY(1-36)
    David A Keire
    CURE Digestive Diseases Research Center, VA GLAHS, Los Angeles, CA 90073 and Digestive Diseases Division, David Geffen School of Medicine at UCLA, Los Angeles, CA 90024, United States
    Regul Pept 151:61-70. 2008
    ..In addition, we also found that the PYY(3-36)-NH(2) form represents 6% of the total PYY in the canine ileo-cecal junction. The physiological implication of the Gly-extended form of PYY(1-36) warrants further investigation...
  72. ncbi request reprint Side-chain contributions to membrane protein structure and stability
    Salem Faham
    Department of Chemistry and Biochemistry, UCLA DOE Center for Genomics and Proteomics, Molecular Biology Institute, University of California, Los Angeles, CA 90095 1570, USA
    J Mol Biol 335:297-305. 2004
    ..4) We find little energetic difference, on average, in the burial of apolar surface or polar surface area, implying that van der Waals packing is the dominant force that drives membrane protein folding...
  73. ncbi request reprint The murine cardiac 26S proteasome: an organelle awaiting exploration
    Aldrin V Gomes
    Department of Physiology and Medicine, and Cardiac Proteomics and Signaling Lab at the Cardiovascular Research Laboratory, University of California at Los Angeles, School of Medicine, Los Angeles, California 90095, USA
    Ann N Y Acad Sci 1047:197-207. 2005
    ..In addition, this review shares the limited information that has been garnered thus far pertaining to the molecular composition, function, and regulation of this important organelle in the cardiac cells...
  74. pmc The proteomes of human parotid and submandibular/sublingual gland salivas collected as the ductal secretions
    Paul Denny
    School of Dentistry, University of Southern California, Los Angeles, California 90089, USA
    J Proteome Res 7:1994-2006. 2008
    ....
  75. pmc Metal-free superoxide dismutase-1 and three different amyotrophic lateral sclerosis variants share a similar partially unfolded beta-barrel at physiological temperature
    Armando Durazo
    Department of Chemistry and Biochemistry, UCLA, Los Angeles, California 90095, USA
    J Biol Chem 284:34382-9. 2009
    ..e. beta3 and beta4, residues 21-53). Together, these results show that human wild-type apo-SOD1 and variants have a partially unfolded beta-barrel at physiological temperature and unfold non-cooperatively...
  76. ncbi request reprint A novel SET domain methyltransferase modifies ribosomal protein Rpl23ab in yeast
    Tanya R Porras-Yakushi
    Department of Chemistry and Biochemistry and the Molecular Biology Institute, The Pasarow Mass Spectrometry Laboratory, University of California, Los Angeles, California 90095 1569, USA
    J Biol Chem 280:34590-8. 2005
    ..These results show that SET domain methyltransferases can be involved in translational roles as well as in the previously described transcriptional roles...
  77. ncbi request reprint Exercise affects energy metabolism and neural plasticity-related proteins in the hippocampus as revealed by proteomic analysis
    Qinxue Ding
    Department of Neurosurgery, Brain Injury Research Centre, UCLA, 621 Charles E Young Drive, Los Angeles, CA 90095, USA
    Eur J Neurosci 24:1265-76. 2006
    ....
  78. ncbi request reprint A novel SET domain methyltransferase in yeast: Rkm2-dependent trimethylation of ribosomal protein L12ab at lysine 10
    Tanya R Porras-Yakushi
    Department of Chemistry and Biochemistry, Molecular Biology Institute, UCLA, Los Angeles, California 90095 1569, USA
    J Biol Chem 281:35835-45. 2006
    ..These studies suggest that the remaining seven SET domain proteins may also be lysine methyltransferases...
  79. ncbi request reprint Exploring the role of a unique carboxyl residue in EmrE by mass spectrometry
    Adam B Weinglass
    Howard Hughes Medical Institute, Department of Physiology, Molecular Biology Institute, University of California Los Angeles, 90095 1662, USA
    J Biol Chem 280:7487-92. 2005
    ..Taken together with other biochemical data, the findings support a "time sharing" mechanism in which both Glu-14 residues in a dimer are involved in tetraphenylphosphonium and H(+) binding...
  80. ncbi request reprint Monitoring conformational rearrangements in the substrate-binding site of a membrane transport protein by mass spectrometry
    Adam Weinglass
    Howard Hughes Medical Institute and Department of Physiology and Microbiology, University of California, Los Angeles, Los Angeles, CA 90095, USA
    J Biol Chem 279:41858-65. 2004
    ....
  81. pmc Crystal structure of saposin B reveals a dimeric shell for lipid binding
    Victoria E Ahn
    Department of Medical Biophysics, University of Toronto, ON, Canada M5G 2M9
    Proc Natl Acad Sci U S A 100:38-43. 2003
    ..A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity...
  82. pmc J-domain protein CDJ2 and HSP70B are a plastidic chaperone pair that interacts with vesicle-inducing protein in plastids 1
    Cuimin Liu
    Plant Biochemistry, Institute of Biology II, University of Freiburg, D 79104 Freiburg, Germany
    Mol Biol Cell 16:1165-77. 2005
    ..Our findings and the previously reported requirement of VIPP1 for the biogenesis of thylakoid membranes point to a role for the HSP70B/CDJ2 chaperone pair in this process...
  83. ncbi request reprint A two component chitin-binding protein from French bean -- association of a proline-rich protein with a cysteine-rich polypeptide
    Laurence V Bindschedler
    School of Biological Sciences, Royal Holloway, University of London, Egham Hill, Egham, Surrey TW20 0EX, UK
    FEBS Lett 580:1541-6. 2006
    ....
  84. ncbi request reprint Increased coverage in the transmembrane domain with activated-ion electron capture dissociation for top-down Fourier-transform mass spectrometry of integral membrane proteins
    Vlad Zabrouskov
    Thermo Fisher, San Jose, California, California 95134, USA
    J Proteome Res 6:2205-10. 2007
    ..Thermal activation concomitant with electron delivery was necessary for efficient ECD (activated-ion ECD; aiECD), yielding complementary information and greater sequence coverage in the transmembrane domains in comparison with CAD...
  85. pmc The evolution of transmembrane helix kinks and the structural diversity of G protein-coupled receptors
    Sarah Yohannan
    Department of Chemistry and Biochemistry, UCLA DOE Institute for Genomics and Proteomics, Molecular Biology Institute, University of California, Los Angeles, CA 90095, USA
    Proc Natl Acad Sci U S A 101:959-63. 2004
    ..Our analysis allows us to predict kink positions with >90% reliability. Kink prediction indicates that different G protein-coupled receptor proteins have different kink patterns and therefore different structures...
  86. pmc Metal-free superoxide dismutase forms soluble oligomers under physiological conditions: a possible general mechanism for familial ALS
    Lucia Banci
    Magnetic Resonance Center CERM and Department of Chemistry, University of Florence, Italy
    Proc Natl Acad Sci U S A 104:11263-7. 2007
    ..Although we cannot exclude other mechanisms in SOD1-linked familial ALS, the one proposed here has the strength of explaining how a large and diverse set of SOD1 mutant proteins all could lead to disease through the same mechanism...
  87. ncbi request reprint Inhibition kinetics of carba- and C-fucosyl analogues of GDP-fucose against fucosyltransferase V: implication for the reaction mechanism
    Andrew J Norris
    Department of Molecular and Medical Pharmacology, David Geffen School of Medicine at University of California, Los Angeles, CA 90095, USA
    Bioorg Med Chem Lett 14:571-3. 2004
    ..1+/-9.8 microM, similar to the K(m) value for GDP-Fuc (50.4+/-5.5 microM), while the C-Fuc analogue exhibited significantly weak competitive inhibition with a K(i) value of 889+/-93 microM...
  88. ncbi request reprint Proteomic profiling of cancer biomarkers
    Hungyi Shau
    Revlon UCLA Breast Center, 90095 7028, USA
    Brief Funct Genomic Proteomic 2:147-58. 2003
    ..The aim is to provide a resource for the experimental practitioner seeking awareness of the analytical tools that are now available in contemporary cancer research...
  89. ncbi request reprint The minimum information about a proteomics experiment (MIAPE)
    Chris F Taylor
    The HUPO Proteomics Standards Initiative, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Nat Biotechnol 25:887-93. 2007
    ....
  90. pmc Mapping the cofilin binding site on yeast G-actin by chemical cross-linking
    Elena E Grintsevich
    Department of Chemistry and Biochemistry, University of California Los Angeles, CA, USA
    J Mol Biol 377:395-409. 2008
    ..4 A) and via disulfide bond formation was also documented. This set of cross-linking data confirms the important role of the N-terminal segment of cofilin in interactions with G-actin...
  91. ncbi request reprint Rhizobium common nod genes are required for biofilm formation
    Nancy A Fujishige
    Department of Molecular, Cell and Developmental Biology, University of California Los Angeles, CA 90095 1606, USA
    Mol Microbiol 67:504-15. 2008
    ....
  92. pmc Amide bonds assemble pili on the surface of bacilli
    Jonathan M Budzik
    Department of Microbiology, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 105:10215-20. 2008
    ..Conservation of catalysts and structural elements in pilin precursors in Gram-positive bacteria suggests a universal mechanism of fiber assembly...