Francesca M Marassi

Summary

Publications

  1. pmc Molecular structure and peptidoglycan recognition of Mycobacterium tuberculosis ArfA (Rv0899)
    Yong Yao
    Sanford Burnham Medical Research Institute, La Jolla, CA 92037, USA
    J Mol Biol 416:208-20. 2012
  2. pmc Mycobacterium tuberculosis Rv0899 defines a family of membrane proteins widespread in nitrogen-fixing bacteria
    Francesca M Marassi
    Sanford Burnham Medical Research Institute, La Jolla, California 92037, USA
    Proteins 79:2946-55. 2011
  3. pmc Membrane protein structure determination: back to the membrane
    Yong Yao
    Sanford Burnham Medical Research Institute, La Jolla, CA, USA
    Methods Mol Biol 1063:145-58. 2013
  4. pmc Structure determination of a membrane protein in proteoliposomes
    Bibhuti B Das
    Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093 0307, USA
    J Am Chem Soc 134:2047-56. 2012
  5. pmc Structure of the chemokine receptor CXCR1 in phospholipid bilayers
    Sang Ho Park
    Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093 0307, USA
    Nature 491:779-83. 2012
  6. pmc Improved chemical shift prediction by Rosetta conformational sampling
    Ye Tian
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    J Biomol NMR 54:237-43. 2012
  7. pmc Membrane protein structure determination in membrana
    Yi Ding
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, California 92037, United States
    Acc Chem Res 46:2182-90. 2013
  8. pmc Structure determination of membrane proteins in five easy pieces
    Francesca M Marassi
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Methods 55:363-9. 2011
  9. pmc Structure of the Na,K-ATPase regulatory protein FXYD2b in micelles: implications for membrane-water interfacial arginines
    Xiao Min Gong
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Biochim Biophys Acta 1848:299-306. 2015
  10. ncbi request reprint Solid-state NMR of the Yersinia pestis outer membrane protein Ail in lipid bilayer nanodiscs sedimented by ultracentrifugation
    Yi Ding
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA, 92037, USA
    J Biomol NMR . 2015

Collaborators

  • Yi Ding
  • Michael Niederweis
  • Hans Kiefer
  • Leigh A Plesniak
  • Houhui Song
  • Ye Tian
  • Stanley J Opella
  • Yong Yao
  • Sang Ho Park
  • Bibhuti B Das
  • Xiao Min Gong
  • Charles D Schwieters
  • Jinghua Yu
  • Henry J Nothnagel
  • Peter Teriete
  • Radhakrishnan Mahalakshmi
  • Mignon Chu
  • Johnny Kim
  • Woo Sung Son
  • Anna A De Angelis
  • George J Lu
  • Neha Barghava
  • Klaus Maier
  • Fabio Casagrande
  • David Black
  • Adrian Kolodzik

Detail Information

Publications17

  1. pmc Molecular structure and peptidoglycan recognition of Mycobacterium tuberculosis ArfA (Rv0899)
    Yong Yao
    Sanford Burnham Medical Research Institute, La Jolla, CA 92037, USA
    J Mol Biol 416:208-20. 2012
    ..tuberculosis. Its functions in acid stress protection and peptidoglycan binding suggest a link between the acid stress response and the physicochemical properties of the mycobacterial cell wall...
  2. pmc Mycobacterium tuberculosis Rv0899 defines a family of membrane proteins widespread in nitrogen-fixing bacteria
    Francesca M Marassi
    Sanford Burnham Medical Research Institute, La Jolla, California 92037, USA
    Proteins 79:2946-55. 2011
    ..These findings suggest that M. tuberculosis Rv0899 may also assist similar processes and lend further support to its role in ammonia secretion and M. tuberculosis adaptation to the host environment...
  3. pmc Membrane protein structure determination: back to the membrane
    Yong Yao
    Sanford Burnham Medical Research Institute, La Jolla, CA, USA
    Methods Mol Biol 1063:145-58. 2013
    ..The methods for protein expression and purification, sample preparation, and NMR experiments are described and illustrated with examples from OmpX and Ail, two bacterial outer membrane proteins that function in bacterial virulence...
  4. pmc Structure determination of a membrane protein in proteoliposomes
    Bibhuti B Das
    Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093 0307, USA
    J Am Chem Soc 134:2047-56. 2012
    ..The unique feature of this method is the measurement of orientation restraints that enable the protein structure and orientation to be determined in unoriented proteoliposomes...
  5. pmc Structure of the chemokine receptor CXCR1 in phospholipid bilayers
    Sang Ho Park
    Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093 0307, USA
    Nature 491:779-83. 2012
    ..The structure of human CXCR1 in a lipid bilayer should help to facilitate the discovery of new compounds that interact with GPCRs and combat diseases such as breast cancer...
  6. pmc Improved chemical shift prediction by Rosetta conformational sampling
    Ye Tian
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    J Biomol NMR 54:237-43. 2012
    ..This approach to chemical shift and structure prediction has the potential to be useful for guiding resonance assignments, especially in solid-state NMR structural studies of membrane proteins in proteoliposomes...
  7. pmc Membrane protein structure determination in membrana
    Yi Ding
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, California 92037, United States
    Acc Chem Res 46:2182-90. 2013
    ....
  8. pmc Structure determination of membrane proteins in five easy pieces
    Francesca M Marassi
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Methods 55:363-9. 2011
    ..High resolution spectra of membrane proteins alone and in complex with other proteins and ligands set the stage for structure determination and functional studies of these proteins in their native, functional environment...
  9. pmc Structure of the Na,K-ATPase regulatory protein FXYD2b in micelles: implications for membrane-water interfacial arginines
    Xiao Min Gong
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Biochim Biophys Acta 1848:299-306. 2015
    ..The structure and the NMR data suggest that FXYD2b could regulate the Na,K-ATPase by modulating the effective membrane surface electrostatics near the ion binding sites of the pump...
  10. ncbi request reprint Solid-state NMR of the Yersinia pestis outer membrane protein Ail in lipid bilayer nanodiscs sedimented by ultracentrifugation
    Yi Ding
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA, 92037, USA
    J Biomol NMR . 2015
    ..The same sample can be used for solution NMR, solid-state NMR and activity assays, facilitating structure-activity correlation experiments across a wide range of timescales...
  11. pmc A practical implicit solvent potential for NMR structure calculation
    Ye Tian
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA Department of Chemistry and Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0307, USA
    J Magn Reson 243:54-64. 2014
    ..Overall, EEFx provides a useful method for the practical calculation of experimental protein structures in a physically realistic environment. ..
  12. pmc AssignFit: a program for simultaneous assignment and structure refinement from solid-state NMR spectra
    Ye Tian
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    J Magn Reson 214:42-50. 2012
    ..The methods are demonstrated with data from two integral membrane proteins, one α-helical and one β-barrel, embedded in phospholipid bilayer membranes...
  13. pmc Expression, refolding, and initial structural characterization of the Y. pestis Ail outer membrane protein in lipids
    Leigh A Plesniak
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA
    Biochim Biophys Acta 1808:482-9. 2011
    ..The initial NMR and CD spectra show that Ail adopts a well-defined transmembrane β-sheet conformation in lipids...
  14. pmc Structure and dynamics of the membrane-bound form of Pf1 coat protein: implications of structural rearrangement for virus assembly
    Sang Ho Park
    Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California, USA
    Biophys J 99:1465-74. 2010
    ..The N-terminal helix and the hinge that connects it to the transmembrane helix are significantly more dynamic than the rest of the protein, thus facilitating structural rearrangement during bacteriophage assembly...
  15. pmc Influence of the lipid membrane environment on structure and activity of the outer membrane protein Ail from Yersinia pestis
    Yi Ding
    Sanford Burnham Medical Research Institute, La Jolla, CA 92037, USA
    Biochim Biophys Acta 1848:712-20. 2015
    ..The data show that even when detergent micelles support the protein fold, detergents can interfere with activity in subtle ways. ..
  16. pmc Orientation of the Escherichia coli outer membrane protein OmpX in phospholipid bilayer membranes determined by solid-State NMR
    Radhakrishnan Mahalakshmi
    Burnham Institute for Medical Research, 10901 North Torrey Pines Road, La Jolla, California 92037, USA
    Biochemistry 47:6531-8. 2008
    ..In C14 lipid bilayers, OmpX adopts a transmembrane orientation with a 7 degrees tilt of its beta-barrel axis relative to the membrane normal, matching the hydrophobic thickness of the barrel with that of the membrane...
  17. pmc Mycobacterium tuberculosis Rv0899 adopts a mixed alpha/beta-structure and does not form a transmembrane beta-barrel
    Peter Teriete
    Sanford Burnham Medical Research Institute, 10901 North Torrey Pines Road, La Jolla, California 92037, USA
    Biochemistry 49:2768-77. 2010
    ..The structure of the B domain and the overall architecture of the protein suggest alternative modes of membrane association...