Research Topics
| James M HoltonSummaryAffiliation: Lawrence Berkeley National Laboratory Country: USA Publications
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Detail Information
Publications
XANES measurements of the rate of radiation damage to selenomethionine side chainsJames M Holton
Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2330, USA
J Synchrotron Radiat 14:51-72. 2007..This protection was found to arise from the folded structure of the protein molecule. A mechanism to explain observed decay rates involving the damaging species following the electric field lines around protein molecules is proposed...- A beginner's guide to radiation damageJames M Holton
Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2330, USA
J Synchrotron Radiat 16:133-42. 2009.... - The minimum crystal size needed for a complete diffraction data setJames M Holton
Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2330, USA
Acta Crystallogr D Biol Crystallogr 66:393-408. 2010..These results suggest that reduction of background photons and diffraction spot size on the detector are the principal paths to improving crystallographic data quality beyond current limits... - The point-spread function of fiber-coupled area detectorsJames M Holton
Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94158 2330, USA
J Synchrotron Radiat 19:1006-11. 2012..Further analysis revealed that the tails are dominated by the fiber-optic taper, with negligible contribution from the phosphor, suggesting that the PSF of all fiber-coupled CCD-type detectors is best described as a Moffat function... - Accessing protein conformational ensembles using room-temperature X-ray crystallographyJames S Fraser
Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720 3220, USA
Proc Natl Acad Sci U S A 108:16247-52. 2011..Monitoring room-temperature conformational ensembles by X-ray crystallography can reveal motions crucial for catalysis, ligand binding, and allosteric regulation... - Automated electron-density sampling reveals widespread conformational polymorphism in proteinsP Therese Lang
Department of Molecular and Cell Biology, University of California, Berkeley, California 97420 3220, USA
Protein Sci 19:1420-31. 2010..Ringer provides an objective, systematic method to identify previously undiscovered alternate conformations that can mediate protein folding and function... 
Suite of three protein crystallography beamlines with single superconducting bend magnet as the sourceAlastair A MacDowell
Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
J Synchrotron Radiat 11:447-55. 2004..The optical properties of the beamline are an excellent match to those required by the small protein crystals that are typically measured. The design and performance of these new beamlines are described...- Hyaloperonospora arabidopsidis ATR1 effector is a repeat protein with distributed recognition surfacesSeemay Chou
Department of Cell and Molecular Biology, University of California, Berkeley, CA 94720, USA
Proc Natl Acad Sci U S A 108:13323-8. 2011..These results suggest that ATR1 is a modular repeat protein belonging to an ancient family of oomycete effectors that rapidly evolves to escape host detection and adopt diverse virulence functions... - Structures of the bacterial ribosome at 3.5 A resolutionBarbara S Schuwirth
Department of Chemistry, University of California, Berkeley, CA 94720, USA
Science 310:827-34. 2005.... - Structure of a designed, right-handed coiled-coil tetramer containing all biological amino acidsMark Sales
Department of Physics, University of California, Berkeley, California 94720 3206, USA
Protein Sci 16:2224-32. 2007..These results suggest that the RH4B structure populates an unanticipated variety of structures... - A steric block in translation caused by the antibiotic spectinomycinMaria A Borovinskaya
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
ACS Chem Biol 2:545-52. 2007..These structural and biochemical data indicate that in solution spectinomycin sterically blocks swiveling of the head domain of the small ribosomal subunit and thereby disrupts the translocation cycle... - Structural basis for aminoglycoside inhibition of bacterial ribosome recyclingMaria A Borovinskaya
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Nat Struct Mol Biol 14:727-32. 2007..Aminoglycosides bind to H69 and completely restore the contacts between ribosomal subunits that are disrupted by RRF. These results provide a structural explanation for aminoglycoside inhibition of ribosome recycling... - Basis for a ubiquitin-like protein thioester switch toggling E1-E2 affinityDanny T Huang
Howard Hughes Medical Institute, St Jude Children s Research Hospital, Memphis, Tennessee 38105, USA
Nature 445:394-8. 2007..Thus, transferring the UBL's thioester linkage between successive conjugation enzymes can induce conformational changes and alter interaction networks to drive consecutive steps in UBL cascades... - Functional and structural characterization of a thiol peroxidase from Mycobacterium tuberculosisBeom Seop Rho
Bioscience Division, MS M888, Los Alamos National Laboratory, Los Alamos, NM 87545, USA
J Mol Biol 361:850-63. 2006..The M. tuberculosis Tpx is dimeric both in solution and in the crystal structure. Amino acid residues from both monomers delineate the active site pocket... - Structural basis for recruitment of Ubc12 by an E2 binding domain in NEDD8's E1Danny T Huang
Department of Structural Biology, Department of Genetics Tumor Cell Biology, St Jude Children s Research Hospital, Memphis, TN 38105, USA
Mol Cell 17:341-50. 2005.... - Crystal structure of PriB, a component of the Escherichia coli replication restart primosomeMatthew Lopper
Department of Biomolecular Chemistry, University of Wisconsin Medical School, 550 Medical Sciences Center, 1300 University Avenue, Madison, WI 53706, USA
Structure 12:1967-75. 2004..This is the first high-resolution structure of a protein involved in oriC-independent replisome loading and provides unique insight into mechanisms of replication restart in E. coli... - A unique E1-E2 interaction required for optimal conjugation of the ubiquitin-like protein NEDD8Danny T Huang
Department of Structural Biology, St Jude Children s Research Hospital, Memphis, Tennessee 38105, USA
Nat Struct Mol Biol 11:927-35. 2004.... - Ubiquitin recognition by the human TSG101 proteinWesley I Sundquist
Department of Biochemistry, University of Utah, Salt Lake City, UT 84132, USA
Mol Cell 13:783-9. 2004.... - The structure of the APPBP1-UBA3-NEDD8-ATP complex reveals the basis for selective ubiquitin-like protein activation by an E1Helen Walden
Departments of Structural Biology and Genetics Tumor Cell Biology, St Jude Children s Research Hospital, Memphis, TN 38105, USA
Mol Cell 12:1427-37. 2003....