Douglas L Theobald

Summary

Affiliation: University of Colorado
Country: USA

Publications

  1. pmc Nucleic acid recognition by OB-fold proteins
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, Colorado 80309 0215, USA
    Annu Rev Biophys Biomol Struct 32:115-33. 2003
  2. pmc Nucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309 0215, USA
    EMBO J 22:4314-24. 2003
  3. ncbi request reprint Structural basis for telomeric single-stranded DNA recognition by yeast Cdc13
    Rachel M Mitton-Fry
    Department of Chemistry and Biochemistry, University of Colorado, UCB 215, Boulder, CO 80309 0215 USA
    J Mol Biol 338:241-55. 2004
  4. pmc THESEUS: maximum likelihood superpositioning and analysis of macromolecular structures
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309 0215, USA
    Bioinformatics 22:2171-2. 2006
  5. pmc Empirical Bayes hierarchical models for regularizing maximum likelihood estimation in the matrix Gaussian Procrustes problem
    Douglas L Theobald
    Department of Chemistry and Biochemistry, UCB 215, University of Colorado, Boulder, CO 80309, USA
    Proc Natl Acad Sci U S A 103:18521-7. 2006
  6. pmc Divergent evolution within protein superfolds inferred from profile-based phylogenetics
    Douglas L Theobald
    Department of Chemistry and Biochemistry, UCB 215, University of Colorado, Boulder, CO 80309 0215, USA
    J Mol Biol 354:722-37. 2005
  7. ncbi request reprint Prediction of multiple tandem OB-fold domains in telomere end-binding proteins Pot1 and Cdc13
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309, USA
    Structure 12:1877-9. 2004
  8. pmc Accurate structural correlations from maximum likelihood superpositions
    Douglas L Theobald
    Department of Biochemistry, Brandeis University, Waltham, Massachusetts, USA
    PLoS Comput Biol 4:e43. 2008
  9. ncbi request reprint Homology among telomeric end-protection proteins
    Douglas L Theobald
    Structure 11:1049-50. 2003

Collaborators

Detail Information

Publications9

  1. pmc Nucleic acid recognition by OB-fold proteins
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, Colorado 80309 0215, USA
    Annu Rev Biophys Biomol Struct 32:115-33. 2003
    ..Intriguingly, the observation of shared nucleic acid polarity may shed light on the longstanding question concerning OB-fold origins, indicating that it is unlikely that members of this family arose via convergent evolution...
  2. pmc Nucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309 0215, USA
    EMBO J 22:4314-24. 2003
    ..This set of structural and thermodynamic data highlights a fundamental difference between protein recognition of ssDNA versus dsDNA...
  3. ncbi request reprint Structural basis for telomeric single-stranded DNA recognition by yeast Cdc13
    Rachel M Mitton-Fry
    Department of Chemistry and Biochemistry, University of Colorado, UCB 215, Boulder, CO 80309 0215 USA
    J Mol Biol 338:241-55. 2004
    ..The structure reported here provides a foundation for understanding the mechanism by which Cdc13 recognizes GT-rich heterogeneous sequences with both unusually strong affinity and high specificity...
  4. pmc THESEUS: maximum likelihood superpositioning and analysis of macromolecular structures
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309 0215, USA
    Bioinformatics 22:2171-2. 2006
    ..AVAILABILITY: ANSI C source code and selected binaries for various computing platforms are available under the GNU open source license from http://monkshood.colorado.edu/theseus/ or http://www.theseus3d.org...
  5. pmc Empirical Bayes hierarchical models for regularizing maximum likelihood estimation in the matrix Gaussian Procrustes problem
    Douglas L Theobald
    Department of Chemistry and Biochemistry, UCB 215, University of Colorado, Boulder, CO 80309, USA
    Proc Natl Acad Sci U S A 103:18521-7. 2006
    ..Our analysis generalizes, simplifies, and extends results from previous discussions of the ML Procrustes problem. An iterative algorithm is presented for the simultaneous, numerical determination of the ML solutions...
  6. pmc Divergent evolution within protein superfolds inferred from profile-based phylogenetics
    Douglas L Theobald
    Department of Chemistry and Biochemistry, UCB 215, University of Colorado, Boulder, CO 80309 0215, USA
    J Mol Biol 354:722-37. 2005
    ..This method extends phylogenetics into the challenging "twilight zone" of sequence similarity, providing the first objective resolution of deep evolutionary relationships among distant protein families...
  7. ncbi request reprint Prediction of multiple tandem OB-fold domains in telomere end-binding proteins Pot1 and Cdc13
    Douglas L Theobald
    Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309, USA
    Structure 12:1877-9. 2004
    ..This common usage of multiple, tandem OB-fold domains in telomeric end binding proteins extends the known evolutionary conservation of eukaryotic end-protection mechanisms...
  8. pmc Accurate structural correlations from maximum likelihood superpositions
    Douglas L Theobald
    Department of Biochemistry, Brandeis University, Waltham, Massachusetts, USA
    PLoS Comput Biol 4:e43. 2008
    ....
  9. ncbi request reprint Homology among telomeric end-protection proteins
    Douglas L Theobald
    Structure 11:1049-50. 2003
    ..Here we report support from sequence profile analyses for a significant and specific evolutionary relationship among OB-fold telomeric end-protection factors...