D S Goodsell

Summary

Affiliation: The Scripps Research Institute
Country: USA

Publications

  1. ncbi Atomic evidence: the foundations of structural molecular biology
    David S Goodsell
    Scripps Research Institute, La Jolla, CA, USA
    Sci Prog 94:414-30. 2011
  2. ncbi The molecular perspective: morphine
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 9:717-8. 2004
  3. doi Visualising microorganisms from molecules to cells
    David S Goodsell
    Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA
    FEMS Microbiol Lett 356:1-7. 2014
  4. doi Illustrating the machinery of life: viruses
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
    Biochem Mol Biol Educ 40:291-6. 2012
  5. pmc Putting proteins in context: Scientific illustrations bring together information from diverse sources to provide an integrative view of the molecular biology of cells
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    Bioessays 34:718-20. 2012
  6. ncbi Recognition in action: flipping pyrimidine dimers
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    J Mol Recognit 18:193-5. 2005
  7. ncbi The molecular perspective: double-stranded DNA breaks
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 23:1021-2. 2005
  8. ncbi The molecular perspective: RAD51 and BRCA2
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Oncologist 10:555-6. 2005
  9. ncbi Recognition in action: DNA mimicry
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    J Mol Recognit 18:427-30. 2005
  10. ncbi The molecular perspective: RAD51 and BRCA2
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Stem Cells 23:1434-5. 2005

Collaborators

Detail Information

Publications78

  1. ncbi Atomic evidence: the foundations of structural molecular biology
    David S Goodsell
    Scripps Research Institute, La Jolla, CA, USA
    Sci Prog 94:414-30. 2011
    ..These experimental data are freely available in online structural databases...
  2. ncbi The molecular perspective: morphine
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 9:717-8. 2004
  3. doi Visualising microorganisms from molecules to cells
    David S Goodsell
    Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA
    FEMS Microbiol Lett 356:1-7. 2014
    ..10 images from FEMS articles have been selected to show the diversity of visualisation used in microbiology. ..
  4. doi Illustrating the machinery of life: viruses
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
    Biochem Mol Biol Educ 40:291-6. 2012
    ..This report describes the scientific data and artistic methods used to create three illustrations: a depiction of the poliovirus lifecycle, budding of influenza virus from a cell surface, and a mature HIV particle in blood serum...
  5. pmc Putting proteins in context: Scientific illustrations bring together information from diverse sources to provide an integrative view of the molecular biology of cells
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    Bioessays 34:718-20. 2012
    ..Scientific illustrations, such as this cross-section through part of an E. coli cell, can give an impression of the complexity of a cell's interior and of the way its macromolecules are arranged...
  6. ncbi Recognition in action: flipping pyrimidine dimers
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    J Mol Recognit 18:193-5. 2005
    ..DNA bases are normally sheltered within a double helix, but enzymes that modify and repair DNA gain access by flipping individual bases out of the double helix...
  7. ncbi The molecular perspective: double-stranded DNA breaks
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 23:1021-2. 2005
  8. ncbi The molecular perspective: RAD51 and BRCA2
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Oncologist 10:555-6. 2005
  9. ncbi Recognition in action: DNA mimicry
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    J Mol Recognit 18:427-30. 2005
    ..These DNA mimics bind to DNA-binding proteins, taking the place of DNA. Natural DNA mimics play roles in genetic regulation and defense...
  10. ncbi The molecular perspective: RAD51 and BRCA2
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Stem Cells 23:1434-5. 2005
  11. ncbi The molecular perspective: double-stranded DNA breaks
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 10:361-2. 2005
  12. ncbi The molecular perspective: l-asparaginase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 23:710-1. 2005
  13. ncbi The molecular perspective: L-asparaginase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 10:238-9. 2005
  14. ncbi Visual methods from atoms to cells
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California 92037, USA
    Structure 13:347-54. 2005
    ..Molecular properties, such as electrostatics, and large complex molecular and cellular systems currently pose challenges for representation...
  15. ncbi The molecular perspective: major histocompatibility complex
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 23:454-5. 2005
  16. ncbi The molecular perspective: major histocompatibility complex
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 10:80-1. 2005
  17. ncbi The molecular perspective: morphine
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 23:144-5. 2005
  18. ncbi The molecular perspective: DNA polymerase
    David S Goodsell
    The Scripps Research instityte, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 22:236-7. 2004
  19. ncbi The molecular perspective: cyclins
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 22:1121-2. 2004
  20. ncbi The molecular perspective: c-Abl tyrosine kinase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, CA 92037, USA
    Oncologist 10:758-9. 2005
  21. ncbi The molecular perspective: tumor necrosis factor
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 11:83-4. 2006
  22. doi Mitochondrion
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California
    Biochem Mol Biol Educ 38:134-40. 2010
    ..Results from biochemistry, electron microscopy, and X-ray crystallography were used to create the image...
  23. doi Escherichia coli
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California
    Biochem Mol Biol Educ 37:325-32. 2009
    ..The image magnifies a portion of the bacterium at one million times, showing the location and form of individual macromolecules. Results from biochemistry, electron microscopy, and X-ray crystallography were used to create the image...
  24. doi Neuromuscular synapse
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California
    Biochem Mol Biol Educ 37:204-10. 2009
    ..The image magnifies a portion of the synapse at one million times, showing the location and the form of individual macromolecules. Results from biochemistry, electron microscopy, and X-ray crystallography were used to create the image...
  25. doi Miniseries: Illustrating the machinery of life: Eukaryotic cell panorama
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92102, USA
    Biochem Mol Biol Educ 39:91-101. 2011
    ..Results from biochemistry, electron microscopy, NMR spectroscopy and x-ray crystallography were used to create the image...
  26. pmc Artophagy: the art of autophagy--the Cvt pathway
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA, USA
    Autophagy 6:3-6. 2010
    ....
  27. ncbi The molecular perspective: tissue factor
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 11:849-50. 2006
  28. pmc Filling in the gaps: artistic license in education and outreach
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California, United States of America
    PLoS Biol 5:e308. 2007
  29. ncbi Making the step from chemistry to biology and back
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Nat Chem Biol 3:681-4. 2007
  30. ncbi The molecular perspective: hepatitis B virus
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 12:516-7. 2007
  31. ncbi The molecular perspective: alcohol
    David S Goodsell
    Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 11:1045-6. 2006
  32. ncbi Recognition highlights: Toll-like receptors
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
    J Mol Recognit 19:387-8. 2006
    ..As part of our first line of defense against invading organisms, Toll-like receptors recognize bacterial and viral molecules, and launch an inflammatory response...
  33. ncbi The molecular perspective: estrogen sulfotransferase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 11:418-9. 2006
  34. ncbi The molecular perspective: Cisplatin
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 24:514-5. 2006
  35. ncbi The molecular perspective: cisplatin
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 11:316-7. 2006
  36. ncbi The molecular perspective: c-Abl tyrosine kinase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Stem Cells 24:209-10. 2006
  37. ncbi The molecular perspective: cyclins
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 9:592-3. 2004
  38. ncbi The molecular perspective: VEGF and angiogenesis
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Oncologist 7:569-70. 2002
  39. ncbi The molecular perspective: cadherin
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California 92037, USA
    Stem Cells 20:583-4. 2002
  40. ncbi The molecular perspective: cadherin
    David S Goodsell
    Oncologist 7:467-8. 2002
  41. ncbi The molecular perspective: DNA topoisomerases
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 20:470-1. 2002
  42. ncbi The molecular perspective: DNA topoisomerases
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, CA 92037, USA
    Oncologist 7:381-2. 2002
  43. ncbi The molecular perspective: Bcl-2 and apoptosis
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 20:355-6. 2002
  44. ncbi The molecular perspective: Bcl-2 and apoptosis
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 7:259-60. 2002
  45. ncbi The molecular perspective: tamoxifen and the estrogen receptor
    David S Goodsell
    Stem Cells 20:267-8. 2002
  46. ncbi The molecular perspective: tamoxifen and the estrogen receptor
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 7:163-4. 2002
  47. ncbi The molecular perspective: restriction endonucleases
    David S Goodsell
    Department of Molecular Biology, Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Stem Cells 20:190-1. 2002
  48. ncbi The molecular perspective: restriction endonucleases
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 7:82-3. 2002
  49. ncbi The molecular perspective: antibodies
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 20:94-5. 2002
  50. ncbi Sequence recognition of DNA by lexitropsins
    D S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
    Curr Med Chem 8:509-16. 2001
    ..Theoretical studies have explored the effectiveness of lexitropsins in targeting a given sequence within a genome, and have been used to analyze and improve lexitropsin design...
  51. ncbi Structural symmetry and protein function
    D S Goodsell
    Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92037, USA
    Annu Rev Biophys Biomol Struct 29:105-53. 2000
    ..However, examples have been found for all of the crystallographic point groups, demonstrating that functional need can drive the evolution of any symmetry...
  52. ncbi The molecular perspective: VEGF and angiogenesis
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 21:118-9. 2003
  53. ncbi The molecular perspective: ubiquitin and the proteosome
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 8:293-4. 2003
  54. ncbi The molecular perspective: ubiquitin and the proteosome
    David S Goodsell
    Stem Cells 21:509-10. 2003
  55. ncbi The molecular perspective: polycyclic aromatic hydrocarbons
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 22:873-4. 2004
  56. ncbi The molecular perspective: nicotine and nitrosamines
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Stem Cells 22:645-6. 2004
  57. ncbi The molecular perspective: polycyclic aromatic hydrocarbons
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Oncologist 9:469-70. 2004
  58. ncbi The molecular perspective: nicotine and nitrosamines
    David S Goodsell
    Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 9:353-4. 2004
  59. ncbi The molecular perspective: Cytochrome C and apoptosis
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 22:428-9. 2004
  60. ncbi The molecular perspective: cytochrome C and apoptosis
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 9:226-7. 2004
  61. ncbi The molecular perspective: DNA polymerase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 9:108-9. 2004
  62. ncbi The molecular perspective: protein farnesyltransferase
    David S Goodsell
    Scripps Research Institute, Department of Molecular Biology, La Jolla, California, USA
    Oncologist 8:597-8. 2003
  63. ncbi The molecular perspective: histone deacetylase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Stem Cells 21:620-1. 2003
  64. ncbi The molecular perspective: epidermal growth factor
    David S Goodsell
    Scripps Research Institute, Department of Molecular Biology, La Jolla, California 92037, USA
    Oncologist 8:496-7. 2003
  65. ncbi The molecular perspective: epidermal growth factor
    David S Goodsell
    Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92037, USA
    Stem Cells 21:702-3. 2003
  66. ncbi The molecular perspective: protein farnesyltransferase
    David S Goodsell
    The Scripps Research Institute, Department of Molecular Biology, La Jolla, CA 92037, USA
    Stem Cells 22:119-20. 2004
  67. ncbi Looking at molecules-an essay on art and science
    David S Goodsell
    Department of Molecular Biology, The Scripps Research Institute, 10550 N Torrey Pines Road, La Jolla, CA 92102, USA
    Chembiochem 4:1293-8. 2003
  68. ncbi A semiempirical free energy force field with charge-based desolvation
    Ruth Huey
    Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92102, USA
    J Comput Chem 28:1145-52. 2007
    ..The force field shows improvement in redocking simulations over the previous AutoDock3 force field...
  69. ncbi Computational coevolution of antiviral drug resistance
    C D Rosin
    Scripps Research Institute, La Jolla, CA 92037, USA
    Artif Life 4:41-59. 1998
    ..We use this method to characterize general features of inhibitors that are effective in overcoming resistance, and to study related issues of selection pathways, cross-resistance, and combination therapies...
  70. pmc Structure-based virtual screening and biological evaluation of Mycobacterium tuberculosis adenosine 5'-phosphosulfate reductase inhibitors
    Sandro Cosconati
    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    J Med Chem 51:6627-30. 2008
    ..Common chemical features lay the foundation for the development of agents that could shorten the duration of chemotherapy by targeting the latent stage of TB infection...
  71. ncbi Automated prediction of ligand-binding sites in proteins
    Rodney Harris
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California 92037, USA
    Proteins 70:1506-17. 2008
    ..Additional testing was performed on a set of 96 protein-ligand complexes with crystallographic structures of apo and holo forms, and AutoLigand was able to predict the binding site in 80% of the apo structures...
  72. ncbi Automated docking of ligands to an artificial active site: augmenting crystallographic analysis with computer modeling
    Robin J Rosenfeld
    The Department of Molecular Biology and The Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 N Torrey Pines Rd, La Jolla, CA 92037, USA
    J Comput Aided Mol Des 17:525-36. 2003
    ..In summary, AutoDock 3.0 appears to be useful in predicting key structural and energetic features of ligand binding in the W191G cavity...
  73. ncbi Recognition templates for predicting adenylate-binding sites in proteins
    S Zhao
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
    J Mol Biol 314:1245-55. 2001
    ..We demonstrate the utility of recognition templates in identifying specific adenylate-binding sites in a diverse set of dinucleotide-binding proteins...
  74. doi Representing structural information with RasMol
    David S Goodsell
    The Scripps Research Institute, La Jolla, California, USA
    Curr Protoc Bioinformatics . 2005
    ....
  75. ncbi Morphology of protein-protein interfaces
    T A Larsen
    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Structure 6:421-7. 1998
    ....
  76. ncbi Analysis of a data set of paired uncomplexed protein structures: new metrics for side-chain flexibility and model evaluation
    S Zhao
    Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92037, USA
    Proteins 43:271-9. 2001
    ..We compare the performance of a simple 40 degrees threshold with these quantitative confidence levels in a critical evaluation of side-chain prediction with the program SCWRL...
  77. ncbi Evolutionary analysis of HIV-1 protease inhibitors: Methods for design of inhibitors that evade resistance
    Daniel Stoffler
    Department of Molecular Biology, The Scripps Research Institute, La Jolla, California
    Proteins 48:63-74. 2002
    ..Finally, we evaluate the resistance patterns of commercially available drugs, and we discuss how resistance might be overcome by optimizing the size of specific side-chains of these inhibitors...
  78. pmc Empirical entropic contributions in computational docking: evaluation in APS reductase complexes
    Max W Chang
    Bioinformatics Program, University of California at San Diego, La Jolla, California 92093, USA
    J Comput Chem 29:1753-61. 2008
    ..The simple cluster size method shows the best performance, improving the identification of correct conformations in multiple docking experiments...