Ethan Merritt

Summary

Affiliation: University of Washington
Country: USA

Publications

  1. pmc To B or not to B: a question of resolution?
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 68:468-77. 2012
  2. pmc Some B(eq) are more equivalent than others
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr A 67:512-6. 2011
  3. pmc Crystal structures of three protozoan homologs of tryptophanyl-tRNA synthetase
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    Mol Biochem Parasitol 177:20-8. 2011
  4. pmc Crystal structures of trypanosomal histidyl-tRNA synthetase illuminate differences between eukaryotic and prokaryotic homologs
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    J Mol Biol 397:481-94. 2010
  5. pmc Crystal structure of the aspartyl-tRNA synthetase from Entamoeba histolytica
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Mailstop 357742, Seattle, WA 98195, USA
    Mol Biochem Parasitol 169:95-100. 2010
  6. pmc Structure of a Trypanosoma brucei alpha/beta-hydrolase fold protein with unknown function
    Ethan A Merritt
    Structural Genomics of Pathogenic Protozoa SGPP Consortium, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 64:474-8. 2008
  7. ncbi request reprint The 1.25 A resolution refinement of the cholera toxin B-pentamer: evidence of peptide backbone strain at the receptor-binding site
    E A Merritt
    Department of Biological Structure, Biomolecular Structure Center, University of Washington, Seattle, WA, 98195 7742, USA
    J Mol Biol 282:1043-59. 1998
  8. ncbi request reprint Expanding the model: anisotropic displacement parameters in protein structure refinement
    E A Merritt
    Department of Biological Structure, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 55:1109-17. 1999
  9. ncbi request reprint Comparing anisotropic displacement parameters in protein structures
    E A Merritt
    Department of Biological Structure and Biomolecular Structure Center, University of Washington, Seattle WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 55:1997-2004. 1999
  10. pmc The crystal structure and activity of a putative trypanosomal nucleoside phosphorylase reveal it to be a homodimeric uridine phosphorylase
    Eric T Larson
    Medical Structural Genomics of Pathogenic Protozoa Consortium, University of Washington, Seattle, WA 98195, USA
    J Mol Biol 396:1244-59. 2010

Research Grants

Collaborators

Detail Information

Publications35

  1. pmc To B or not to B: a question of resolution?
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 68:468-77. 2012
    ....
  2. pmc Some B(eq) are more equivalent than others
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr A 67:512-6. 2011
    ..In particular, it may lead to improved selection of multi-group TLS models based on analysis of an initial isotropic refinement...
  3. pmc Crystal structures of three protozoan homologs of tryptophanyl-tRNA synthetase
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    Mol Biochem Parasitol 177:20-8. 2011
    ..Together with a previously reported structure of an unusual TrpRS from Giardia, these protozoan structures broaden our perspective on the extent of structural variation found in eukaryotic TrpRS homologs...
  4. pmc Crystal structures of trypanosomal histidyl-tRNA synthetase illuminate differences between eukaryotic and prokaryotic homologs
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    J Mol Biol 397:481-94. 2010
    ..The essentiality of the single HisRS gene in T. brucei is shown by a severe depression of parasite growth rate that results from even partial suppression of expression by RNA interference...
  5. pmc Crystal structure of the aspartyl-tRNA synthetase from Entamoeba histolytica
    Ethan A Merritt
    Department of Biochemistry, University of Washington, Mailstop 357742, Seattle, WA 98195, USA
    Mol Biochem Parasitol 169:95-100. 2010
    ..The E. histolytica AspRS structure shows a well-ordered N-terminus that contributes to the AspRS dimer interface...
  6. pmc Structure of a Trypanosoma brucei alpha/beta-hydrolase fold protein with unknown function
    Ethan A Merritt
    Structural Genomics of Pathogenic Protozoa SGPP Consortium, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 64:474-8. 2008
    ..Together with the presence of an additional domain between strands beta6 and beta7 that is conserved in trypanosomatid genomes, this suggests that the function of these homologs has diverged from other members of the fold family...
  7. ncbi request reprint The 1.25 A resolution refinement of the cholera toxin B-pentamer: evidence of peptide backbone strain at the receptor-binding site
    E A Merritt
    Department of Biological Structure, Biomolecular Structure Center, University of Washington, Seattle, WA, 98195 7742, USA
    J Mol Biol 282:1043-59. 1998
    ....
  8. ncbi request reprint Expanding the model: anisotropic displacement parameters in protein structure refinement
    E A Merritt
    Department of Biological Structure, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 55:1109-17. 1999
    ..A more complete understanding of this distribution may also allow the development of improved protein structural models, even at lower resolution...
  9. ncbi request reprint Comparing anisotropic displacement parameters in protein structures
    E A Merritt
    Department of Biological Structure and Biomolecular Structure Center, University of Washington, Seattle WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 55:1997-2004. 1999
    ..This measure is used to investigate the degree of similarity between chemically equivalent but crystallographically independent atoms in the set of protein structural models currently available from the Protein Data Bank...
  10. pmc The crystal structure and activity of a putative trypanosomal nucleoside phosphorylase reveal it to be a homodimeric uridine phosphorylase
    Eric T Larson
    Medical Structural Genomics of Pathogenic Protozoa Consortium, University of Washington, Seattle, WA 98195, USA
    J Mol Biol 396:1244-59. 2010
    ..We suggest that this recognizable feature may aid in proper annotation of the substrate specificity of enzymes in the NP family...
  11. pmc Characterization of Trypanosoma brucei dihydroorotate dehydrogenase as a possible drug target; structural, kinetic and RNAi studies
    Tracy L Arakaki
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    Mol Microbiol 68:37-50. 2008
    ..brucei enzyme, which is reported here at a resolution of 1.95 A. Additional research, guided by the crystal structure described herein, is needed to identify potent inhibitors of T. brucei DHODH...
  12. pmc Crystal structures and proposed structural/functional classification of three protozoan proteins from the isochorismatase superfamily
    Jonathan Caruthers
    Biomolecular Structure Center M S 357742, University of Washington, Seattle, WA 98195, USA
    Protein Sci 14:2887-94. 2005
    ..The characterization of the active site is supported crystallographically by the presence of an unidentified ligand bound at the active site cysteine of the T. cruzi structure...
  13. ncbi request reprint Crystal structure of glyceraldehyde-3-phosphate dehydrogenase from Plasmodium falciparum at 2.25 A resolution reveals intriguing extra electron density in the active site
    Mark A Robien
    Structural Genomics of Pathogenic Protozoa SGPP, Department of Biochemistry, University of Washington, Seattle 98195, USA
    Proteins 62:570-7. 2006
    ..This putative AEBSF molecule is positioned in a crucial location and hence our structure, with expected and unexpected ligands bound, can be of assistance in lead development and design of novel antimalarials...
  14. ncbi request reprint Combating infectious diseases through multivalent design
    Erkang Fan
    Biomolecular Structure Center, Departments of Biochemistry and Biological Structure, Box 357742, University of Washington, Seattle, WA 98195, USA
    Curr Drug Targets Infect Disord 2:161-7. 2002
    ..We review here recent work on multivalent ligand design based on a number of different chemical scaffolds, with a specific emphasis on the use of structure-based ligand design to target multimeric bacterial toxins...
  15. pmc Fragment-based cocktail crystallography by the medical structural genomics of pathogenic protozoa consortium
    Christophe L M J Verlinde
    Medical Structural Genomics of Pathogenic Protozoa, University of Washington, Seattle, WA 98195, USA
    Curr Top Med Chem 9:1678-87. 2009
    ..Details of the fragment selection and cocktail design procedures, as well as examples of the successes obtained are given. The BMSC Fragment Cocktail recipes are available free of charge and are in use in over 20 academic labs...
  16. pmc Structures of substrate- and inhibitor-bound adenosine deaminase from a human malaria parasite show a dramatic conformational change and shed light on drug selectivity
    Eric T Larson
    Medical Structural Genomics of Pathogenic Protozoa Consortium, University of Washington, Seattle, WA 98195 7742, USA
    J Mol Biol 381:975-88. 2008
    ..Further, these complexes illuminate the structural basis for the differential substrate specificity and potential drug selectivity between mammalian and parasite enzymes...
  17. pmc Toxoplasma gondii cathepsin L is the primary target of the invasion-inhibitory compound morpholinurea-leucyl-homophenyl-vinyl sulfone phenyl
    Eric T Larson
    Medical Structural Genomics of Pathogenic Protozoa Consortium, University of Washington, Seattle, Washington 98195 7742, USA
    J Biol Chem 284:26839-50. 2009
    ..0 A resolution crystal structure of TgCPL in complex with its propeptide. We discuss possible roles for TgCPL as a protease involved in the degradation or limited proteolysis of parasite proteins involved in invasion...
  18. ncbi request reprint Solution and crystallographic studies of branched multivalent ligands that inhibit the receptor-binding of cholera toxin
    Zhongsheng Zhang
    Biomolecular Structure Center and Department of Biochemistry, University of Washington, Seattle, Washington 98195, USA
    J Am Chem Soc 124:12991-8. 2002
    ..These results reiterate the power of the structure-based design of multivalent protein ligands as a general strategy for achieving high affinity and potent inhibition...
  19. ncbi request reprint Using fragment cocktail crystallography to assist inhibitor design of Trypanosoma brucei nucleoside 2-deoxyribosyltransferase
    Jürgen Bosch
    Department of Biochemistry, Division of Infectious Disease, and Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195, USA
    J Med Chem 49:5939-46. 2006
    ....
  20. pmc Atomic resolution studies of carbonic anhydrase II
    Craig A Behnke
    Department of Biochemistry, University of Washington, Box 357430, Seattle, WA 98195 7430, USA
    Acta Crystallogr D Biol Crystallogr 66:616-27. 2010
    ..These findings suggest that care must be taken in interpreting structural details on protein surfaces on the basis of individual X-ray structures, even if atomic resolution data are available...
  21. ncbi request reprint Anchor-based design of improved cholera toxin and E. coli heat-labile enterotoxin receptor binding antagonists that display multiple binding modes
    Jason C Pickens
    Department of Biological Structure, Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA
    Chem Biol 9:215-24. 2002
    ..The observed binding interactions can be exploited in the design of improved toxin binding inhibitors...
  22. ncbi request reprint Characterization and crystal structure of a high-affinity pentavalent receptor-binding inhibitor for cholera toxin and E. coli heat-labile enterotoxin
    Ethan A Merritt
    Department of Biochemistry and Biological Structure, University of Washington, Box 357742, Seattle, Washington 98195, USA
    J Am Chem Soc 124:8818-24. 2002
    ....
  23. pmc Toxoplasma gondii calcium-dependent protein kinase 1 is a target for selective kinase inhibitors
    Kayode K Ojo
    Division of Allergy and Infectious Diseases, Department of Medicine, University of Washington, Seattle, Washington, USA
    Nat Struct Mol Biol 17:602-7. 2010
    ..gondii expressing a glycine to methionine gatekeeper mutant enzyme show significantly decreased sensitivity to BKIs. Thus, design of selective TgCDPK1 inhibitors with low host toxicity may be achievable...
  24. pmc High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design
    Gautam Dantas
    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
    J Mol Biol 366:1209-21. 2007
    ....
  25. doi request reprint Structural genomics of pathogenic protozoa: an overview
    Erkang Fan
    Department of Biochemistry, University of Washington, Seattle, WA, USA
    Methods Mol Biol 426:497-513. 2008
    ..Fragment cocktail crystallography" for medical structural genomics is also described...
  26. pmc Cooperative hydrogen bond interactions in the streptavidin-biotin system
    David E Hyre
    Box 351721, Department of Bioengineering, University of Washington, Seattle, WA 98195 1721, USA
    Protein Sci 15:459-67. 2006
    ..Taken together, the thermodynamic and structural analyses support the conclusion that the wild-type hydrogen bond between D128-OD and biotin-N2 is thermodynamically stronger than that between S45-OG and biotin-N1...
  27. ncbi request reprint Structural biology and structure-based inhibitor design of cholera toxin and heat-labile enterotoxin
    Erkang Fan
    Department of Biochemistry, Biomolecular Structure Center, University of Washington, Box 357742, Seattle WA 98195, USA
    Int J Med Microbiol 294:217-23. 2004
    ..At the same time, structure-based design has led to various classes of compounds targeting different toxin sites, including highly potent multivalent inhibitors that block the toxin receptor-binding process...
  28. pmc Structure of Lmaj006129AAA, a hypothetical protein from Leishmania major
    Tracy Arakaki
    Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:175-9. 2006
    ..185 (Rfree = 0.229) at 1.60 A resolution. Structure and sequence comparisons based on Lmaj006129AAA suggest that proteins belonging to Pfam sequence families PF04543 and PF01878 may share a common ligand-binding motif...
  29. ncbi request reprint Optimal description of a protein structure in terms of multiple groups undergoing TLS motion
    Jay Painter
    Biomolecular Structure Center, Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 62:439-50. 2006
    ..The models generated by TLSMD analysis can significantly improve the standard crystallographic residuals R and R(free) and can reveal intrinsic dynamic properties of the protein...
  30. pmc Validation of crystallographic models containing TLS or other descriptions of anisotropy
    Frank Zucker
    Biomolecular Structure Center, Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 66:889-900. 2010
    ..Automated validation checks have been added to the PARVATI and TLSMD web servers and incorporated into the CCP4i user interface...
  31. ncbi request reprint A molecular viewer for the analysis of TLS rigid-body motion in macromolecules
    Jay Painter
    Biomolecular Structure Center, Department of Biochemistry, University of Washington, Seattle, WA 98195 7742, USA
    Acta Crystallogr D Biol Crystallogr 61:465-71. 2005
    ..TLSView may also be used to prepare, analyze and validate TLS models for crystallographic refinement...
  32. pmc The structure of Plasmodium vivax phosphatidylethanolamine-binding protein suggests a functional motif containing a left-handed helix
    Tracy Arakaki
    Structural Genomics of Pathogenic Protozoa Consortium, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 63:178-82. 2007
    ..Re-examination of previously determined PEBP structures suggests that the P. vivax protein and yeast carboxypeptidase Y inhibitor may represent a structurally distinct subfamily of the diverse PEBP-sequence family...
  33. pmc Structure of the conserved hypothetical protein MAL13P1.257 from Plasmodium falciparum
    Margaret A Holmes
    Structural Genomics of Pathogenic Protozoa Consortium, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:180-5. 2006
    ..The packing of the two monomers in the asymmetric unit indicates that the biological unit may be a dimer...
  34. pmc Structure of ribose 5-phosphate isomerase from Plasmodium falciparum
    Margaret A Holmes
    Structural Genomics of Pathogenic Protozoa SGPP Consortium, USA
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:427-31. 2006
    ..The P. falciparum enzyme belongs to the ribose 5-phosphate isomerase A family, Pfam family PF06562 (DUF1124), and is structurally similar to other members of the family...

Research Grants2

  1. Software tools for analysis and visulaization of protein structure
    Ethan A Merritt; Fiscal Year: 2010
    ..The algorithms and computation tools developed as part of this work will be distributed freely, and we will provide web-based state of the art analysis of structures submitted by external researchers. ..
  2. EXPANDED PROTEIN STRUCTURE REFINEMENT AND VALIDATION
    Ethan Merritt; Fiscal Year: 2005
    ..This, in turn, will make it easier to identify key biological features such as the presence and conformation of bound ligands, and the nature of hinge and inter-domain motions. ..