Keck MS & Proteomics Resource Publications

1990-1999

96. Stone, K. Fernandez, J., Admon, A. Henzel, W. Lane, W. Rohde, M. and Steinke, L. (1999) ABRF-97 SEQ: Sequencing Results of a Low-Level Sample. Journal of Biomolecular Techniques, 10 (1), 26-32.

95. Mische, S., Hellman, U., Speicher, D., and Williams, K. (1999) Internal Protein Sequencing, in Encyclopedia of Bioprocess Technology (Flickinger, M. C., and Drew, S. W. ed), John Wiley & Sons, 2099-2103.

94. Gordon, J., Sengupta, T. K., Phillips, C. A., O'Malley, S. M., Williams, K. R., and Spicer, E. K. (1999) Identification of the RNA binding domain of T4 RegA protein by structure-based mutagenesis. J. Biol. Chem. 274, 32265-32273.

93. Stone, K. L., DeAngelis, R., LoPresti, M., Jones, J., Papov, V. V., and Williams, K. R. (1998) Use of liquid chromatography-electrospray ionization-tandem mass spectrometry (LC-ESI-MS/MS) for routine identification of enzymatically digested proteins separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Electrophoresis 19, 1046-1052.

92. Kim, S., Park, G. H., Joo, W. A., Paik, W. K., Cook, R. J., and Williams, K. R. (1998) Identification of protein-arginine N-methyltransferase as 10-formyltetrahydrofolate dehydrogenase. J. Biol. Chem. 273, 27374-27382.

91. Williams, K. R., and Stone, K. L. (1997) Enzymatic cleavage and HPLC peptide mapping of proteins. Mol Biotechnol 8, 155-167.

90. Williams, K. R., LoPresti, M., and Stone, K. (1997) Internal protein sequencing of SDS-PAGE-separated proteins: Optimization of an in gel digest protocol, in Techniques in Protein Chemistry VIII (Marshak, D. ed), Academic Press, San Diego, 79-90.

89. Williams, K., Hellman, U., Kobayashi, R., Lane, W., Mische, S., and Speicher, D. (1997) Internal protein sequencing of SDS-PAGE separated proteins: A collaborative ABRF study. In Techniques in Protein Chemistry VIII, (Marshak, D. ed), Academic Press, San Diego, 99-109.

88. Kim, S., Merrill, B. M., Rajpurohit, R., Kumar, A., Stone, K. L., Papov, V. V., Schneiders, J. M., Szer, W., Wilson, S. H., Paik, W. K., and Williams, K. R. (1997) Identification of N(G)-methylarginine residues in human heterogeneous RNP protein A1: Phe/Gly-Gly-Gly-Arg-Gly-Gly-Gly/Phe is a preferred recognition motif. Biochemistry 36, 5185-5192.

87. Fernandez, J., Admon, A., DeJongh, K. Grant, G. Henzel, W. Lane, W.S., Stone, K.L., and Merrill, B. (1997) Evaluation of ABRF-96SEQ: A sequence Assignment Exercise. In: Techniques in Protein Chemistry VIII (Marshak, D.R. ed.) Academic Press, Orlando, 69-78.

86. Williams, K. R., Samandar, S. M., Stone, K. L., Saylor, M., and Rush, J. (1996) Matrix assisted-laser desorption ionization mass spectrometry as a complement to internal protein sequencing., in The Protein Protocols Handbook (Walker, J. M. ed), Humana Press, Totowa, 541-555.

85. Stone, K. L., and Williams, K. R. (1996) Reverse phase HPLC separation of enzymatic digests of proteins, in The Protein Protocols Handbook (Walker, J. M. ed), Humana Press, Totowa, 427-434.

84. Stone, K. L., and Williams, K. R. (1996) Enzymatic digestion of proteins in solution and in SDS polyacrylamide gels, in The Protein Protocols Handbook, (Walker, J. M. ed), Humana Press, Totowa, 415-425.

83. McAtee, C. P., Zhang, Y., Yarbough, P. O., Fuerst, T. R., Stone, K. L., Samander, S., and Williams, K. R. (1996) Purification and characterization of a recombinant hepatitis E protein vaccine candidate by liquid chromatography-mass spectrometry. J. Chromatogr. B Biomed Appl 685, 91-104.

82. DeJongh, K., Fernandez, J., Gambee, J.E., Grant, G.A., Merrill,B., Stone, K.L. and Rush, J. (1996) Design and Analysis of ABRF-95SEQ, a Recombinant Protein With Sequence Heterogeneity. In: Techniques in Protein Chemistry VII (Marshak, D.R. ed.) Academic Press, Orlando, 347-358.

81. Williams, K. R., and Stone, K. L. (1995) In gel digestion of SDS PAGE-separated proteins: Observations from internal sequencing of 25 proteins, in Techniques in Protein Chemistry VI (Crabb, J. W. ed), Academic Press, Orlando, 143-152.

80. Williams, K. R., and Stone, K. L. (1995) Identifying sites of posttranslational modifications in proteins via HPLC peptide mapping. Methods Mol. Biol. 40, 157-175.

79. Williams, K. R., and Carr, S. A. (1995) Protein analysis: Integrated sample preparation, chemistry, and mass spectrometry, in Encyclopedia of Molecular Biology and Biotechnology, (Meyers, R. A. ed), VCH Publishers, New York, 731-737.

78. Stone, K. L., and Williams, K. R. (1995) Digestion of proteins in gels for sequence analysis, in Current Protocols in Protein Science, (Colligan, J., Smith, J., Ploegh, H., Speicher, D., and Wingfield, P. ed), John Wiley & Sons, New York, 11.3.1-11.3.13.

77. Rawal, N., Rajpurohit, R., Lischwe, M. A., Williams, K. R., Paik, W. K., and Kim, S. (1995) Structural specificity of substrate for S-adenosylmethionine:protein arginine N-methyltransferases. Biochim. Biophys. Acta 1248, 11-18.

76.

Williams, K.R. and Stone, K.L. (1994) Identifying sites of posttranslational modifications in proteins via HPLC peptide mapping in

Methods in Molecular Biology: Protein Stability and Folding Protocols. (Shirley, B.A., ed.) Humana Press, Totowa, N.J. Vol. 40, pp. 157-175.

75. Williams, K. R., Shamoo, Y., Spicer, E. K., Coleman, J. E., and Konigsberg, W. H. (1994) Correlating structure to function in proteins: T4 gp32 as a prototype, in Bacteriophage T4, (Karam, J. ed), American Society of Microbiology, Washington, D.C., 301-304.

74. Reich, E. P., von Grafenstein, H., Barlow, A., Swenson, K. E., Williams, K., and Janeway, C. A., Jr. (1994) Self peptides isolated from MHC glycoproteins of non-obese diabetic mice. J Immunol 152, 2279-2288.

73. Stone, K. L., and Williams, K. R. (1993) Enzymatic digestion of proteins and HPLC peptide isolation, in A Practical Guide to Protein and Peptide Purification for Microsequencing, (Matsudaira, P. ed), 2nd ed., Academic Press, New York, 43-69.

72. Elliott, J. I., Stone, K. L., and Williams, K. R. (1993) Synthesis and use of an internal amino acid sequencing standard peptide. Anal Biochem 211, 94-101.

71. Chaudhuri, A., Polyakova, J., Zbrzezna, V., Williams, K., Gulati, S., and Pogo, A. O. (1993) Cloning of glycoprotein D cDNA, which encodes the major subunit of the Duffy blood group system and the receptor for the Plasmodium vivax malaria parasite. Proc. Natl. Acad. Sci. U. S. A. 90, 10793-10797, (PMCID: PMC 47864).

70. Webster, K. R., Keill, S., Konigsberg, W., Williams, K. R., and Spicer, E. K. (1992) Identification of amino acid residues at the interface of a bacteriophage T4 regA protein-nucleic acid complex. J. Biol. Chem. 267, 26097-26103.

69. Stone, K. L., McNulty, D. E., LoPresti, M. L., Crawford, J. M., DeAngelis, R., and Williams, K. R. (1992) Elution and internal amino acid sequencing of PVDF-blotted proteins, in Techniques in Protein Chemistry III, (Angeletti, R. ed), Academic Press, New York, 23-34.

68. Shuai, K., Das Gupta, C. K., Hawley, R. S., Chase, J. W., Stone, K. L., and Williams, K. R. (1992) Purification and characterization of an endo-exonuclease from adult flies of Drosophila melanogaster. Nucleic Acids Res. 20, 1379-1385, (PMCID: PMC 312186).

67. Yüksel, K. Ü., Grant, G. A., Mende-Mueller, L. M., Niece, R. L., Williams, K. R., and Speicher, D. W. (1991) Protein sequencing from polyvinylidenedifluoride membranes: Design and characterization of a test sample (ABRF-90SEQ) and evaluation of results, in Techniques in Protein Chemistry II, (Villafranca, J. J. ed), Academic Press, New York, 151-162.

66. Williams, K. R., and Konigsberg, W. H. (1991) Identification of amino acid residues at interface of protein-nucleic acid complexes by photochemical cross-linking. Methods Enzymol. 208, 516-539.

65. Stone, K. L., LoPresti, M. B., Crawford, J. M., DeAngelis, R., and Williams, K. R. (1991) Reverse-phase HPLC separation of sub-nanomole amounts of peptides obtained from enzymatic digests., in High Performance Liquid Chromatography of peptides and proteins: Separation, Analysis and Conformation, (Mant, C. T., and Hodges, R. S. ed), CRC Press, Boca Raton, Florida, 669-677.

64. Ruvolo, P. P., Keating, K. M., Williams, K. R., and Chase, J. W. (1991) Single-stranded DNA binding proteins (SSBs) from prokaryotic transmissible plasmids. Proteins 9, 120-134.

63. Niece, R. L., Ericsson, L. H., Fowler, A. V., Smith, A. J., Speicher, D. W., Crabb, J. W., and Williams, K. R. (1991) Amino acid analysis and sequencing - what is state-of-the-art?, (Jornvall, H., Hoog, and Gustavsson ed), Birkhauser Verlag, Basel, 133-141.

62. Williams, K. R., and Chase, J. W. (1990) Eukaryotic single-stranded nucleic acid binding proteins, in The Biology of Nonspecific DNA-Protein Interactions, (Revzin, A. ed), CRC Press, Boca Raton, Florida, 197-227.

61. Stone, K. L., LoPresti, M. B., and Williams, K. R. (1990) Enzymatic digestion of proteins and HPLC peptide isolation in the sub-nanomole range, in Laboratory Methodology in Biochemistry: Amino Acid Analysis and Protein Sequencing, (Fini, C., Floridi, A., Finelli, V. N., and Wittman-Liebold, B. ed), CRC Press, Boca Raton, Florida, 181-205.

60. Stone, K. L., Elliott, J. I., Peterson, G., McMurray, W., and Williams, K. R. (1990) Reversed-phase high-performance liquid chromatography for fractionation of enzymatic digests and chemical cleavage products of proteins. Methods Enzymol. 193, 389-412.

59. Speicher, D. W., Grant, G. A., Niece, R. L., Blacher, R. W., Fowler, A. V., and Williams, K. R. (1990) Design, characterization, and results of ABRF-89SEQ: A test sample for evaluating protein sequencer performance in protein microchemistry core facilities, in Current Research in Protein Chemistry: Techniques, Structure, and Function, (Villafranca, J. J. ed), Academic Press, New York, 159-166.

58. Shamoo, Y., Keating, K., Williams, K. R., and Konigsberg, W. H. (1990) Structure/function relationships in the bacteriophage T4 single-stranded DNA-binding protein, in Molecular Biology of Chromosome Function, (Adolph, K. W. ed), Springer-Verlag, New York, 302-322.

57. Merrill, B. M., and Williams, K. R. (1990) Structure/function relationships in hnRNP proteins, in The Eukaryotic Nucleus: Molecular Biochemistry and Macromolecular Assemblies, (Strauss, P. R., and Wilson, S. H. ed), Telford Press, New Jersey, 579-604.

56. Kumar, A., Widen, S. G., Williams, K. R., Kedar, P., Karpel, R. L., and Wilson, S. H. (1990) Studies of the domain structure of mammalian DNA polymerase beta. Identification of a discrete template binding domain. J. Biol. Chem. 265, 2124-2131.

55. Kumar, A., Casas-Finet, J. R., Luneau, C. J., Karpel, R. L., Merrill, B. M., Williams, K. R., and Wilson, S. H. (1990) Mammalian heterogeneous nuclear ribonucleoprotein A1. Nucleic acid binding properties of the COOH-terminal domain. J. Biol. Chem. 265, 17094-17100.

54. Horiuchi, A., Williams, K. R., Kurihara, T., Nairn, A. C., and Greengard, P. (1990) Purification and cDNA cloning of ARPP-16, a cAMP-regulated phosphoprotein enriched in basal ganglia, and of a related phosphoprotein, ARPP-19. J. Biol. Chem. 265, 9476-9484.

53. Collins, E. J., Robertus, J. D., LoPresti, M., Stone, K. L., Williams, K. R., Wu, P., Hwang, K., and Piatak, M. (1990) Primary amino acid sequence of alpha-trichosanthin and molecular models for abrin A-chain and alpha-trichosanthin. J. Biol. Chem. 265, 8665-8669.