Peptides (version 1.0.4)

pKscales: 9 pKa scales for the side chain of charged amino acids from various sources

Description

9 pKa scales for the side chain of charged amino acids from various sources

Usage

data("pKscales")

format

A data frame with the charged amino-acid, cTerm and nTerm in row and nine sources in column. The rownames are the one-letter code for amino-acids.

source

Table 2 in Kiraga (2008)

References

Goloborodko, A.A.; Levitsky, L.I.; Ivanov, M.V.; and Gorshkov, M.V. (2013) "Pyteomics - a Python Framework for Exploratory Data Analysis and Rapid Software Prototyping in Proteomics", Journal of The American Society for Mass Spectrometry, 24(2), 301-304.

Kiraga, J. (2008) Analysis and computer simulations of variability of isoelectric point of proteins in the proteomes. PhD thesis, University of Wroclaw, Poland.

Bjellqvist, B., Hughes, G.J., Pasquali, Ch., Paquet, N., Ravier, F., Sanchez, J.Ch., Frutige,r S., Hochstrasser D. (1993) The focusing positions of polypeptides in immobilized pH gradients can be predicted from their amino acid sequences. Electrophoresis, 14:1023-1031.

EMBOSS data are from http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/iep.html.

Murray, R.K., Granner, D.K., Rodwell, V.W. (2006) Harper's illustrated Biochemistry. 27th edition. Published by The McGraw-Hill Companies.

Sillero, A., Maldonado, A. (2006) Isoelectric point determination of proteins and other macromolecules: oscillating method. Comput Biol Med., 36:157-166.

Solomon, T.W.G. (1998) Fundamentals of Organic Chemistry, 5th edition. Published by Wiley.

Stryer L. (1999) Biochemia. czwarta edycja. Wydawnictwo Naukowe PWN.

Aronson, J. N. The Henderson-Hasselbalch equation revisited. Biochemical Education, 1983, 11 (2), 68.

Moore, D. S.. Amino acid and peptide net charges: A simple calculational procedure. Biochemical Education, 1986, 13 (1), 10-12.

Nelson, D. L.; Cox, M. M. Lehninger Principles of Biochemistry, Fourth Edition; W. H. Freeman, 2004; p. 1100.

Dawson, R. M. C.; Elliot, D. C.; Elliot, W. H.; Jones, K. M. Data for biochemical research. Oxford University Press, 1989; p. 592.

Rodwell, J. Heterogeneity of component bands in isoelectric focusing patterns. Analytical Biochemistry, 1982, 119 (2), 440-449.

Examples

data(pKscales)