article · Physica A Statistical Mechanics and its Applications · 2005

Protein chain packing and percolation threshold

Marcelo A. Moret, Monia Cristina Gomes de Araújo Santana, Eliane Maria de Souza Nogueira, Gilney Figueira Zebende

Cited by 22Open access

Abstract

Abstract The major factor that drives a protein chain toward collapse and folding is the hydrophobic effect. Amino acids with apolar side chains join forming a solvent-shielded hydrophobic core. This process pack the structure in the native one. Here we investigate the average packing density of 5526 protein chains deposited in the Brookhaven Protein Data Bank. This analysis is carried out from the scaling analysis of the mass-size exponent and it shows that the exponent is δ = 2.47 . This fractal dimension of the protein chain is close to the one obtained in the randomly packed spheres near their percolation threshold. The present findings supply a measure of the protein compactness, that tends to a constant protein chain packing. The average packing density tends to ρ = 0.86 a . u . /A3.

Cite this paper

APA 7

Moret, M. A., Santana, M. C. G. D. A., Nogueira, E. M. D. S., & Zebende, G. F. (2005). Protein chain packing and percolation threshold. Physica A Statistical Mechanics and its Applications, 361(1), 250–254. https://doi.org/10.1016/j.physa.2005.08.001

MLA 9

Moret, Marcelo A., et al. “Protein chain packing and percolation threshold.” Physica A Statistical Mechanics and its Applications, vol. 361, no. 1, 2005, pp. 250–54, https://doi.org/10.1016/j.physa.2005.08.001.

Chicago

Moret, Marcelo A., Monia Cristina Gomes de Araújo Santana, Eliane Maria de Souza Nogueira, and Gilney Figueira Zebende. 2005. “Protein chain packing and percolation threshold.” Physica A Statistical Mechanics and its Applications 361 (1): 250–54. https://doi.org/10.1016/j.physa.2005.08.001.

Harvard

Moret, M.A. et al. (2005) ‘Protein chain packing and percolation threshold’, Physica A Statistical Mechanics and its Applications, 361(1), pp. 250–254. Available at: https://doi.org/10.1016/j.physa.2005.08.001.

BibTeX

@article{moret2005protein,
  title = {{Protein chain packing and percolation threshold}},
  author = {Moret, Marcelo A. and Santana, Monia Cristina Gomes de Araújo and Nogueira, Eliane Maria de Souza and Zebende, Gilney Figueira},
  journal = {Physica A Statistical Mechanics and its Applications},
  volume = {361},
  number = {1},
  pages = {250--254},
  year = {2005},
  doi = {10.1016/j.physa.2005.08.001}
}

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