Abstract
Spectral exponents m defined in the power law relationship p(v)∝ vm-1 between the density of vibrational states p(v) and the frequency v at very low frequencies are calculated by means of the normal mode analysis of molecular mechanics for nine globular proteins. For the sake of comparison, fractal dimensions d̄ are also estimated from the backbone conformations of the same set of proteins. The results show that m and d̄ range from 1.53 to 1.77 and from 1.49 to 1.85, respectively, and well agree with the fractal model of protein conformations proposed by Stapleton et al. (Phys. Rev. Lett. 45 (1980) 1456), in which it is asserted that m is equal to d̄ and d̄ is close to the theoretical value 5/3 associated with a self-avoiding random walk.
| Original language | English |
|---|---|
| Pages (from-to) | 1926-1929 |
| Number of pages | 4 |
| Journal | Journal of the Physical Society of Japan |
| Volume | 58 |
| Issue number | 6 |
| Publication status | Published - 1989 Jun |
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Keywords
- Fractal dimension
- Molecular mechanics
- Normal mode analysis
- Protein conformation
- Protein dynamics
- Spectral exponent
ASJC Scopus subject areas
- Physics and Astronomy(all)
Cite this
A fractal model of protein conformations and spectral exponents for the densities of low-frequency normal modes of vibration. / Wako, Hiroshi.
In: Journal of the Physical Society of Japan, Vol. 58, No. 6, 06.1989, p. 1926-1929.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - A fractal model of protein conformations and spectral exponents for the densities of low-frequency normal modes of vibration
AU - Wako, Hiroshi
PY - 1989/6
Y1 - 1989/6
N2 - Spectral exponents m defined in the power law relationship p(v)∝ vm-1 between the density of vibrational states p(v) and the frequency v at very low frequencies are calculated by means of the normal mode analysis of molecular mechanics for nine globular proteins. For the sake of comparison, fractal dimensions d̄ are also estimated from the backbone conformations of the same set of proteins. The results show that m and d̄ range from 1.53 to 1.77 and from 1.49 to 1.85, respectively, and well agree with the fractal model of protein conformations proposed by Stapleton et al. (Phys. Rev. Lett. 45 (1980) 1456), in which it is asserted that m is equal to d̄ and d̄ is close to the theoretical value 5/3 associated with a self-avoiding random walk.
AB - Spectral exponents m defined in the power law relationship p(v)∝ vm-1 between the density of vibrational states p(v) and the frequency v at very low frequencies are calculated by means of the normal mode analysis of molecular mechanics for nine globular proteins. For the sake of comparison, fractal dimensions d̄ are also estimated from the backbone conformations of the same set of proteins. The results show that m and d̄ range from 1.53 to 1.77 and from 1.49 to 1.85, respectively, and well agree with the fractal model of protein conformations proposed by Stapleton et al. (Phys. Rev. Lett. 45 (1980) 1456), in which it is asserted that m is equal to d̄ and d̄ is close to the theoretical value 5/3 associated with a self-avoiding random walk.
KW - Fractal dimension
KW - Molecular mechanics
KW - Normal mode analysis
KW - Protein conformation
KW - Protein dynamics
KW - Spectral exponent
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UR - http://www.scopus.com/inward/citedby.url?scp=62749184875&partnerID=8YFLogxK
M3 - Article
AN - SCOPUS:62749184875
VL - 58
SP - 1926
EP - 1929
JO - Journal of the Physical Society of Japan
JF - Journal of the Physical Society of Japan
SN - 0031-9015
IS - 6
ER -