Geetha, V. ; Srinivasan, R.
(1993)
*Diresidue-monopeptide (DRMP) model for analysis of peptide and protein conformation*
International Journal of Biological Macromolecules, 15
(3).
pp. 169-175.
ISSN 0141-8130

Full text not available from this repository.

Official URL: http://linkinghub.elsevier.com/retrieve/pii/014181...

Related URL: http://dx.doi.org/10.1016/0141-8130(93)90019-I

## Abstract

The paired torsional angle representation φ_{i}, ψ_{i} in protein conformational analysis is only one type of correlation with a focus on a given C^{α} residue and gives the relative orientation of a pair of peptide planes sandwiching a given residue (referred as mono-residue dipeptide model, MRDP). A shift of emphasis from a residue site to a given peptide plane (termed as diresidue monopeptide model, DRMP) leads to examination of pairs such as φ_{i}, ψ_{i-1} and other parameters derived therefrom. General sum (α_{n}=φ_{i}+ψ_{i-n}) and the difference (β_{n}=φ_{i}-ψ_{i-n}) parameters are introduced, of which, n=0 and n=1 relate to MRDP models and DRMP models respectively. Apart from the helical regions, where 'α_{0}' is found to be relatively stable, the sum parameters have been found to be more useful in the analysis of β-turns. The 'α_{0}' at the second and third residue sites and 'α_{1}' at the middle peptide plane of the four residue corner is found to offer a numerical triplet code for resolving various β-turn types. Besides these, an additional parameter introduced under the DRMP model is a virtual torsion angle 'σ_{1}' involving C_{i-1}^{β}··· C'_{i-1}-N_{i}··· C_{i}^{β}, which is expected to reflect the effect of interaction of the side chain atoms. The σ_{1}, α_{1} pair is found to play a role parallel to φ, ψ at a given residue site. Various combinations of the sum and difference parameters, as two dimensional plots, like the α_{0}vsβ_{0}, α_{0}vsα_{1} and σ_{1}vsα_{1} bring out the conformational features related to secondary structures of proteins.

Item Type: | Article |
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Source: | Copyright of this article belongs to Elsevier Science. |

Keywords: | Peptide Plane; DRMP Model; Derived Parameters; α-helices; β-turns |

ID Code: | 36570 |

Deposited On: | 12 Apr 2011 10:32 |

Last Modified: | 12 Apr 2011 10:32 |

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