Configuration-dependent properties of contacts in(alpha/beta)(8) barrel proteins
Chen, J; Chen, J; Jiang, ZT; Zhang, LX; Zhao, DL
AbstractThe residue-residue contacts contribute more function to the protein folding and play an active role in the stability of proteins. We calculate the number of medium- and long-range contacts for 90 (alpha/beta)(8) barrel proteins with considering the distance between the centers of two residues in defining residue-residue contacts. The ability to forming contacts in each (alpha/beta)(8) barrel protein was discussed through calculating the number of long- and medium-ranges contacts for different residues in proteins. The relationship between the average numbers of medium-and longrange contacts with Fauchere-Pliska hydrophobicity value (FPH) for 20 amino acid residues was studied, and it was found that the average number of long-range contacts had a linear relation with the Fauchere-Pliska hydrophobicity value ( FPH) however, it had not valid for medium-range contacts. The dimension of (alpha/beta)(8) barrel proteins has a good relation to the long-range contact of proteins, and the characteristic ratio of mean-square radius of gyration < S(2) > can be expressed as /N = a' + b' x LRO; where LRO is the long-range order, N is the number of residues, and a' = 2.32, V = -0.131. When a protein has a large LRO value, the structure is compact and it has a small dimension value. These investigations can provide some insights into structure of (alpha/beta)(8) the barrel proteins.
Keyword(Alpha/beta)(8) Barrel Protein Medium- And Long-range Contacts Lro Fauchere-pliska Hydrophobicity Value( Fph)
Indexed BySCI
WOS IDWOS:000224710100013
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Document Type期刊论文
Corresponding AuthorChen, J; Chen, J
Affiliation1.Zhejiang Univ, Dept Phys, Hangzhou 310027, Peoples R China
2.Chinese Acad Sci, Inst Chem, Polymer Phys Lab, Beijing 100080, Peoples R China
Recommended Citation
GB/T 7714
Chen, J,Chen, J,Jiang, ZT,et al. Configuration-dependent properties of contacts in(alpha/beta)(8) barrel proteins[J]. ACTA POLYMERICA SINICA,2004(5):688-692.
APA Chen, J,Chen, J,Jiang, ZT,Zhang, LX,&Zhao, DL.(2004).Configuration-dependent properties of contacts in(alpha/beta)(8) barrel proteins.ACTA POLYMERICA SINICA(5),688-692.
MLA Chen, J,et al."Configuration-dependent properties of contacts in(alpha/beta)(8) barrel proteins".ACTA POLYMERICA SINICA .5(2004):688-692.
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