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Study on properties of residue-residue contacts in protein

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Abstract

Residue-residue contacts are very important in forming protein structure. In this work, we calculated the average probability of residue-residue contacts in 470 globular proteins and analyzed the distribution of contacts in the different interval of residues using Contacts of Structural Units (CSU) and Structural Classification (SCOP) software. It was found that the relationship between the average probability\(\bar P_L \) and the residue distanceL for four structural classes of proteins could be expressed as lgP L =a+b×L, wherea andb are coefficients. We also discussed the connection between two aspects of proteins which have equal array residue number and found that the distribution probability was stable (or unstable) if the proteins had the same (or different) compact (for example synthase) in the same structural class.

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Author information

Correspondence to Wang Xiang-hong.

Additional information

Project supported by the National Natural Science Foundation of China (Nos. 29874012, 20174036, 20274040), and the Natural Science Foundation of Zhejiang Province (No. 10102), and the Science Technology Development Plan of Wenzhou City (No. S2002A014), China

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Xiang-hong, W., Jian-hong, K., Yi-zhuang, Z. et al. Study on properties of residue-residue contacts in protein. J. Zheijang Univ.-Sci. 5, 941–949 (2004). https://doi.org/10.1007/BF02947603

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Key words

  • Globular protein
  • Structural class
  • Residue distance
  • Long-and short-range contact

Document code

  • A

CLC number

  • O631