A Markov Model for Protein Sequences

  • Y. Surya pavan
  • C. K. MitraEmail author
  • S. M. Bendre


The protein primary sequence has information for its folding. Analyzing the interrelationship between the adjacent amino acids and estimating their entropies may be informative. The present work shows that Markov dependencies are clearly evident in the protein primary sequences of various databases studied. The higher-order Markov approximations and their entropy calculations showed that short-range interactions are evident between the neighboring amino acids in the protein primary sequences. Moreover, a strong correlation was observed between the secondary structure elements as expected.

Key words

Markov model entropy short-range interactions secondary structure elements 


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Copyright information

© Springer Science+Business Media, Inc. 2006

Authors and Affiliations

  1. 1.Department of BiochemistryUniversity of HyderabadHyderabadIndia
  2. 2.Department of Mathematics and StatisticsUniversity of HyderabadIndia

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