Multicanonical simulations of five tetrapeptide sequences in the central domain of HMW glutenin

OLĞAR H., Yasar F., Celik T., Celik S., Koksel H.

INTERNATIONAL JOURNAL OF MODERN PHYSICS C, cilt.11, sa.8, ss.1595-1606, 2000 (SCI-Expanded) identifier identifier

  • Yayın Türü: Makale / Tam Makale
  • Cilt numarası: 11 Sayı: 8
  • Basım Tarihi: 2000
  • Doi Numarası: 10.1142/s0129183100001486
  • Dergi Adı: INTERNATIONAL JOURNAL OF MODERN PHYSICS C
  • Derginin Tarandığı İndeksler: Science Citation Index Expanded (SCI-EXPANDED), Scopus
  • Sayfa Sayıları: ss.1595-1606
  • Anahtar Kelimeler: HMW glutenin, molecular modeling of secondary structures, multicanonical simulation, proteins, peptides, energy minimization, HEXAPLOID BREAD WHEAT, TRITICUM-AESTIVUM L, CONFORMATION, NUCLEOTIDE, SUBUNIT, GENES, POLYPEPTIDES, POTENTIALS, ELASTICITY, PROTEINS
  • Ankara Üniversitesi Adresli: Hayır

Özet

The application of the multicanonical simulation method to small proteins and peptides seems to be feasible and should be undertaken. In this work, the three-dimensional structures of five common tetrapeptide sequences (QPGQ, QSGQ, YPTS, SPQQ and QPGY, in one letter code) in the repetitive central domain of HMW glutenin subunits are investigated by using the multicanonical simulation procedure. Ramachandran plots were prepared and analyzed to predict the relative occurrence probabilities of beta -turn and gamma -turn structures and helical states. Structural predictions of the five tetrapeptide sequences indicated the presence of high level of p-turns and considerable level of gamma -turns. It was also possible to distinguish different type of turns and their occurrence probabilities.