Incorporating Triple Resonance Experiment Data Into NVR For NMR Protein Structure-Based Assignments

Ekren S. N., APAYDIN M. S.

22nd IEEE Signal Processing and Communications Applications Conference (SIU), Trabzon, Türkiye, 23 - 25 Nisan 2014, ss.1926-1929 identifier identifier

  • Yayın Türü: Bildiri / Tam Metin Bildiri
  • Doi Numarası: 10.1109/siu.2014.6830632
  • Basıldığı Şehir: Trabzon
  • Basıldığı Ülke: Türkiye
  • Sayfa Sayıları: ss.1926-1929
  • Acıbadem Mehmet Ali Aydınlar Üniversitesi Adresli: Hayır

Özet

In NVR which is an NMR protein structure based assignment program, only N-15 labeled data has been used until now due to the cost of acquiring C-13 labeled data. Besides, in score function of NVR program, manually set parameters have been used for different proteins while calculating assignment probability of atoms. Nowadays, triple resonance experiments are standardized and obtaining C-13 labeled data is getting easier. In this work, we incorporated C-13 labeled data into NVR program. At the same time, by using new statistical values obtained from a larger protein database, we have prevented using different coefficients for different proteins. We have carried out the assignments for ubiquitin with and without C-13 labeled data by using NVR-BIP which applies binary integer programming to solve the assignment problem. As a result, we have observed that the new results obtained with the new score function by using C-13 labeled data have been improved.