Journal
JOURNAL OF MOLECULAR MODELING
Volume 18, Issue 9, Pages 4101-4111Publisher
SPRINGER
DOI: 10.1007/s00894-012-1389-0
Keywords
Active site; Docking; ESTs; Homo-tetramer; Modeller; Phytopthora sojae
Categories
Funding
- Indian Council of Agricultural Research
Ask authors/readers for more resources
As part of an effort to obtain a fungal 1-aminocyclopropane-1-carboxylate deaminase encoding gene from Phytophthora sojae expressed sequence Tag database, we identify and characterize the ACCD from P. sojae using bioinformatics data mining tools and techniques. Computed structural model of P. sojae ACCD was found to consist of mixed alpha/beta motifs and probable loops. The predicted model resembles the structure of Pseudomonas ACCD (RMSD-0.44 ). The main differences observed between them are the presence of partial length of domain one, and longer helix alpha 4. Ramachandran plot analysis revealed that portion of all residues falling into the most favorable regions was 95.0%. The substrate - and geometrical- docking of developed structure postulated functional capability of ACCD to carry out ACC cleavage reaction. The catalytic site in homo-tetrameric structure open to opposite directions separated by 37.97 distance arranged around central axis. This study provides a comprehensive identification and characterization of the ACCD in P. sojae and it may be helpful in the transcriptional and expression based study of P. sojae pathogenesis.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available