TITLE:
Predicting tbx22 Zebrafish Protein Structure Using Multi-Level Prediction Tools and Demonstration of Conserved Structural Domains in Relation to Orthologous tbx22 Proteins in Humans
AUTHORS:
Vijay P. Boominathan, Tracie Ferreira
KEYWORDS:
T-box, tbx22, Transcription Factors, Genomatix, Protein Prediction, Superimposed Models
JOURNAL NAME:
Journal of Biosciences and Medicines,
Vol.4 No.3,
March
30,
2016
ABSTRACT:
Biological functions of proteins play a key
role in the development of any organism. The gene tbx 22 is a member of a phylogenetically
conserved family of genes, which share a common DNA binding domain: T box. This
study examines the similarity in the developmental pattern influenced by the transcription
factor TBX22 and tbx22 in H. sapiens and D. rerio respectively. Secondary and tertiary
structures of the proteins are predicted using standard structure prediction software’s
like Phyre 2, Predict Protein, SWISSMODEL, PSIPRED and the homology of the proteins
were compared to each other. Protein homology prediction shows more than 65% between
the 2 organisms. Superimposing the predicted protein structures reveals conserved
domains between the human and zebrafish proteins. Additional supporting data from
Genomatix MATBASE, MATINSPECTOR show higher matrix family scores for BRAC (Brachury
gene mesoderm developmental factor) in Human and Zebrafish. Transcription factor
and promoter element analysis with Transcriptome Viewer, Gene 2 Promoter and Genomeinspector
reveal a high degree of homology between the 2 organisms. Bioinformatic-Proteomics
and protein structural analysis approaches shown here explain in detail the relationship
between the Human and Zebrafish tbx22 Gene-Protein-Transcrip- tion factor. These
studies also support zebrafish as a predictive model for numerous developmental
pattering events in higher vertebrates.