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Forum "Conclusion"

Thread subject: Possible Putative Protein of TO32S_5896010.1

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Possible Putative Protein of TO32S_5896010.1
SyawqinaAdlin
24 Jun 2016 16:14
Non evaluated contribution

From the ORF finer results, we have decided to choose the frame with the longest sequence as the possible putative protein. This sequence is +3 frame with 930 nucleotides. This sequence fulfils the criteria of an ORF which includes being at least 60 amino acids long and has no STOP codon. This is evidence when the sequence was translated using the Expasy Translate tool. Having no STOP codon suggests that the protein is not a complete protein with a missing 3' end. Further investigations will be needed to carry out in order to obtain the complete equence and assist in future experimental designs. By blasting the chosen ORF sequence, it was found that the protein might be related to the cyanophage TIM40. The closest homolog from the BLAST result was putative structural protein of Cyanophage P-TIM40. This cyanophage was found to be of the Caudovirales family, which are tailed bacteriophages (Ackermann, HW., 1998). More specifically, cyanophage TIM40 is a myoviridae. It's mechanism is that of a typical virus where it hijacks a host cell, punture the membrane using its tail an injects its viral genome into the host cell's replication system. From these data, we can assume that the function of the putative protein is that of a virus phage. The PSORTb localisation results supports this evidence as it predicted the protein's localisation to be at the cytosolic membrane and a non-cytoplasmic signal peptide was deteced as well. This indicates that once the protein is synthesised, it is likely to be translocated to the cytosolic membrane and can possibly be secreted out or be presented on the outer membrane of the cell. From the conserved domain search result, it was found that the sequence contains the SBBP superfamily domain. This gives us further insight on the possible structure. It can be assumed that the protein possesses the same propeller structure of the seven bladed beta propeller. SBBP protens were also found to be associated with microbial and viral infections (Pons, T., 2003) which further supports the notion that the putative protein functions as a viral phage.