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Lysins A and B not following synteny
| Link to this post | posted 02 May, 2023 02:26 | |
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Greetings, all! We are annotating a cluster A3 mycobacteriophage and we see that the lysin A and lysin B proteins do not follow the expected synteny in which lysin A, then holin, and then lysin B follow the minor tail proteins expressed downstream of the tape measure protein. Instead we see lysin A and lysin B near the 5' end of the genome, expressed upstream of terminase. And we aren't able to find a protein we can assign as a holin. Is synteny different in cluster A3 phages? Thanks in advance for your help! |
| Link to this post | posted 02 May, 2023 12:52 | |
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Kathleen and students, I would say your phage is canonical for a Cluster A3 phage, and the lysins are where they are and, I guess, where they are supposed to be. And the holin is elusive. I just QUICKLY looked at the proteins with transmembrane and HHPredded gene 30 of BlueBird. It has 2 transmembrane proteins and is located at the end of the minor tail proteins. It has a non-significant hit to a holin. Though I don't reccomened calling it, I would bet a nickel that it is indeed the holin. debbie |