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Debbie Jacobs-Sera posted in Help with Annotating Direct Terminal Repeats
Marie Fogarty posted in Help with Annotating Direct Terminal Repeats
cdshaffer posted in Help with Annotating Direct Terminal Repeats
Marie Fogarty posted in Help with Annotating Direct Terminal Repeats
Debbie Jacobs-Sera posted in Potential minor tail proteins in cluster GK
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 |