The official website of the HHMI Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science program.

Welcome to the forums at Please feel free to ask any questions related to the SEA-PHAGES program. Any logged-in user may post new topics and reply to existing topics. If you'd like to see a new forum created, please contact us using our form or email us at

holin with zero transmembrane domains in F cluster phage?

| posted 05 Jul, 2018 17:18
Hi all,
I am annotating ThetaBob, an F4 phage. ThetaBob_32 and 33 have been labeled Lysin A and Lysin B, respectively.
ThetaBob_35 (stop 28491) is in pham 48862, and seven of the eight other members of this pham are marked as holins.
ThetaBob_35 has no transmembrane domains. There are five other F phage with members of this pham marked as holins–Avani_37, Che9D_37, Demsculpinboyz_38, Jabbawokkie_40, Zapner_39–none of these proteins have transmembrane domains. There is sixth F phage with a gene in his pham–Yoshi_39. Yoshi_39 is marked as NKF, and no holin has been identified in Yoshi.
There are two DP phage with members of this pham marked as holins–Ronaldo_64 and Fryberger_61–both each have one transmembrane domain.

ThetaBob_38 has four transmembrane domains, but is well after the lysin genes. HHPred analysis shows a pfam match to E. coli holins in the last quarter of ThetaBob_38.

My plan is to mark ThetaBob_35 as NKF, not as a holin, and to mark ThetaBob_38 as a membrane protein.

Thanks for your thoughts!
| posted 05 Jul, 2018 20:16
I agree. Sounds like some revisions I need to make in those revisions. Thanks!
Login to post a reply.