SEA-PHAGES | new HHPred hit to PDB 8JOU - Fiber I & fiber-tail-adaptor

new HHPred hit to PDB 8JOU - Fiber I & fiber-tail-adaptor

Link to this post \| posted 05 May, 2025 14:46
c.sunnen	Hi! Annotating B1 phage AngelCake. Phamerator gene 33 (stop=33956) has a very good HHPred hit to a newly published protein complex: https://www.rcsb.org/structure/8JOU. The hit has 99.9% probability, 97% coverage (the hit protein doesn't extend beyond the query C or N terminals), e-29. The second hit is to another phage protein that appears to be in the "neck" complex, but the article isn't published, and the specific chain doesn't have a distinct function attached: https://www.rcsb.org/structure/9C39 This is also newly published. Other B1 phages we annotated last year (Hartsy, LasagnaCat, CampRoach) did NOT hit to either of these proteins, but they both appear to have been added to the database recently. The gene in question is immediately downstream of the minor tail proteins and has 614 members of the pham, but the protein(s) it's hitting to seem to be tail fibers and/or adaptors from a podophage, as well as neck proteins in a Shigella phage. Any guidance on what to call this? For now I assume NKF, but clearly this is a structural something… Picture of HHPred alignments attached. Nikki 141Kb

Link to this post | posted 05 May, 2025 14:46

Hi!

Annotating B1 phage AngelCake. Phamerator gene 33 (stop=33956) has a very good HHPred hit to a newly published protein complex: https://www.rcsb.org/structure/8JOU. The hit has 99.9% probability, 97% coverage (the hit protein doesn't extend beyond the query C or N terminals), e-29.

The second hit is to another phage protein that appears to be in the "neck" complex, but the article isn't published, and the specific chain doesn't have a distinct function attached: https://www.rcsb.org/structure/9C39 This is also newly published.

Other B1 phages we annotated last year (Hartsy, LasagnaCat, CampRoach) did NOT hit to either of these proteins, but they both appear to have been added to the database recently.

The gene in question is immediately downstream of the minor tail proteins and has 614 members of the pham, but the protein(s) it's hitting to seem to be tail fibers and/or adaptors from a podophage, as well as neck proteins in a Shigella phage. Any guidance on what to call this? For now I assume NKF, but clearly this is a structural something…

Picture of HHPred alignments attached.

Nikki

Link to this post \| posted 05 May, 2025 15:19
debbie	Nikki, The data is coming fast and furious. For now, I would call these Hypothetical Proteins. but soon, we may have a better understanding. Best, debbie

Recent Activity

new HHPred hit to PDB 8JOU - Fiber I & fiber-tail-adaptor