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thiamine-binding protein

| posted 14 May, 2020 21:44
Hi there. In annotating Arthrobacter globiformis phage London (cluster AZ), I came across a wonky reverse gene (start 35,904; stop 35,584) that is 100% identical to a putative gene in draft phage Elezi (also AZ); they are the only two currently in this pfam (11727). The predicted length is 321 nts (106 aa's). With NCBI BLAST, CDD,and HHPRED, I got strong hits to a thiamine-binding protein.

HHPRED hit: PF01910.17 Thiamine-binding protein, 99.9 probability; 91.5% coverage; target 1-92; query 1-100; 4.7e-25 http://pfam.xfam.org/family/PF01910.17

Top NCBI hit: WP_079552236 Arthrobacter thiamine binding protein, 72.7% identity; 79% alignment; 98.1% coverage; 96 positives; target 1-104; query 1-104; 3.75016e-56. https://www.ncbi.nlm.nih.gov/protein/WP_079552236 (there are several other really good hits; all to Arthrobacter thiamine binding proteins)

CDD hit: pfam01910 (same as HHPRED hit); thiamine binding protein crystal structure. 92.4% coverage; target 1-92; query 3-100; 5.50511e-24

It looks like thiamine binding proteins can be 99-125 aa's in length, so the phage protein fits the bill. https://www.ncbi.nlm.nih.gov/Structure/sparcle/archview.html?archid=10487226
There do not appear to be any other conserved domains along with this one.

Here is the London phage protein in question: London_47
MIVAFSVAPSGASASGEAPSDASVHEAVAAAVRVVRESGLPNRTSSMFTELEGDWDAVMDVVKRATEAVAPYGSRVSLVLKADIRPGYSGELEGKVERLERAIEKP

I'm working off of PECAAN at the moment, but can share the DNA Master file later, if needed. If I'm way off base here, let me know- just thought it looked interesting and possible!
Thanks,
Andy
| posted 21 May, 2020 00:45
Andy,
I would still call this gene a Hypothetical Protein. Even though has hits to a thiamine binding domain, it is unclear what the function of it is. Considering how many hits it has to other things that have no identified function, it would be prudent to wait to call this anything.
 
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