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All posts created by welkin

| posted 08 Jan, 2019 19:23
Hi All,
BAsed on this paper, https://onlinelibrary.wiley.com/doi/full/10.1002/prot.22338
I think we are not going to add "FIC" to the list.

As Dave said, FIC proteins are now identified just by a single short sequence, and can do all sorts of things.
This means that we will not be adding this as a function at this time.
Posted in: Functional AnnotationFIC family protein
| posted 08 Jan, 2019 14:22
Tell them not to open the program from the installer window, but to launch it the way we describe in the manual.
They are probably launching with out admin rights if they go straight from install to open.
Edited 08 Jan, 2019 14:23
Posted in: DNA MasterProblem installing DNA Master on Windows 10
| posted 17 Dec, 2018 16:39
Hi Julia,
The annotating school absolutely gets author credit in GenBank. I like the idea of adding an "annotated by" box to phagesdb…. I will look into making it happen.
Posted in: Notes and Final FilesAuthors file
| posted 17 Dec, 2018 16:09
I agree! I coulnd't find any strong evidence of the head-to-tail connectors in any of the genes in the DJs.
Posted in: Cluster DJ Annotation Tipshead-to-tail connector complex
| posted 12 Dec, 2018 20:54
sounds good to me!
Posted in: Request a new function on the SEA-PHAGES official listadenylosuccinate lyase for Hiyaa gene 75 @55288
| posted 03 Dec, 2018 13:12
Hi Evan,
So here's some questions:
How big are these types of enzymes in general? Does the phage gene encompass the entire enzyme or just the N-terminal domain? Is the N-terminal domain where the catalytic activity is, or is it just a binding region?

Best,
Welkin
Posted in: Functional AnnotationProposed function alpha-L-arabinofuranosidase
| posted 15 Nov, 2018 13:05
Hi Ruth,
Only if there is a specific function. Thanks for checking.

Posted in: Functional Annotationmarking HHpred for unknown function
| posted 19 Oct, 2018 19:11
yep– totally agree with Debbie— there isn't enough of it left to warrant "immunity repressor, truncated".
Posted in: Functional AnnotationTruncated Immunity Repressor
| posted 25 Sep, 2018 17:06
Cluster S phages have an unusual structural gene organization— some of the minor tail proteins are way over in the right arm.
see:

https://www.ncbi.nlm.nih.gov/pubmed/22357284
Posted in: Cluster S Annotation Tipsminor tail proteins in the right arm
| posted 23 Aug, 2018 18:13
sounds good. I'll add both.
Posted in: Request a new function on the SEA-PHAGES official listnew type of nucleotide pyrophosphohydrolase