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All posts created by welkin

| posted 24 Apr, 2018 15:33
welkin avatar
welkin
The tape measure protein is not the longest protein in the genome, and it is located in an atypical region– amidst the genes that encode proteins found in the capsid.
Posted in: Cluster BG Annotation Tips → tape measure
| posted 24 Apr, 2018 15:32
welkin avatar
welkin
BF phages have a large cassette of tRNAs, which will not be drawn on a Phamerator map. It will look like a gap in coding genes.
Posted in: Cluster BF Annotation Tips → tRNAs
| posted 24 Apr, 2018 14:38
welkin avatar
welkin
the terminase proteins are located near the center of the genome, downstream from all the minor tail proteins.
Posted in: Cluster BE Annotation Tips → terminase
| posted 24 Apr, 2018 14:30
welkin avatar
welkin
The immunity repressor is located just after the minor tail proteins and lysin, and the integrase is locate far downstream.
Posted in: Cluster BD Annotation Tips → immunity repressor
| posted 24 Apr, 2018 14:26
welkin avatar
welkin
BD phages have a single endolysin, it should be labeled "lysin A".
Posted in: Cluster BD Annotation Tips → lysin A
| posted 24 Apr, 2018 14:05
welkin avatar
welkin
Cluster BB contains some phages that were not isolated and sequenced by the SEA-PHAGES program. Their finders annotated the genomes differently. We are taking on the QC of these genomes but haven't reviewed the files yet.
These phages are:
phiC31, TG1, and phiBT1
Posted in: Cluster BB Annotation Tips → non SEA-PHAGES genomes
| posted 24 Apr, 2018 13:57
welkin avatar
welkin
Cluster BA contains some phages that were not isolated and sequenced by the SEA-PHAGES program. Their finders chose a different bp1 than we did, and annotated their genomes differently. We do not curate, update, or QC these genomes.

These phages are:
SPB78, Sros11, and VWB.
Posted in: Cluster BA Annotation Tips → non SEA-PHAGES genomes
| posted 24 Apr, 2018 13:54
welkin avatar
welkin
AV phages encode a single endolysin, it should be labeled "lysin A".
Posted in: Cluster AV Annotation Tips → lysin A
| posted 24 Apr, 2018 13:53
welkin avatar
welkin
AV phages are myoviridae, and so encode tail tube and tail sheath proteins.
Posted in: Cluster AV Annotation Tips → tail sheath
| posted 24 Apr, 2018 13:50
welkin avatar
welkin
AV phages encode a large tail protein called a tail spike that is the functional equivalent of a tail fiber. It is large enough to be visible in the TEM, and its structural domains are based on beta-prisms and helices, rather than alpha coiled coils. The most famous example is the tail spike of Salmonella phage P22.
Posted in: Cluster AV Annotation Tips → tail spike