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Recent Activity
All posts created by welkin
| Link to this post | posted 24 Apr, 2018 14:22 | |
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BC phages have a single endolysin gene, this should be labeled "lysin A". |
Posted in: Cluster BC Annotation Tips → lysin A
| Link to this post | posted 24 Apr, 2018 14:20 | |
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Cluster BC phages have a gene that appears equivalent to capsid morphogenesis protein identified in the Cluster B phages when analyzed by HHPred. This gene should be labeled "capsid morphogenesis protein" for consistency. |
Posted in: Cluster BC Annotation Tips → head assembly protein
| Link to this post | posted 24 Apr, 2018 14:05 | |
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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
| Link to this post | posted 24 Apr, 2018 13:57 | |
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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
| Link to this post | posted 24 Apr, 2018 13:54 | |
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AV phages encode a single endolysin, it should be labeled "lysin A". |
Posted in: Cluster AV Annotation Tips → lysin A
| Link to this post | posted 24 Apr, 2018 13:53 | |
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AV phages are myoviridae, and so encode tail tube and tail sheath proteins. |
Posted in: Cluster AV Annotation Tips → tail sheath
| Link to this post | posted 24 Apr, 2018 13:50 | |
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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
| Link to this post | posted 24 Apr, 2018 13:45 | |
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Cluster AS phages encode a tail protein called a "tail spike". Tail spike is equivalent in function to a tail fiber, however, is characterized by triple beta-prisms and beta-coils, resulting in a large structure visible in the TEM. Salmonella phage P22 is the most famous tailspike enabled phage. |
Posted in: Cluster AS Annotation Tips → tail spike
| Link to this post | posted 24 Apr, 2018 13:43 | |
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AS phages have two small terminase genes, one adjacent to the large subunit, the other in the right arm of teh genome. |
Posted in: Cluster AS Annotation Tips → two small terminase subunits
| Link to this post | posted 24 Apr, 2018 13:25 | |
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there is a single endolysin in cluster AT phages, it is found upstream of the capsid maturation protease and should be labeled "lysin A". |
Posted in: Cluster AT Annotation Tips → lysin A