# HISTORY
24 Mar 2016: Updated by: TOUCHUP-v1.15
14 Mar 2016: Updated by: TOUCHUP-v1.14

# molecular_function
20151130: root_PTN000103837 has function ubiquitin binding (GO:0043130) 
20151201: Eukaryota_PTN000103934 has function RNA binding (GO:0003723) 

# cellular_component
20151130: Eukaryota_PTN000103865 is found in bub1-bub3 complex (GO:1990298) 
20151130: Eukaryota_PTN000103865 is found in kinetochore (GO:0000776) 
20151130: Eukaryota_PTN000103865 is found in mitotic checkpoint complex (GO:0033597) 
20151130: Embryophyta_PTN000861275 is found in phragmoplast (GO:0009524) 
20151201: Eukaryota_PTN000103934 is found in nuclear pore (GO:0005643) 

# biological_process
20151130: Eukaryota_PTN000103865 participates in mitotic spindle assembly checkpoint (GO:0007094) 
20151201: Eukaryota_PTN000103934 participates in RNA export from nucleus (GO:0006405) 
20151201: Eukaryota_PTN000103934 participates in transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery (GO:0000972) 
20151201: Eukaryota_PTN000103934 participates in protein import into nucleus (GO:0006606) 
# PRUNED

24 Mar 2016: Caenorhabditis elegans_PTN000103969 has been pruned from tree

# WARNINGS - THE FOLLOWING HAVE BEEN REMOVED FOR THE REASONS NOTED

# NOTES
14 Mar 2016: Caenorhabditis elegans_PTN000103969 has been pruned from tree
This tree contains three clades connected by a duplication node at the root:
-- Eukaryota_PTN000103838 - WDR92 (only human is annotated; no yeast sequences)
-- Eukaryota_PTN000103865  - BUB3 (ubiquitin binding, spindle checkpoint)
-- Eukaryota_PTN000103934 - Sc GLE2 (aka RAE1) nuclear pore, Note Dmel has cell cycle annotsI
WDR92 clade:
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In the MSA, WDR92 is noticably less similar to the other two clades which are very similar to each other. However, the WDR92 clade looks good enough in the overall alignment that it looks possibe that it belongs in this family, but has diverged significantly from the other two clades.
The annotations for human WDR92 from Han et al. 2005 (PMID:16600877) are made to the wrong protein; they should be made for WDR5. Dispute in Protein2GO initiated (11/30/15) and resolved the next day.
BUB3 clade:
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BUB3 is a conserved kinetochore protein.
PRUNED: Caenorhabditis_PTN000103969 - This node was pruned because in the MSA the two C. elegans sequences look quite different from the rest of the BUB3 clade, including the other 3 C. elegans sequences in this clade, and also due to the extremely long branch length to this node in the tree.
RAE1, aka GLE2, clade:
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RAE1 (aka GLE2) is a conserved cytoplasmic filament of the nuclear pore complex.

# REFERENCE
Annotation inferences using phylogenetic trees
The goal of the GO Reference Genome Project, described in PMID 19578431, is to provide accurate, complete and consistent GO annotations for all genes in twelve model organism genomes. To this end, GO curators are annotating evolutionary trees from the PANTHER database with GO terms describing molecular function, biological process and cellular component. GO terms based on experimental data from the scientific literature are used to annotate ancestral genes in the phylogenetic tree by sequence similarity (ISS), and unannotated descendants of these ancestral genes are inferred to have inherited these same GO annotations by descent. The annotations are done using a tool called PAINT (Phylogenetic Annotation and INference Tool).