# HISTORY
07 May 2016: Updated by: TOUCHUP-v1.18
24 Mar 2016: Updated by: TOUCHUP-v1.15
14 Mar 2016: Updated by: TOUCHUP-v1.12
07 May 2016: Updated by: TOUCHUP-v1.18

# molecular_function
20110107: Eukaryota_PTN000014838 has function peroxisome matrix targeting signal-1 binding (GO:0005052) 
20110107: Saccharomyces cerevisiae S288c_S000004620 has LOST/MODIFIED function peroxisome matrix targeting signal-1 binding (GO:0005052) 

# cellular_component
20110107: Eukaryota_PTN000014838 is found in cytosol (GO:0005829) 
20110107: Eukaryota_PTN000014838 is found in peroxisomal membrane (GO:0005778) 

# biological_process
20121012: Eukaryota_PTN000014838 participates in protein import into peroxisome matrix, docking (GO:0016560) 

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

# NOTES
Fast-pass curation of PTHR10130 (Peroxisomal targeting signal 1 receptor PEX5) family
Family: two main duplications, one in vertebrates, one in yeast.  Branch to PEX5L is longer vs PEX5 in vertebrates; YMP8 longer vs. PEX5 in yeast-- could these have lost or modified functions compared to ancestor?  YMP8 has lost PTS1 binding (PMID:11463335) as annotated in SwissProt record; PEX5L is demonstrated to bind PTS2, not PTS1 in CHO cells (PMID:21047816).  Also PEX5L has apparently evolved further functions like HCN binding and modulation of channel activity, in the literature it's known as TRIP8b, and role in clathrin-coated vesicle-mediated endocytosis PMID:21749376 (consistent with Rab8b interaction)
MF:
Propagate GO:0005052, �peroxisome matrix targeting signal-1 binding" to AN0 based on widespread annotations.  Have a NOT to PEX5L clade and YMP8.
Do not propagate Rab8b/small GTPase binding at this time as its function is not clear
Do not propagate channel activity as this is, as stated by the authors, demonstrated to be an indirect effect on trafficking: mouse Pex5l annotation from PMID:19555650 needs to be removed
Do not propagate various protein binding activities: too nonspecific and not linked to function.  Also C-terminus binding is redundant (already captured by peroxisome targeting sequence binding)
PMID: 16256065
TAIR might think about add annotation GO:0005052 �peroxisome matrix targeting signal-1 binding�
PMID:11361338
WB might also add/update annotation GO:0005052 �peroxisome matrix targeting signal-1 binding�
CC:
Propagate GO:0005829 cytosol and GO:0005778 peroxisome membrane to root based on review PMID: 17028012 and existing annotation
Review PMID:20659419 explains that PTS binding occurs in cytosol, and receptor subsequently docks with translocation machinery on peroxisomal membrane to deliver cargo
BP
Propagate GO:0016558, protein import into peroxisome matrix, docking to root: this is a specific subprocess of protein import into perox. that includes PTS binding and delivery to translocation machinery
Do not propagate: Rat 5L annotation to regulated secretory pathway refers to regulation of a SPECIFIC protein target (ACTH), so this would need to be properly captured by col 16 or LEGO, otherwise it would be interpreted as general or part of the secretory pathway
Do not propagate: Rat 5L annotation for PMID:19555650 is very nonspecific and misleading compared to what's in the paper.  Consider more specific annotation like regulation of GO:0043855 : cyclic nucleotide-gated ion channel activity, then put HCN2 as the target (either LEGO or col 16)
Everything else is just a downstream effect of this function.  As PMID:9288097 demonstrated, when this gene is knocked out there are no identifiable peroxisomes so of course any process that relies on them will be affected by a mutant.
LN, 7 Jan 2011
PDT, 12 Oct 2012

# 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).