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

# molecular_function
20140910: cellular organisms_PTN000290839 has function rRNA binding (GO:0019843) 
20140910: cellular organisms_PTN000290839 has function rRNA (pseudouridine) methyltransferase activity (GO:0070037) 

# cellular_component
20140910: cellular organisms_PTN000290839 is found in small-subunit processome (GO:0032040) 
20140910: cellular organisms_PTN000290839 is found in nucleolus (GO:0005730) 
20140910: Archaea_PTN000973963 is NOT found in small-subunit processome (GO:0032040) 
20140910: Archaea_PTN000973963 is NOT found in nucleolus (GO:0005730) 

# biological_process
20140910: cellular organisms_PTN000290839 participates in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000462) 
20140910: cellular organisms_PTN000290839 participates in rRNA base methylation (GO:0070475) 

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

# NOTES
This family comprises the EMG1 subunits of the ribosomal Small Subunit Processome, also called the SSU Processome, a large complex which is involved in the initial cleavages of the primary rRNA transcript to separate the small ribosomal subunit (SSU) rRNA from the remainder of the transcript and the biogenesis of the small ribosomal subunit.
EMG1 is homologous to the Archaeal nep1 gene which is a pseudouridine methyltransferase, and this activity has also been experimentally observed in S. cerevisiae.
The SSU processome was originally identified and characterized from S. cerevisiae (Dragon et al. 2002, PMID:12068309; Gallagher et al. 2004, PMID:15489292; Bernstein et al. 2004, PMID:15590835; and reviewed in Phipps et al. 2011, PMID:21318072). As of September 2014, it has begun to be characterized experimentally from other species such as human (Turner et al. 2012, PMID:22418842; Sato et al. 2013, PMID:24219289; and Hu et al. 2011, PMID:21078665), zebrafish (Wilkins et al. 2013, PMID:24147052), and mouse (Gallenberger et al. 2011, PMID:21051332).
The EMG1 subunit is a confirmed subunit of the SSU processome, but is not classified as being part of a specific subcomplex (Phipps et al. 2011, PMID:21318072).
Feng et al. 2013 (PMID:24214024) performed an extensive computational analysis from 77 completely sequenced eukaryotic genomes, including representatives of the five eukaryotic supergroups: Opisthokonts, Amoebozoa, Plantae, Excavates, and Chromalveolates, and compared these to sequences from both prokaryotic and Archaeal species for all 51 confirmed and 26 likely SSU processome subunits in S. cerevisiae as indicated in Phipps et al. 2011 (PMID:21318072). In addition, Srivastava et al. have identified SSU processome subunits in the parasitic protist Entamoeba histolytica (PMID:24631428).
EMG1 is one of the 51 confirmed proteins of the S. cerevisiae SSU processome (Phipps et al. 2011, PMID:21318072)) and is highly conserved across the 77 eukaryotic species, as listed in Table 1 of Feng et al. 2013 (PMID:24214024). It is also found in the parasitic protist Entamoeba histolytica (Srivastava et al. 2014, PMID:24631428).

# 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).