# HISTORY
23 Mar 2016: Updated by: TOUCHUP-v1.15
14 Mar 2016: Updated by: TOUCHUP-v1.12

# molecular_function
20110123: root_PTN000008161 has function ATPase activity (GO:0016887) 
20120330: root_PTN000008161 has function single-stranded DNA binding (GO:0003697) 

# cellular_component
20110123: root_PTN000008161 is found in mismatch repair complex (GO:0032300) 
20110123: Eukaryota_PTN000008284 is found in MutLalpha complex (GO:0032389) 
20110123: Eukaryota_PTN000008231 is found in synaptonemal complex (GO:0000795) 
20110123: Eukaryota_PTN000008231 is found in chiasma (GO:0005712) 
20110123: Eukaryota_PTN000008164 is found in chiasma (GO:0005712) 
20110123: Eukaryota_PTN000008164 is found in MutLalpha complex (GO:0032389) 
20110123: Eukaryota_PTN000008164 is found in synaptonemal complex (GO:0000795) 

# biological_process
20110123: root_PTN000008161 participates in mismatch repair (GO:0006298) 
20110123: Euteleostomi_PTN000008326 participates in somatic hypermutation of immunoglobulin genes (GO:0016446) 
20110123: Euteleostomi_PTN000008171 participates in somatic hypermutation of immunoglobulin genes (GO:0016446) 

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

# NOTES
Fast Pass curation of PTHR10073 (MutL/MLH family)
Phylogeny
This family consists of a bacterial outgroup containing E. coli mutL and three paralogous eukaryotic clades that span plants to humans.  The MLH1 (AN3) and MLH3 (AN70) clades have very simple topology and no significant duplications.  There is an unusually high number of MLH3 orthologs with long branch length to the leaves.  The third eukaryotic clade (AN123) consists primarily of proteins named "PMS" and has a duplication at the common ancestor of the deuterostomes (AN127), giving rise to the PMS1 (AN128) and PMS2 (AN163) clades; PMS2 has several duplications and divergences among the primates, giving rise to several PMS2-like homologs (none of which is annotated).
MF
-Propagate mutSalpha complex binding to eukaryotic mrca (duplication) to match mutS tree
-Propagate single stranded DNA binding to AN0 since this is widely distributed and appears to capture binding specificity.  mutS recognizes the mismatch and must bind first in order to recruit mutL
-Propagate GO:0016887 "ATPase activity" to AN0 and assume this includes "ATP binding."
-Mouse Mlh3 has annotations to "centromeric DNA binding" and "chromatin binding," but they're the only MF annotations in the Mlh3 clade, so don't propagate them yet.
CC
-Based on its definition, propagate GO:0032389 "MutLalpha complex" to the MLH1 and PMS2 clades; for the PMS2 clade, propagate to the entire PMS clade (AN123) to include the yeast annotations and block propagation to the PMS1 sub-clade (AN128).
-Also based on its definition, propagate GO:0032390 "MutLbeta complex" to the MLH1 and PMS1 clades.  Note: there are no annotations to MutLbeta complex in the PMS2 clade; there should be, and it is not possible to propagate the term until there is at least one.  Do propagate to the MLH3 clade based on the yeast annotation.
-These last 2 annotations both cover "nucleus" for all the euks.
-Propagate GO:0032300 "mismatch repair complex" to AN0.
-Ignore the 2 HTP mitochondrial annotations that only appear in in yeast.
-Propagate GO:0005712 "chiasma" and GO:0000795 "synaptonemal complex" to the MLH1 and -3 clades.
BP
-Propagate GO:0006298 "mismatch repair" to AN0 based on widespread annotations to this terms, including a few to "meiotic mismatch repair."
-Propagate GO:0007131 "reciprocal meiotic recombination" to the euks (AN2).
-Propagate GO:0016446 "somatic hypermutation of immunoglobulin genes" to the vertebrate MLH1 and PMS2 clades; allow to propagate to the PMS2L clades in the absence of contradictory information (or any information, for that matter).
=Questions for ontology curators=
==Biological Process==
*'''Question: '''Shouldn't GO:0007141 "male meiosis I" and GO:0007144 "female meiosis I" both be children of GO:0007127 "meiosis I"? (SF # 3220585)
**'''Curator answer: '''
***Added 'meiosis I ; GO:0007127' as a parent to:
***#male meiosis I ; GO:0007141
***#female meiosis I ; GO:0007144
***Added 'meiosis II ; GO:0007135' as a parent to:
***#male meiosis II ; GO:0007142
***#female meiosis II ; GO:0007147
***(and removed the now-redundant is_a links to cell cycle phase and cell cycle process).
Submitted 2010 September 29, MSL
Updated 2010 December 22, MSL
Updated 2011 March 22, MSL

# 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).