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

# molecular_function
20110124: root_PTN000015833 has function pyridoxal phosphate binding (GO:0030170) 

# cellular_component
20140512: root_PTN000015833 is found in intracellular (GO:0005622) 

# biological_process

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

# NOTES
Description of phylogeny
This family consists of 45 proteins divided into two main groups.  This family is not well characterized with only few annotations.
MF:
The yeast ortholog has an annotation to GO:0030170 (pyridoxal phosphate binding).  This annotation was based on crystal structure of the yeast protein showing that it binds to pyridoxal phosphate, with residues K49, N70, R239, M223, S224, and T242 interacting with the pyridoxal phosphate (PMID: 12499548).  These residues are conserved across the members of this family (see MSA).  Therefore this term was propagated to AN0.
BP
Propagated alpha-amino acid metabolic process (GO:1901605) to root based on PMID:24097949 "These results demonstrate for the first time that YggS controls Ile and Val metabolism by modulating 2-ketobutyrate and CoA availability"; since the yeast annotation is to Ala metabolism, use the more general alpha-amino-acid metabolism term, as it is more general.
=Questions for MOD curators=
==Molecular Function==
===SGD===
*'''Question: '''Please check if additional MF annotations could be made. This [http://journals.iucr.org/d/issues/2003/01/00/gr2282/gr2282.pdf paper], near the bottom of p. 132, says, 'Since three of the PLP-site interactions are the same for P007 and ARC, it was suspected that P007 may be an amino-acid racemase and accordingly it was tested for d-alanine racemase activity. Though it exhibited d- to l-alanine racemase activity, further tests are required to verify l- to d-alanine activity and to rule out other racemase activities.'
**'''Curator comment: '''"no data for the racemase activity and the authors do a lot of caveats about their statement."  Seeking further advice.
Reference:
PMID: 12499548
Submitted 2011-01-24 DHL
Revised 2011-02-22 DHL
Revised 8 Aug 2011 MSL with wikiscript and 1 new answer
Reviewed PG 2014-05-12

# 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).