yoaD
168
similar to phosphoglycerate dehydrogenase
locus
BSU_18560
Molecular weight
38.47 kDa
pI
5.62
function
methionine biosynthesis
product
unknown
essential
no
synonyms
yoaD
Outlinks
Genomic Context
Categories containing this gene/protein
List of homologs in different organisms, belongs to COG0111 (Galperin et al., 2021)
This gene is a member of the following regulons
Gene
Coordinates
2,024,042 2,025,076
The protein
Catalyzed reaction/ biological activity
YoaD is likely to convert 3-phosphoglycerate to serine for use in methionine biosynthesis (based on [protein|search|S-box] regulation)
Protein family
D-isomer specific 2-hydroxyacid dehydrogenase family (with [protein|B0145F4E13F004ECC773E8758B5844669F4C74D7|yvcT] and [protein|8AD1C7C761FF8B407A973381CA135C264B995CB7|serA], according to UniProt)
Structure
[PDB|1WWK] (phosphoglycerate dehydrogenase from Pyrococcus horikoshii, 35% identity)
[AF|O34815]
Additional information
The gene is annotated in KEGG as an ortholog of D-3-phosphoglycerate dehydrogenase EC 1.1.1.95. No EC annotation is available in Swiss-Prot. In MetaCyc the protein is marked as similar to phosphorglycerate dehydrogenase. No literature/experimental evidence supporting the annotation is available. [Pubmed|19935659]
Expression and Regulation
Operons
genes
[gene|3769B79A180412C0FE98B3FC54BA49750BAFEDF6|yoaD]-[gene|182B8EFA41DAE695B008CBAA561F3730D11750B1|yoaC]-[gene|FF60633F2902E4CA58B34FF3DAFF85B0D4007622|yoaB]
description
[Pubmed|10094622]
regulation
induced by methionine starvation ([wiki|S-box]) [Pubmed|10094622]
the [wiki|S-box] RNA is degraded by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] [pubmed|29794222]
regulatory mechanism
S-box: RNA switch, , the [wiki|S-box] [wiki|riboswitch] binds S-adenosylmethionine resulting in termination [Pubmed|10094622], in [regulon|other_regulator:S-box|S-box]
Biological materials
Mutant
MGNA-A835 (yoaD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/835 NBRP B. subtilis, Japan]
BKE18560 ([gene|3769B79A180412C0FE98B3FC54BA49750BAFEDF6|yoaD]::erm trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE18560 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAAAAAAATCTCTTTCC, downstream forward: _UP4_TAAGAAAGGAGGCTAACAGA
BKK18560 ([gene|3769B79A180412C0FE98B3FC54BA49750BAFEDF6|yoaD]::kan trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK18560 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAAAAAAATCTCTTTCC, downstream forward: _UP4_TAAGAAAGGAGGCTAACAGA
References
Page visits: 3869
Time of last update: 2024-11-02 16:09:15
Author of last update: Melvin.boenninger