speD
168
[metabolite|S-adenosylmethionine] decarboxylase, required for biofilm formation
locus
BSU_29010
Molecular weight
13.96 kDa
pI
4.77
function
[metabolite|spermidine], polyamine biosynthesis
product
[metabolite|S-adenosylmethionine] decarboxylase
essential
no
ec
4.1.1.50
synonyms
speD, ytcF
Outlinks
Genomic Context
Categories containing this gene/protein
List of homologs in different organisms, belongs to COG1586 (Galperin et al., 2021)
This gene is a member of the following regulons
Gene
Coordinates
2,966,413 → 2,966,793
Phenotypes of a mutant
no [wiki|biofilm formation] [Pubmed|24529384]
The protein
Catalyzed reaction/ biological activity
H+ + [metabolite|S-adenosyl-L-methionine] --> CO2 + [metabolite|S-adenosyl-L-methioninamine] (according to UniProt)
Protein family
prokaryotic AdoMetDC family (single member, according to UniProt)
Structure
[PDB|1VR7] (from ''Thermotoga maritima'', 47% identity, 72% similarity)
[AF|O34426]
Expression and Regulation
Operons
genes
[gene|C1B89BD3DD27CD566018558D3A7845FB451056F0|gapB]-[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]
description
[Pubmed|15720552]
regulation
[gene|C1B89BD3DD27CD566018558D3A7845FB451056F0|gapB]: repressed in the presence of glucose ([protein|2234D81F8F9B92EAF1CF6F73BEC92D4DE54E2636|ccpN]) [Pubmed|15720552]
regulatory mechanism
[protein|2234D81F8F9B92EAF1CF6F73BEC92D4DE54E2636|ccpN]: repression, [Pubmed|15720552], in [regulon|protein:2234D81F8F9B92EAF1CF6F73BEC92D4DE54E2636|ccpN regulon]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [Pubmed|15720552], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]
additional information
[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]: the mRNA is substantially stabilized upon depletion of [gene|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] (the half-life of the monocistronic [gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD] mRNA increases from 1.4 to 36 min) [PubMed|21815947]
genes
[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]
description
[Pubmed|10844697]
additional information
[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]: the mRNA is substantially stabilized upon depletion of [gene|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] (the half-life of the monocistronic [gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD] mRNA increases from 1.4 to 36 min) [PubMed|21815947]
Biological materials
Mutant
MGNA-A122 (ytcF::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/122 NBRP B. subtilis, Japan]
BKE29010 (Δ[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]::erm trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE29010 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAGTCATGGACCCCCCTT, downstream forward: _UP4_TAAAGTAAATTGCGAACACA
BKK29010 (Δ[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]::kan trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK29010 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAGTCATGGACCCCCCTT, downstream forward: _UP4_TAAAGTAAATTGCGAACACA
GP2599 (Δ[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]::tet comIQ12L) (in DK1042), available in [wiki|Jörg Stülke]'s lab
References
Page visits: 4281
Time of last update: 2025-02-11 23:44:32
Author of last update: Jstuelk