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speD [2017-8-11 16:0:3]
S-adenosylmethionine decarboxylase, required for biofilm formation
function
spermidine, polyamine biosynthesis
product
S-adenosylmethionine decarboxylase
Genomic Context
categories
[category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.6|Miscellaneous metabolic pathways] → [category|SW 2.6.6.6|Metabolism of polyamines][category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation][category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation] → [category|SW 4.1.2.5|Other proteins required for biofilm formation]Gene
Coordinates
2,966,413 → 2,966,793
Phenotypes of a mutant
no [SW|biofilm formation] [Pubmed|24529384]The protein
Catalyzed reaction/ biological activity
S-adenosyl-L-methionine = (5-deoxy-5-adenosyl)(3-aminopropyl)-methylsulfonium salt + CO2 (according to Swiss-Prot)Protein family
Type 1 subfamily (according to Swiss-Prot)Structure
[PDB|1VR7] (from ''Thermotoga maritima'', 47% identity, 72% similarity)Expression and Regulation
Operons
genes
[gene|C1B89BD3DD27CD566018558D3A7845FB451056F0|gapB]-[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]
description
[Pubmed|15720552]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|15720552], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]regulatory mechanism
[protein|2234D81F8F9B92EAF1CF6F73BEC92D4DE54E2636|CcpN]: repression, [Pubmed|15720552], in [regulon|2234D81F8F9B92EAF1CF6F73BEC92D4DE54E2636|CcpN regulon]regulation
''[protein|search|gapB]'': repressed in the presence of glucose ([protein|search|CcpN]) [Pubmed|15720552]additional information
'[protein|search|speD]': the mRNA is substantially stabilized upon depletion of [gene|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] (the half-life of the monocistronic 'speD' mRNA increases from 1.4 to 36 min) [PubMed|21815947]view in new tabgenes
[gene|CDD5C7B1CE58352D29BB86BCC2C3685D1D8898ED|speD]
description
[Pubmed|10844697]
regulation
''[protein|search|gapB]'': repressed in the presence of glucose ([protein|search|CcpN]) [Pubmed|15720552]additional information
'[protein|search|speD]': the mRNA is substantially stabilized upon depletion of [gene|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] (the half-life of the monocistronic 'speD' mRNA increases from 1.4 to 36 min) [PubMed|21815947]view in new tabBiological materials
Mutant
MGNA-A122 (ytcF::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/122 NBRP B. subtilis, Japan]References
10844697,15720552,9723923,21815947,24529384,28546427