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gabD [2018-02-12T18:57:02.000Z]
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gabD [2018-02-12T18:57:02.000Z]

succinate-semialdehyde dehydrogenase (NADP), general stress protein
locus
BSU03910
pI
4.76
mw
50.10 kDa
protein length
462 aa Sequence Blast
gene length
1386 bp Sequence Blast
function
utilization of gamma-amino butyric acid
product
succinate-semialdehyde dehydrogenase (NADP)
essential
no
synonyms
ycnH
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 2|Metabolism] → [category|SW 2.3|Amino acid/ nitrogen metabolism] → [category|SW 2.3.2|Utilization of amino acids] → [category|SW 2.3.2.10|Utilization of gamma-amino butyric acid]
  • [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.1|General stress proteins (controlled by SigB)]

    • Gene

    Coordinates
    442,950 → 444,338

    Phenotypes of a mutant

  • growth defect in the presence of gamma-aminobutyrate [Pubmed|24127574]

    • The protein

    Paralogous protein(s)

  • [protein|EF0AAAF5BAE8E1F54FCA296643F7B9E3CE257B1D|YfmT], [protein|F9CF067A2A8E3B2BACC6A51A0E87E84640349980|AldY], [protein|5B66ADB81AB141982F187B1C5E3A9346AA064DE2|YcbD], [protein|1ADC55F8E265AF86E29743C671CE1EA1BE7EB41E|GbsA], [protein|67A72A0EABCD807C25D8EAC61C251142B45C174E|DhaS], [protein|762718A15E5256261D79DF60F9106AF0CE2D60C6|IolA], [protein|2042F691CB37B1BAFE2CF3906A9F7F47457C3995|PutC], [protein|69838717DC6BB27864D88C282BF5BC7CC558BFD7|RocA], [protein|F3341F205CB939498109D2A54DE842065C488DD5|AldX], [protein|99F1FAF28FB4817D94E84BD5288FA33124558933|YwdH]

    • Structure

  • [PDB|3RHH] (from from ''Bacillus halodurans'' C-125 complexed with NADP, 36% identity, 68% similarity)

    • Expression and Regulation

    Operons

    genes
    [gene|A0BEB92D54799956A4ADE106A1388E5710141069|gabD]
    description
    [Pubmed|12123465]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|12123465], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]
  • [protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]: sigma factor, [Pubmed|15805528], in [regulon|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB regulon]

    • regulatory mechanism

  • [protein|C7C36FAC0CE72226960FC7E8E016B8EC77AF1036|GabR]: activation, [Pubmed|12123465], in [regulon|C7C36FAC0CE72226960FC7E8E016B8EC77AF1036|GabR regulon]

    • regulation

  • ''[protein|search|gabD]'': induced by stress ([protein|search|SigB]) [Pubmed|15805528]
    • view in new tab

    genes
    [gene|4E1FD02C6FE4103E3B4942BF5221C062CB8D0B9B|gabT]-[gene|A0BEB92D54799956A4ADE106A1388E5710141069|gabD]
    description
    [Pubmed|12123465]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|12123465], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|C7C36FAC0CE72226960FC7E8E016B8EC77AF1036|GabR]: activation, [Pubmed|32147931,12123465], in [regulon|C7C36FAC0CE72226960FC7E8E016B8EC77AF1036|GabR regulon]

    • regulation

  • ''[protein|A0BEB92D54799956A4ADE106A1388E5710141069|GabD]'': induced by stress ([protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]) [Pubmed|15805528]
    • view in new tab

    Biological materials

    Mutant

  • MGNA-C015 (ycnH::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2013 NBRP B. subtilis, Japan]
  • BKE03910 (Δ[gene|A0BEB92D54799956A4ADE106A1388E5710141069|gabD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE03910 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATTGAACATTCCTTTCT, downstream forward: _UP4_TAAAAGAATGCACGCTCCTG
  • BKK03910 (Δ[gene|A0BEB92D54799956A4ADE106A1388E5710141069|gabD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK03910 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATTGAACATTCCTTTCT, downstream forward: _UP4_TAAAAGAATGCACGCTCCTG

    • Labs working on this gene/protein

  • [SW|Linc Sonenshein], Tufts University, Boston, MA, USA [http://www.tufts.edu/sackler/microbiology/faculty/sonenshein/index.html Homepage]

    • References

  • 15223311,12123465,11544224,15805528,28516784