SubtiBank SubtiBank
ribD
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ribD

5-amino-6-(5-phosphoribosylamino)uracil reductase
locus
BSU_23280
pI
6.08
mw
39.15 kDa
protein length
361 aa Sequence Blast
gene length
1086 bp Sequence Blast
function
riboflavin biosynthesis
product
5-amino-6-(5-phosphoribosylamino)uracil reductase
essential
no
ec
3.5.4.26
synonyms
ribG
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.2|Biosynthesis of cofactors] → [category|SW 2.6.2.2|Biosynthesis/ acquisition of riboflavin/ FAD]

    • Gene

    Coordinates
    2,430,258 2,431,343

    The protein

    Catalyzed reaction/ biological activity

  • 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H+ + H2O --> 5-amino-6-(5-phospho-D-ribosylamino)uracil + NH4+ (according to UniProt)
  • 5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP+ --> 5-amino-6-(5-phospho-D-ribosylamino)uracil + H+ + NADPH (according to UniProt)

    • Protein family

  • N-terminal part: [SW|Cytidine and deoxycytidylate deaminase family] (according to UniProt)
  • C-terminal part: HTP reductase family (single member, according to UniProt)

    • [SW|Domains]

  • [SW|CMP/dCMP-type deaminase domain] (aa 1–122) (according to UniProt)

    • Structure

  • [PDB|3EX8] [Pubmed|18986985]

    • Expression and Regulation

    Operons

    genes
    [gene|3DFCF7C5FE15C9A3E9E7E4B0DA8E926B85DBD180|ribD]-[gene|4E18BD4B084094EE4FBC8FE2AC95B14581D20C0F|ribE]-[gene|F07B7062C850106A95C15978E36DA500F8B089D6|ribA]-[gene|2A5DCBFAB51996F0DDEC964D5D178274AF86CE69|ribH]-[gene|8146A052E4E7844F781E7169C264EC927DEB7387|ribT]
    description
    [Pubmed|8159171]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|8159171], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [regulon|FMN-box|FMN-box]: transcription termination, via [SW|FMN-box] in the presence of FMN or FMNH2, this is counter-acted upon binding of [protein|3D32B6C1DC9CAC615B02E14EA846648C3B0E61D6|RibR], in [regulon|FMN-box|FMN-box]

    • regulation

  • expressed in the absence of FMN ([SW|FMN-box]) [Pubmed|15808508]
  • binding of FMN to the [SW|FMN-box] RNA is facilitated by [protein|43CFA3477B4EEB4CE0B2DF63ED2B5EDB171E79C7|NusG]-mediated transcription pausing [pubmed|32817529]
  • the [SW|FMN-box] RNA is degraded by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] [pubmed|29794222]
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    Biological materials

    Mutant

  • BKE23280 ([gene|3DFCF7C5FE15C9A3E9E7E4B0DA8E926B85DBD180|ribD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE23280 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTTGTTTCCCTCCCCTCT, downstream forward: _UP4_CCGACAAAGGAATAGGATGG
  • BKK23280 ([gene|3DFCF7C5FE15C9A3E9E7E4B0DA8E926B85DBD180|ribD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK23280 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTTGTTTCCCTCCCCTCT, downstream forward: _UP4_CCGACAAAGGAATAGGATGG

    • References

  • 12456892,15808508,18986985,8159171,7934830,23270261,26494285,29794222,29864427,32817529