ribR

riboflavin kinase with preference for dihydroriboflavin, binds FMN riboswitches of the rib operon and of ribU to allow expression even in the presence of FMN, required for the conversion of S-methyl-cysteine to cysteine

locus: BSU_29300

pI: 9.28

mw: 26.08 kDa

protein length: 230 aa

gene length: 693 bp

function: utilization of S-methyl-cysteine, regulation of rib operon expression

product: riboflavin kinase with preference for dihydroriboflavin

essential: no

synonyms: ytnK,rbfK

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.4|Sulfur metabolism] → [category|SW 2.6.4.1|Conversion of S-methyl cysteine to cysteine]
• [category|SW 6|Groups of genes] → [category|SW 6.6|Poorly characterized/ putative enzymes]

Gene

Coordinates: 3,000,985 3,001,677

Phenotypes of a mutant

• no growth with S-methyl cysteine [Pubmed|23944997]

The protein

Catalyzed reaction/ biological activity

• synthesis of FMNH₂ [Pubmed|26494285]
• binds the [SW|FMN riboswitch] [Pubmed|26494285]
• prevents transcription termination of the ''[gene|3DFCF7C5FE15C9A3E9E7E4B0DA8E926B85DBD180|ribD]-[gene|4E18BD4B084094EE4FBC8FE2AC95B14581D20C0F|ribE]-[gene|F07B7062C850106A95C15978E36DA500F8B089D6|ribA]-[gene|2A5DCBFAB51996F0DDEC964D5D178274AF86CE69|ribH]-[gene|8146A052E4E7844F781E7169C264EC927DEB7387|ribT]'' operon even in the presence of FMN or FMNH₂ [Pubmed|26494285]
• prevents sequestration of the ribosome binding site of the ''[gene|651C370386E9FB45E3B98001800D342FEDB43E9A|ribU]'' mRNA even in the presence of FMN or FMNH₂ [Pubmed|26494285]
• ATP + riboflavin --> ADP + FMN + H⁺ (according to UniProt)

Protein family

• RibR family (single member, according to UniProt)

Paralogous protein(s)

• [protein|85E732993186528CF58FECFFE89C8F39D278F28D|RibC]:

Expression and Regulation

Operons

• genes: [gene|E3F1B3A4086DBC40FD9AE9CD6981270FBDFA6CAF|snaA]-[gene|A6A13C54177381CE78ABA2CFC2A3F2CE12099F15|tcyJ]-[gene|A8FA40EACDB15CF53DDDA725A3AA5A6EB654FA8B|tcyK]-[gene|350C97E4A4C60A6E2FF9610D50B4A49FB9F9B42D|tcyL]-[gene|B1DD32A3B3D1C0C5391A40834940257357A2F30F|tcyM]-[gene|B24763A732111026D21C828FF9BE73FB22A123CF|tcyN]-[gene|EDC3565D90D7059A4A4C66A13EB568420F6CECD4|cmoO]-[gene|FCD25CA4414D689B217F54B0C44EB805F9590454|cmoI]-[gene|8145952307BC47805A7A9BD39418474358043BFE|cmoJ]-[gene|3D32B6C1DC9CAC615B02E14EA846648C3B0E61D6|ribR]-[gene|0DE66A10D9475DC57A140561E8532D3EC038FD6F|sndA]-[gene|910EAAF48C85D0364751EC9585121246AF677431|ytnM]
  description: [Pubmed|15668000]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|15272571], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|50930C56C27D22715620A350220E3C56ADB41020|CymR]: repression, [Pubmed|16109943], in [regulon|50930C56C27D22715620A350220E3C56ADB41020|CymR regulon]
  • [protein|741156D495BE3857683C8A0390764EAD83845ABC|AscR]: activation, [Pubmed|16109943], in [regulon|741156D495BE3857683C8A0390764EAD83845ABC|AscR regulon]

  regulation

  • induced in the presence of methionine and taurine [Pubmed|11390694]

Biological materials

Mutant

• MGNA-A154 (ribR::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/154 NBRP B. subtilis, Japan]
• BKE29300 ([gene|3D32B6C1DC9CAC615B02E14EA846648C3B0E61D6|ribR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE29300 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CAAAAAAGTCAGCCTCCTCT, downstream forward: _UP4_GGATAGGGAAAGGAGCGGAA
• BKK29300 ([gene|3D32B6C1DC9CAC615B02E14EA846648C3B0E61D6|ribR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK29300 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CAAAAAAGTCAGCCTCCTCT, downstream forward: _UP4_GGATAGGGAAAGGAGCGGAA

References

• 17590224,15668000,16109943,15272571,23944997,11390694,26494285