ribR [2019-08-08 13:19:12]

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]

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