yrvO

168

cysteine desulfurase, sulfur transfer to [protein|2F5DFBE980FFF5810B76BCFCD189BA0F6C415B4F|trmU], involved in 2-thiouridine (s²U) modification of the wobble position in glutamate, glutamine and lysine tRNA molecules

locus: BSU_27510

Molecular weight: 41.03 kDa

pI: 5.46

Protein length: 379 aa

Gene length: 1140 bp

function: tRNA modification

product: cysteine desulfurase

essential: yes

ec: 2.8.1.7

synonyms: nifS, iscS, iscS1, YrvO

List of homologs in different organisms, belongs to COG1104 (Galperin et al., 2021)

Gene

Coordinates: 2,810,559  2,811,698

Phenotypes of a mutant

• essential [Pubmed|12682299]

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The protein

Catalyzed reaction/ biological activity

• 2-thiouridine (s2U) modification of the wobble position in glutamate, glutamine and lysine tRNA molecules (together with [protein|2F5DFBE980FFF5810B76BCFCD189BA0F6C415B4F|trmU]) [Pubmed|25825430]
• U34 in tRNA + L-cysteine + ATP --> (s²U34 in tRNA) + alanine + AMP + ppi [Pubmed|25825430]

Protein family

• [wiki|Class-V pyridoxal-phosphate-dependent aminotransferase family] (according to UniProt)

[wiki|Cofactors]

• PLP [pubmed|38187551]

Structure

• [PDB|1EG5] (from Thermotoga maritima, 37% identity, 54% similarity) [Pubmed|10715213]
• [AF|O34599]

Modification

• phosphorylated on Arg-385 [Pubmed|22517742]

Paralogous protein(s)

• [protein|5424A936643C90B3DA2CB60FD0FD42A64F2BAF09|ycbU], [protein|741DCFFBB8FF6A4E357EE5110EBE24412DE34244|nifZ], [protein|88ACE6B79534338F7C72F107B35A0B2384007088|sufS], [protein|A6746AE1B92A0CDCCB22B57B6DF78094BB0223A8|nifS]

Expression and Regulation

Operons

• genes: [gene|50930C56C27D22715620A350220E3C56ADB41020|cymR]-[gene|4F5945C3C8F18BD1B30D97CD516A06077C200B9D|yrvO]-[gene|2F5DFBE980FFF5810B76BCFCD189BA0F6C415B4F|trmU]-[gene|07DFF7D7BE1BACFB148F600400BDE5933BF1DD07|yrrB]-[gene|A3D05FE662CCCFE79B3CB38486206413B84E5D80|recD2]

  description: [Pubmed|22383849]

• genes: [gene|50930C56C27D22715620A350220E3C56ADB41020|cymR]-[gene|4F5945C3C8F18BD1B30D97CD516A06077C200B9D|yrvO]-[gene|2F5DFBE980FFF5810B76BCFCD189BA0F6C415B4F|trmU]

  description: [Pubmed|16885442]

  regulation

  • [protein|search|RelA] dependent downregulation (Class I) during stringent response [Pubmed|11948165]

  regulatory mechanism

  • stringent response: negative regulation, in [regulon|other_regulator:stringent response|stringent response]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [Pubmed|16885442], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]

Biological materials

Mutant

• MGNA-A828 (yrvO::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/828 NBRP B. subtilis, Japan]

References

Reviews

• 34201508

Original Publications

• 16885442,11948165,10715213,22517742,12682299,17064282,25825430,35467390,38187551