yabC [2019-07-19 10:10:00]

similar to 16S rRNA methyltransferase

locus: BSU_00360

pI: 5.52

mw: 32.89 kDa

protein length: 292 aa

gene length: 879 bp

function: rRNA modification

product: 16S rRNA methyltransferase

essential: no

synonyms

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.1|Translation] → [category|SW 3.3.1.3|rRNA modification and maturation/ based on similarity]

Gene

Coordinates: 43,921 → 44,799

The protein

Catalyzed reaction/ biological activity

• Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA (according to UniProt)
• cytidine1402 in 16S rRNA + S-adenosyl-L-methionine = 2'-O-methylcytidine1402 in 16S rRNA + H+ + S-adenosyl-L-homocysteine (according to UniProt)

Protein family

• [SW|Methyltransferase superfamily] (according to UniProt)

Structure

• [PDB|3KWP] (from ''Lactobacillus brevis'', 51% identity)

[SW|Localization]

• cytoplasm (according to UniProt)

Expression and Regulation

Operons

• genes: [gene|08314FA6195D553B8522BCD3B45FEE0EAB51F64D|xpaC]-[gene|5231A0EE9C5A7556817B686D5B2B7B72B675BCAC|yaaN]-[gene|EEF3E572ED2F23581EB9B48D16B3112B886F7975|yaaO]-[gene|5B9984BBCEC1244628DC1467BE26976AD8E06286|tmk]-[gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

• genes: [gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

  regulation

  • expressed during growth and the transition phase, expression is erduced in stationary phase [Pubmed|23490197]

• genes: [gene|5B9984BBCEC1244628DC1467BE26976AD8E06286|tmk]-[gene|31C8DCB4E1E225AC92EC2E11835234C4668AB326|darA]-[gene|3422E4C34EAAF355A9767F1AD8DFAE9A6A756F0C|yaaR]-[gene|DC867376EF4F9CC7663A9B76AA260AC3CA11595A|holB]-[gene|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|yaaT]-[gene|A039228A3805F4E7C5C2AE31C7DB0808562E88E3|yabA]-[gene|55C4B4B7B46B6D04EF712BD79407C0B04DDC6A34|trmN6]-[gene|47859E62AABA5A57AC6F5F80CDE4ED52FC7F879F|yazA]-[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]
  description: [Pubmed|22383849]

Biological materials

Mutant

• MGNA-B903 (yabC::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1902 NBRP B. subtilis, Japan]
• BKE00360 (Δ[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE00360 BGSC], [Pubmed|28189581], upstream reverse: _UP1_AAGAATCCCCATGTCCGACT, downstream forward: _UP4_TAAAAAAACGTTCTTGTGTC
• BKK00360 (Δ[gene|FB71FFDEABF17228CA2BD5F3DE0C8A9A2C22485D|yabC]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK00360 BGSC], [Pubmed|28189581], upstream reverse: _UP1_AAGAATCCCCATGTCCGACT, downstream forward: _UP4_TAAAAAAACGTTCTTGTGTC

References

• 19965768,22383849