ymcA [2019-09-20 18:07:50]

subunit of the regulatory iron-sulfur containing [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex, required for [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] dependent maturation of polycistronic mRNAs, antagonist of biofilm repression by [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR], control of the [SW|phosphorelay]

locus: BSU_17020

pI: 5.09

mw: 16.02 kDa

protein length: 143 aa

gene length: 432 bp

function: control of [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y] activity, see [SW|Targets of the Y complex]

product: subunit of the regulatory iron-sulfur containing [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex

essential: no

synonyms: ricA

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.2|RNA synthesis and degradation] → [category|SW 3.2.4|RNases] → [category|SW 3.2.4.5|Effectors of RNA degradation]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.2|Transcription factors and their control] → [category|SW 3.4.2.7|Control of transcription factor (other than two-component system)]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.7|phosphorelay] → [category|SW 3.4.7.6|Other protein controlling the activity of the phosphorelay]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation] → [category|SW 4.1.2.5|Other proteins required for biofilm formation]
• [category|SW 4|Lifestyles] → [category|SW 4.2|Sporulation] → [category|SW 4.2.2|phosphorelay] → [category|SW 4.2.2.6|Other protein controlling the activity of the phosphorelay]

Gene

Coordinates: 1,774,374 → 1,774,805

Phenotypes of a mutant

• strongly reduced [SW|genetic competence], strongly reduced [SW|sporulation] [Pubmed|23490197]
• defective in [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y]-mediated maturation of polycistronic mRNAs, see [SW|Targets of the Y complex] [pubmed|29794222]

The protein

Catalyzed reaction/ biological activity

• the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex acts as specificity factor for [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y]-dependent processing of polycistronic mRNAs, see [SW|Targets of the Y complex] [pubmed|29794222]
• the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex stimulates [protein|2C54FE2ADC82FF414D732018C90649D477A925AD|Spo0A] phosphorylation in the [category|SW 4.2.2|phosphorelay] [pubmed|27501195]

Structure

• [PDB|2PIH]

[SW|Localization]

• cytoplasm [pubmed|27501195]

Expression and Regulation

Operons

• genes: [gene|7C9F99FF1BCDB0E1CFB0AFE959C7F16A99562E18|ymcB]-[gene|EE52DFA35B935E551871D079A9BE877DB2001A3B|ymcA]
  description: [Pubmed|22383849]

Biological materials

Mutant

• BKE17020 (Δ[gene|EE52DFA35B935E551871D079A9BE877DB2001A3B|ymcA]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE17020 BGSC] and in [SW|Jörg Stülke]'s lab, [Pubmed|28189581], upstream reverse: _UP1_GTCTTTTTTTGAGTAGAGCG, downstream forward: _UP4_TAAACACGGTGCCTTTACAG
• BKK17020 (Δ[gene|EE52DFA35B935E551871D079A9BE877DB2001A3B|ymcA]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK17020 BGSC], [Pubmed|28189581], upstream reverse: _UP1_GTCTTTTTTTGAGTAGAGCG, downstream forward: _UP4_TAAACACGGTGCCTTTACAG

References

• 15661000,23490197,15175311,26434553,28295778,27501195,29794222,30265683