ryhB:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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Standard name

RyhB RNA

Synonyms

regulatory sRNA[1], SraI[2][1], PsrA18[2][1], RyhB[2][1], IS176[2][1]

Product description

regulatory antisense RNA involved in iron homeostasis[2][3]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
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Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0040033

negative regulation of translation, ncRNA-mediated

PMID:14617150[4]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0040033

negative regulation of translation, ncRNA-mediated

PMID:17264113[5]

IEP: Inferred from Expression Pattern

P

complete

GO:0070928

regulation of mRNA stability, ncRNA-mediated

PMID:12975324[6]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Fur

represses ryhB synthesis in the presence of iron

PMID:11917098[7]

fur- mutant derepresses RyhB synthesis

Protein

Hfq RNA binding protein

RyhB depends on Hfq RNA-binding protein for function

PMID:11917098[7]

hfq mutant reverses the effect of fur- mutatns for growth on succinate and fumarate; hfq mutant acts phenotypically like an ryhB- strain

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Notes

Localization

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Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties

Type

sRNA

Sequence 
GCGAUCAGGA AGACCCUCGC GGAGAACCUG AAAGCACGAC AUUGCUCACA UUGCUUCCAG
UAUUACUUAG CCAGCCGGGU GCUGGCUUUU
Mol. Wt

29071.31

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Domains/Motifs/Modification Sites

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Type Residues Description Notes References
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Structure
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Structures

<beststructure> gene=ryhB taxon=562,83333 </beststructure>

Models

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Structure figures

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Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:G0-8872

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG31133

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002584

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4294

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0047271

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ Vecerek, B et al. (2003) Interaction of the RNA chaperone Hfq with mRNAs: direct and indirect roles of Hfq in iron metabolism of Escherichia coli. Mol. Microbiol. 50 897-909 PubMed
  5. ↑ Urban, JH & Vogel, J (2007) Translational control and target recognition by Escherichia coli small RNAs in vivo. Nucleic Acids Res. 35 1018-37 PubMed
  6. ↑ Massé, E et al. (2003) Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli. Genes Dev. 17 2374-83 PubMed
  7. ↑ 7.0 7.1 Massé, E & Gottesman, S (2002) A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 99 4620-5 PubMed

Categories

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