rne ribonuclease E [Escherichia coli str. K-12 substr. MG1655] - Gene

Summary

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Official Symbol: rne
Official Full Name: ribonuclease E
Primary source: ECOCYC:EG10859
Locus tag: b1084
See related: ASAP:ABE-0003668
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as: ams; ECK1069; hmp1; smbB
Summary: The degradosome is organized with a helical cytoskeletal localization (Taghbalout, 2007). [More information is available at EcoGene: EG10859]. Ribonuclease E (RNase E) is a single-strand-specific endonuclease that is essential for viability. [More information is available at EcoCyc: EG10859].
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Genomic context

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Sequence:: NC_000913.3 (1141182..1144367, complement)

NC_000913.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Unraveling the interplay between a small RNA and RNase E in bacteria.
Title: Unraveling the interplay between a small RNA and RNase E in bacteria.
Graded impact of obstacle size on scanning by RNase E.
Title: Graded impact of obstacle size on scanning by RNase E.
The C nucleotide at the mature 5' end of the Escherichia coli proline tRNAs is required for the RNase E cleavage specificity at the 3' terminus as well as functionality.
Title: The C nucleotide at the mature 5' end of the Escherichia coli proline tRNAs is required for the RNase E cleavage specificity at the 3' terminus as well as functionality.
Escherichia coli RNase E can efficiently replace RNase Y in Bacillus subtilis.
Title: Escherichia coli RNase E can efficiently replace RNase Y in Bacillus subtilis.
accumulation of GlmZ* prevents complete GlmZ turnover. This mechanism may serve to adjust a robust glmS basal expression level that is buffered against fluctuations in RapZ availability.
Title: Feedback regulation of small RNA processing by the cleavage product.
we have examined RNase E variants bearing extended C-terminal truncations in combination with substitutions in the active site or 5'-sensor pocket. We show that intragenic or allelic complementation occurs in RNase E, whereby enzyme activity is restored and strains are rendered viable when pairs of individually inactive mutant proteins are mixed together or co-expressed
Title: Cross-subunit catalysis and a new phenomenon of recessive resurrection in Escherichia coli RNase E.
These findings suggest that RNase E searches for cleavage sites by scanning linearly from the 5'-terminal monophosphate along single-stranded regions of RNA and that its progress is impeded by structural discontinuities encountered along the way.
Title: Obstacles to Scanning by RNase E Govern Bacterial mRNA Lifetimes by Hindering Access to Distal Cleavage Sites.
Moreover, our assays of MicL, ArcZ and CpxQ showed that sRNAs exhibit differential sensitivity to RNase E, likely a consequence of a hierarchy of sRNA features recognized by the endonuclease.
Title: Stem-loops direct precise processing of 3' UTR-derived small RNA MicL.
This study suggests that, rather than its role in the processing of any one particular substrate, its distributed functions on all the different substrates (mRNA, rRNA, and tRNA) are responsible for the essentiality of RNase E in E. coli.
Title: Decreased Expression of Stable RNA Can Alleviate the Lethality Associated with RNase E Deficiency in Escherichia coli.
Small RNAs processing and Hfq binding determinants for RNase E: RNase E cleaves any RNA fused to the 3' end.
Title: Domain swapping between homologous bacterial small RNAs dissects processing and Hfq binding determinants and uncovers an aptamer for conditional RNase E cleavage.

Submit: New GeneRIF Correction See all GeneRIFs (28)

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by EcoCyc

Function	Evidence Code	Pubs
enables 7S RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables 7S RNA binding	IPI Inferred from Physical Interaction more info	PubMed
enables DEAD/H-box RNA helicase binding	IPI Inferred from Physical Interaction more info	PubMed
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA endonuclease activity	IEA Inferred from Electronic Annotation more info
enables RNA nuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables endonuclease activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables magnesium ion binding	IEA Inferred from Electronic Annotation more info
enables magnesium ion binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables molecular adaptor activity	EXP Inferred from Experiment more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables rRNA binding	IEA Inferred from Electronic Annotation more info
enables ribonuclease E activity	IDA Inferred from Direct Assay more info	PubMed
enables ribonuclease E activity	IEA Inferred from Electronic Annotation more info
enables tRNA binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in RNA catabolic process	NAS Non-traceable Author Statement more info	PubMed
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
involved_in RNA processing	NAS Non-traceable Author Statement more info	PubMed
involved_in mRNA catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein complex oligomerization	IPI Inferred from Physical Interaction more info	PubMed
acts_upstream_of_or_within protein homotetramerization	IPI Inferred from Physical Interaction more info	PubMed
acts_upstream_of_or_within rRNA 5'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in rRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of RNA helicase activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of bacterial degradosome	IDA Inferred from Direct Assay more info	PubMed
part_of bacterial degradosome	IPI Inferred from Physical Interaction more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic side of plasma membrane	IEA Inferred from Electronic Annotation more info
part_of endoribonuclease complex	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ribonuclease E

NP_415602.1

EC 3.1.26.12

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_000913.3 Reference assembly

Range

1141182..1144367 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NP_415602.1 ribonuclease E [Escherichia coli str. K-12 substr. MG1655]

See identical proteins and their annotated locations for NP_415602.1

Status: PROVISIONAL

UniProtKB/TrEMBL

A0A1X3I9N5

Conserved Domains (1) summary

PRK10811
Location:1 → 1058

rne; ribonuclease E; Reviewed