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Protein

mRNA interferase RelE

Gene

relE

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Toxic component of a type II toxin-antitoxin (TA) module (PubMed:9767574). A sequence-specific, ribosome-dependent mRNA endoribonuclease that inhibits translation during amino acid starvation (the stringent response). In vitro acts by cleaving mRNA with high codon specificity in the ribosomal A site between positions 2 and 3. The stop codon UAG is cleaved at a fast rate while UAA and UGA are cleaved with intermediate and slow rates. In vitro mRNA cleavage can also occur in the ribosomal E site after peptide release from peptidyl-tRNA in the P site as well as on free 30S subunits (PubMed:12526800). In vivo cuts frequently in the first 100 codons, most frequently after the second and third base and rarely near the stop codon (PubMed:21324908). Overexpression of RelE results in the inhibition of bacterial growth and a sharp decrease in colony-forming ability which is neutralized by the labile cognate antitoxin RelB. Overexpression also sharply increases persisters (cells that neither grow nor die in the presence of bactericidal agents and are largely responsible for high levels of biofilm tolerance to antimicrobials) (PubMed:15576765). Plays a role in dormancy when expressed in high-density cells in the absence of antitoxin RelB; amino acid starvation and an unidentified extracellular factor promote dormancy, while expression of antitoxin RelB restores cell culturability (PubMed:22210768). Acts with RelB as a corepressor of relBE transcription, considerably increasing the repression of RelB alone. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity (PubMed:9767574, PubMed:19747491, PubMed:18501926, PubMed:22981948).14 Publications
Seems to be a principal mediator of cell death in liquid media (PubMed:19707553). Implicated in hydroxy radical-mediated cell death induced by hydroxyurea treatment (PubMed:20005847).2 Publications
Cross-talk can occur between different TA modules. Ectopic expression of this toxin induces transcription of 7 tested TA modules (dinJ/yafQ, hicAB, mazEF, mqsRA, prlF(sohA)/yhaV, relBEF and yefM/yoeB) with specific cleavage of the relBEF mRNA produced immediately upstream and within the relB coding sequence. The cleaved mRNA can be translated into RelE, leading to a positive feedback cycle of RelE expression. The relBEF operon is required for transcription of the mazEF TA module operon during amino acid starvation.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei52 – 521Proton acceptor1 Publication
Sitei54 – 541Transition state stabilizer1 Publication
Sitei61 – 611Transition state stabilizer1 Publication
Active sitei81 – 811Proton donor1 Publication

GO - Molecular functioni

  • endoribonuclease activity Source: EcoCyc
  • ribosome binding Source: EcoCyc
  • rRNA binding Source: UniProtKB-KW

GO - Biological processi

  • cellular response to amino acid starvation Source: EcoCyc
  • mRNA catabolic process Source: EcoCyc
  • negative regulation of translation Source: EcoCyc
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • response to antibiotic Source: EcoCyc
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease, Repressor, Toxin

Keywords - Biological processi

Antibiotic resistance, Stress response, Transcription, Transcription regulation

Keywords - Ligandi

RNA-binding, rRNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG11131-MONOMER.
ECOL316407:JW1555-MONOMER.
MetaCyc:EG11131-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
mRNA interferase RelE (EC:3.1.-.-)
Alternative name(s):
Endoribonuclease RelE
Toxin RelE
Gene namesi
Name:relE
Ordered Locus Names:b1563, JW1555
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11131. relE.

Pathology & Biotechi

Disruption phenotypei

Cells missing relBE have a higher steady-state level of translation during amino acid starvation than wild-type cells. They survive antibiotic treatment in log phase better than wild-type cells. Cells missing mazE-mazF survive hydroxyurea treatment better than wild-type; further disruption of relE-relB and tonB yields even better survival (PubMed:20005847).3 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi52 – 521K → A: Reduces mRNA cleavage rate constant 2100-fold. Reduces mRNA cleavage rate constant 1000000-fold; when associated with F-87. 1 Publication
Mutagenesisi54 – 541K → A: Reduces mRNA cleavage rate constant 2700-fold. 1 Publication
Mutagenesisi61 – 611R → A: Reduces mRNA cleavage rate constant 2700000-fold. 2 Publications
Mutagenesisi81 – 833RER → AEA: Significant reduction in endonuclease activity, still binds RelB. 1 Publication
Mutagenesisi81 – 811R → A: Reduces mRNA cleavage rate constant 60000-fold, significantly less translation inhibition which is countered by RelB. Almost complete loss of mRNA cleavage; when associated with F-87. 3 Publications
Mutagenesisi87 – 871Y → A: Reduces mRNA cleavage rate constant 180000-fold. 2 Publications
Mutagenesisi87 – 871Y → F: Reduces mRNA cleavage rate constant 130-fold. Almost complete loss of mRNA cleavage; when associated with A-81 (Ref.20). Reduces mRNA cleavage rate constant 1000000-fold; when associated with A-52 (Ref.18). 2 Publications
Mutagenesisi90 – 956AVKRIL → VTVTVT: Does not inhibit translation. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 9595mRNA interferase RelEPRO_0000097245Add
BLAST

Proteomic databases

PaxDbiP0C077.
PRIDEiP0C077.

Expressioni

Inductioni

By amino acid starvation, by glucose starvation and by chloramphenicol; induction is independent of ppGpp. Autorepressed by RelB, RelE acts as a corepressor (PubMed:9767574, PubMed:19747491, PubMed:18501926, PubMed:22981948). Member of the relBEF operon (PubMed:2990907). Operon induced by ectopic expression of toxins HicA, HipA, MazF, MqsR and itself, but not by YafQ (PubMed:23432955).8 Publications

Gene expression databases

CollecTFiEXPREG_00000890.

Interactioni

Subunit structurei

Forms an RelB(2)-RelE2 heterotetramer (PubMed:18501926, PubMed:22981948). Also forms an RelB(2)-RelE heterotrimer (PubMed:18532983, PubMed:19747491). The RelB(2)-RelE complex is probably the one that binds DNA and represses transcription, possibly as 2 heterotrimers, 1 bound to each of 2 operators (PubMed:22981948, PubMed:19747491). RelE occupies the A site of the 70S ribosome, making extensive contacts with the 16S rRNA. Its presence blocks access of tRNAs and translation factors. RelB bound to RelE prevents RelE from entering the ribosomal A site and thus inhibits its endonuclease activity (PubMed:19297318).6 Publications

Protein-protein interaction databases

BioGridi4260243. 127 interactions.
DIPiDIP-35978N.
IntActiP0C077. 11 interactions.
MINTiMINT-1282331.
STRINGi511145.b1563.

Structurei

Secondary structure

1
95
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 74Combined sources
Helixi9 – 179Combined sources
Helixi20 – 3516Combined sources
Helixi40 – 423Combined sources
Beta strandi45 – 473Combined sources
Beta strandi50 – 545Combined sources
Turni56 – 594Combined sources
Beta strandi60 – 678Combined sources
Helixi68 – 703Combined sources
Beta strandi72 – 809Combined sources
Helixi82 – 843Combined sources
Helixi85 – 9410Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2KC8NMR-A1-95[»]
2KC9NMR-A1-95[»]
4FXEX-ray2.75D/E/F1-95[»]
4FXHX-ray2.40A/B1-95[»]
4FXIX-ray1.80A/B/C1-95[»]
4V7JX-ray3.30Ay/By1-95[»]
4V7KX-ray3.60Ay/By1-95[»]
ProteinModelPortaliP0C077.
SMRiP0C077. Positions 2-80.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0C077.

Family & Domainsi

Sequence similaritiesi

Belongs to the RelE toxin family.Curated

Phylogenomic databases

eggNOGiENOG4105K4U. Bacteria.
COG2026. LUCA.
HOGENOMiHOG000219994.
InParanoidiP0C077.
KOiK06218.
OMAiPRVEANR.

Family and domain databases

InterProiIPR007712. RelE/ParE_toxin.
[Graphical view]
PfamiPF05016. ParE_toxin. 1 hit.
[Graphical view]
TIGRFAMsiTIGR02385. RelE_StbE. 1 hit.

Sequencei

Sequence statusi: Complete.

P0C077-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAYFLDFDER ALKEWRKLGS TVREQLKKKL VEVLESPRIE ANKLRGMPDC
60 70 80 90
YKIKLRSSGY RLVYQVIDEK VVVFVISVGK RERSEVYSEA VKRIL
Length:95
Mass (Da):11,225
Last modified:April 1, 1988 - v1
Checksum:iF516B2E7A437CCEC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X02405 Genomic DNA. Translation: CAA26251.1.
U00096 Genomic DNA. Translation: AAC74636.1.
AP009048 Genomic DNA. Translation: BAA15262.1.
PIRiB22830. QQECR1.
RefSeqiNP_416081.1. NC_000913.3.
WP_000323025.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74636; AAC74636; b1563.
BAA15262; BAA15262; BAA15262.
GeneIDi947549.
KEGGiecj:JW1555.
eco:b1563.
PATRICi32118432. VBIEscCol129921_1636.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X02405 Genomic DNA. Translation: CAA26251.1.
U00096 Genomic DNA. Translation: AAC74636.1.
AP009048 Genomic DNA. Translation: BAA15262.1.
PIRiB22830. QQECR1.
RefSeqiNP_416081.1. NC_000913.3.
WP_000323025.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2KC8NMR-A1-95[»]
2KC9NMR-A1-95[»]
4FXEX-ray2.75D/E/F1-95[»]
4FXHX-ray2.40A/B1-95[»]
4FXIX-ray1.80A/B/C1-95[»]
4V7JX-ray3.30Ay/By1-95[»]
4V7KX-ray3.60Ay/By1-95[»]
ProteinModelPortaliP0C077.
SMRiP0C077. Positions 2-80.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260243. 127 interactions.
DIPiDIP-35978N.
IntActiP0C077. 11 interactions.
MINTiMINT-1282331.
STRINGi511145.b1563.

Proteomic databases

PaxDbiP0C077.
PRIDEiP0C077.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74636; AAC74636; b1563.
BAA15262; BAA15262; BAA15262.
GeneIDi947549.
KEGGiecj:JW1555.
eco:b1563.
PATRICi32118432. VBIEscCol129921_1636.

Organism-specific databases

EchoBASEiEB1121.
EcoGeneiEG11131. relE.

Phylogenomic databases

eggNOGiENOG4105K4U. Bacteria.
COG2026. LUCA.
HOGENOMiHOG000219994.
InParanoidiP0C077.
KOiK06218.
OMAiPRVEANR.

Enzyme and pathway databases

BioCyciEcoCyc:EG11131-MONOMER.
ECOL316407:JW1555-MONOMER.
MetaCyc:EG11131-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0C077.
PROiP0C077.

Gene expression databases

CollecTFiEXPREG_00000890.

Family and domain databases

InterProiIPR007712. RelE/ParE_toxin.
[Graphical view]
PfamiPF05016. ParE_toxin. 1 hit.
[Graphical view]
TIGRFAMsiTIGR02385. RelE_StbE. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRELE_ECOLI
AccessioniPrimary (citable) accession number: P0C077
Secondary accession number(s): P07008
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: April 1, 1988
Last modified: September 7, 2016
This is version 93 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

There are estimated to be 550-1100 RelB and 50-100 RelE molecules in rapidly growing cells of MG1655; as they have quite high affinity for each other (dissociation constant of 0.33 nM) there is probably less than 1 free RelE molecule per cell. The RelB(2)-RelE complex has a half-life of over 70 minutes.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.