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Protein

ATP-dependent RNA helicase RhlB

Gene

rhlB

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

Functioni

DEAD-box RNA helicase involved in RNA degradation. Has RNA-dependent ATPase activity and unwinds double-stranded RNA.UniRule annotation3 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.UniRule annotation2 Publications

Enzyme regulationi

ATPase activity is stimulated by interaction with RNase E.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi53 – 608ATPUniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. ATP-dependent helicase activity Source: EcoCyc
  3. ATP-dependent RNA helicase activity Source: UniProtKB-HAMAP
  4. RNA binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. RNA catabolic process Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10844-MONOMER.
ECOL316407:JW3753-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase RhlBUniRule annotation (EC:3.6.4.13UniRule annotation)
Gene namesi
Name:rhlBUniRule annotation
Synonyms:mmrA
Ordered Locus Names:b3780, JW3753
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10844. rhlB.

Subcellular locationi

  1. Cytoplasm UniRule annotation1 Publication

  2. Note: Forms a cytoskeletal-like coiled structure that extends along the length of the cell. Formation of this structure does not require the presence of RNase E, MinD and/or MreB.

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 421420ATP-dependent RNA helicase RhlBPRO_0000200769Add
BLAST

Proteomic databases

PaxDbiP0A8J8.
PRIDEiP0A8J8.

Expressioni

Gene expression databases

GenevestigatoriP0A8J8.

Interactioni

Subunit structurei

Component of the RNA degradosome, which is a multiprotein complex involved in RNA processing and mRNA degradation. Binds to RNase E (rne) and PNPase (pnp). Forms multimers.UniRule annotation4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
pnpP050556EBI-555806,EBI-548080
rneP2151316EBI-555806,EBI-549958
rneQ1ZS714EBI-555806,EBI-8525650From a different organism.

Protein-protein interaction databases

DIPiDIP-35644N.
IntActiP0A8J8. 32 interactions.
MINTiMINT-8049290.
STRINGi511145.b3780.

Structurei

3D structure databases

ProteinModelPortaliP0A8J8.
SMRiP0A8J8. Positions 9-379.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini40 – 219180Helicase ATP-bindingUniRule annotationAdd
BLAST
Domaini245 – 390146Helicase C-terminalUniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi9 – 3729Q motifAdd
BLAST
Motifi165 – 1684DEAD box

Sequence similaritiesi

Belongs to the DEAD box helicase family. RhlB subfamily.UniRule annotation
Contains 1 helicase ATP-binding domain.UniRule annotation
Contains 1 helicase C-terminal domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0513.
HOGENOMiHOG000268807.
InParanoidiP0A8J8.
KOiK03732.
OMAiRVQELAY.
OrthoDBiEOG6GBMBM.
PhylomeDBiP0A8J8.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
HAMAPiMF_00661. DEAD_helicase_RhlB.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR023554. RNA_helicase_ATP-dep_RhlB.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0A8J8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKTHLTEQK FSDFALHPKV VEALEKKGFH NCTPIQALAL PLTLAGRDVA
60 70 80 90 100
GQAQTGTGKT MAFLTSTFHY LLSHPAIADR KVNQPRALIM APTRELAVQI
110 120 130 140 150
HADAEPLAEA TGLKLGLAYG GDGYDKQLKV LESGVDILIG TTGRLIDYAK
160 170 180 190 200
QNHINLGAIQ VVVLDEADRM YDLGFIKDIR WLFRRMPPAN QRLNMLFSAT
210 220 230 240 250
LSYRVRELAF EQMNNAEYIE VEPEQKTGHR IKEELFYPSN EEKMRLLQTL
260 270 280 290 300
IEEEWPDRAI IFANTKHRCE EIWGHLAADG HRVGLLTGDV AQKKRLRILD
310 320 330 340 350
EFTRGDLDIL VATDVAARGL HIPAVTHVFN YDLPDDCEDY VHRIGRTGRA
360 370 380 390 400
GASGHSISLA CEEYALNLPA IETYIGHSIP VSKYNPDALM TDLPKPLRLT
410 420
RPRTGNGPRR TGAPRNRRRS G
Length:421
Mass (Da):47,126
Last modified:January 23, 2007 - v2
Checksum:i48E1ADD025CBFA1A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti72 – 721L → H in X56310 (PubMed:1931833).Curated
Sequence conflicti340 – 3401Y → S in X56310 (PubMed:1931833).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56310 Genomic DNA. No translation available.
M87049 Genomic DNA. Translation: AAA67581.1.
M83316 Genomic DNA. Translation: AAB59048.1.
U00096 Genomic DNA. Translation: AAC76785.1.
AP009048 Genomic DNA. Translation: BAE77518.1.
PIRiG65181.
RefSeqiNP_418227.1. NC_000913.3.
YP_491659.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76785; AAC76785; b3780.
BAE77518; BAE77518; BAE77518.
GeneIDi12934326.
948290.
KEGGiecj:Y75_p3395.
eco:b3780.
PATRICi32123051. VBIEscCol129921_3895.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X56310 Genomic DNA. No translation available.
M87049 Genomic DNA. Translation: AAA67581.1.
M83316 Genomic DNA. Translation: AAB59048.1.
U00096 Genomic DNA. Translation: AAC76785.1.
AP009048 Genomic DNA. Translation: BAE77518.1.
PIRiG65181.
RefSeqiNP_418227.1. NC_000913.3.
YP_491659.1. NC_007779.1.

3D structure databases

ProteinModelPortaliP0A8J8.
SMRiP0A8J8. Positions 9-379.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-35644N.
IntActiP0A8J8. 32 interactions.
MINTiMINT-8049290.
STRINGi511145.b3780.

Proteomic databases

PaxDbiP0A8J8.
PRIDEiP0A8J8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76785; AAC76785; b3780.
BAE77518; BAE77518; BAE77518.
GeneIDi12934326.
948290.
KEGGiecj:Y75_p3395.
eco:b3780.
PATRICi32123051. VBIEscCol129921_3895.

Organism-specific databases

EchoBASEiEB0837.
EcoGeneiEG10844. rhlB.

Phylogenomic databases

eggNOGiCOG0513.
HOGENOMiHOG000268807.
InParanoidiP0A8J8.
KOiK03732.
OMAiRVQELAY.
OrthoDBiEOG6GBMBM.
PhylomeDBiP0A8J8.

Enzyme and pathway databases

BioCyciEcoCyc:EG10844-MONOMER.
ECOL316407:JW3753-MONOMER.

Miscellaneous databases

PROiP0A8J8.

Gene expression databases

GenevestigatoriP0A8J8.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
HAMAPiMF_00661. DEAD_helicase_RhlB.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR023554. RNA_helicase_ATP-dep_RhlB.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "rhlB, a new Escherichia coli K-12 gene with an RNA helicase-like protein sequence motif, one of at least five such possible genes in a prokaryote."
    Kalman M., Murphy H., Cashel M.
    New Biol. 3:886-895(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. "Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes."
    Daniels D.L., Plunkett G. III, Burland V.D., Blattner F.R.
    Science 257:771-778(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "A DEAD-box RNA helicase in the Escherichia coli RNA degradosome."
    Py B., Higgins C.F., Krisch H.M., Carpousis A.J.
    Nature 381:169-172(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-16, FUNCTION, CATALYTIC ACTIVITY, SUBUNIT.
  6. "Ribonuclease E organizes the protein interactions in the Escherichia coli RNA degradosome."
    Vanzo N.F., Li Y.S., Py B., Blum E., Higgins C.F., Raynal L.C., Krisch H.M., Carpousis A.J.
    Genes Dev. 12:2770-2781(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY, ENZYME REGULATION, INTERACTION WITH RNASE E, SUBUNIT.
  7. "Reconstitution of a minimal RNA degradosome demonstrates functional coordination between a 3' exonuclease and a DEAD-box RNA helicase."
    Coburn G.A., Miao X., Briant D.J., Mackie G.A.
    Genes Dev. 13:2594-2603(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RNASE E, SUBUNIT.
  8. "DEAD box RhlB RNA helicase physically associates with exoribonuclease PNPase to degrade double-stranded RNA independent of the degradosome-assembling region of RNase E."
    Liou G.-G., Chang H.-Y., Lin C.-S., Lin-Chao S.
    J. Biol. Chem. 277:41157-41162(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH PNPASE AND RNASE E.
  9. "RNaseE and RNA helicase B play central roles in the cytoskeletal organization of the RNA degradosome."
    Taghbalout A., Rothfield L.
    J. Biol. Chem. 283:13850-13855(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, SUBUNIT.

Entry informationi

Entry nameiRHLB_ECOLI
AccessioniPrimary (citable) accession number: P0A8J8
Secondary accession number(s): P24229, Q2M888
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: January 23, 2007
Last modified: March 4, 2015
This is version 88 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

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

External Data

Dasty 3

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 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.