rhlB:Gene Product(s)

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

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

RhlB

Synonyms

ATP-dependent RNA helicase[1], B3780[2][1], MmrA[2][1], RhlB[2][1] , ECK3772, JW3753, mmrA?, b3780

Product description

EG10844[2][3];

Component of RhlB, ATP-dependent RNA helicase of the RNA degradosome[3]; degradosome[3]

ATP-dependent RNA helicase; unwinds dsRNA; component of RNA degradosome; also binds PNPase directly; DEAD box family[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000629

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001650

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0003724

RNA helicase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00661

F

Seeded from EcoCyc (v14.0)

complete

GO:0004386

helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001650

F

Seeded from EcoCyc (v14.0)

complete

GO:0004386

helicase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0347

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00661

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000629

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001650

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0006401

RNA catabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00661

P

Seeded from EcoCyc (v14.0)

complete

GO:0008026

ATP-dependent helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000629

F

Seeded from EcoCyc (v14.0)

complete

GO:0008026

ATP-dependent helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

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

Subunits of RhlB, ATP-dependent RNA helicase of the RNA degradosome

could be indirect

Protein

aceE

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

dnaK

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

eno

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-892949

Protein

pnp

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-883913, EBI-891089, EBI-892949

Protein

rne

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-888473, EBI-892949, EBI-893488

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-892949

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

rplK

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-892949

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

rpsD

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

rpsG

PMID:15690043[5]

Experiment(s):EBI-886554, EBI-892949

Protein

rpsJ

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

tufA

PMID:15690043[5]

Experiment(s):EBI-886554

Protein

rplA

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rplS

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rplU

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpmB

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpsF

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpsP

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpsS

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

rpsT

PMID:15690043[5]

Experiment(s):EBI-892949

Protein

dacA

PMID:16606699[6]

Experiment(s):EBI-1146674

Protein

nfrA

PMID:16606699[6]

Experiment(s):EBI-1146674

Protein

rplK

PMID:19402753[7]

MALDI(Z-score):17.053160

Protein

rpsM

PMID:19402753[7]

LCMS(ID Probability):98.5 MALDI(Z-score):29.418568

Protein

rpsP

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsS

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):2.527596

Protein

rplI

PMID:19402753[7]

MALDI(Z-score):17.053160

Protein

rpsF

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

eno

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):37.169715

Protein

rpsT

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsD

PMID:19402753[7]

LCMS(ID Probability):97.9 MALDI(Z-score):33.652594

Protein

rne

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):38.418106

Protein

Subunits of degradosome

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MSKTHLTEQK FSDFALHPKV VEALEKKGFH NCTPIQALAL PLTLAGRDVA GQAQTGTGKT
MAFLTSTFHY LLSHPAIADR KVNQPRALIM APTRELAVQI HADAEPLAEA TGLKLGLAYG
GDGYDKQLKV LESGVDILIG TTGRLIDYAK QNHINLGAIQ VVVLDEADRM YDLGFIKDIR
WLFRRMPPAN QRLNMLFSAT LSYRVRELAF EQMNNAEYIE VEPEQKTGHR IKEELFYPSN
EEKMRLLQTL IEEEWPDRAI IFANTKHRCE EIWGHLAADG HRVGLLTGDV AQKKRLRILD
EFTRGDLDIL VATDVAARGL HIPAVTHVFN YDLPDDCEDY VHRIGRTGRA GASGHSISLA
CEEYALNLPA IETYIGHSIP VSKYNPDALM TDLPKPLRLT RPRTGNGPRR TGAPRNRRRS G
Length

421

Mol. Wt

47.127 kDa

pI

7.7 (calculated)

Extinction coefficient

35,870 - 36,370 (calc based on 13 Y, 3 W, and 4 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Initiator Methionine

1

Removed

UniProt:P0A8J8

Domain

33..209

PF00270 DEAD/DEAH box helicase

PMID:19920124[8]

Domain

274..351

PF00271 Helicase conserved C-terminal domain

PMID:19920124[8]

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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

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

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

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

NCBI (Protein) (EcoliWiki Page)

GI:16131636

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948290

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012351

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A8J8

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10844

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10844

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948290

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000835

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0837

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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 5.11 5.12 5.13 5.14 5.15 5.16 5.17 5.18 5.19 5.20 5.21 5.22 5.23 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.0 6.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ 8.0 8.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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