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rne: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

Rne

Synonyms

fused ribonucleaseE: endoribonuclease[1], RNA-binding protein[1], RNA degradosome binding protein[1], B1084[2][1], SmbB[2][1], Ams[2][1], Rne[2][1], RNase E[2][1]

Product description

Rne[2][3];

Component of ribonuclease E[3]; degradosome[3]

RNase E; component of RNA degradosome; mRNA turnover; 5S and 16S RNA maturation[4]

EC number (for enzymes)
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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus
GO:0005515

protein binding

PMID:15236960[5]

IPI: Inferred from Physical Interaction

UniProtKB:P0A6P9

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0005515

protein binding

PMID:16139413[7]

IPI: Inferred from Physical Interaction

UniProtKB:P0A6Y8

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0005515

protein binding

PMID:16139413[7]

IPI: Inferred from Physical Interaction

UniProtKB:P0A8J8

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0042802

identical protein binding

PMID:15236960[5]

IPI: Inferred from Physical Interaction

UniProtKB:P21513

F

Seeded from EcoCyc [8]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [8]

complete

GO:0006396

RNA processing

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004659

P

Seeded from EcoCyc [8]

complete

GO:0005737

cytoplasm

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004659
SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [6]

complete

GO:0004540

ribonuclease activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004659

F

Seeded from EcoCyc [8]

complete

GO:0004519

endonuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0255

F

Seeded from EcoCyc [8]

complete

GO:0004518

nuclease activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc [8]

complete

GO:0003723

RNA binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003029
SP_KW:KW-0694

F

Seeded from EcoCyc [8]

complete

GO:0006401

RNA catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence

Protein

Subunits of ribonuclease E

could be indirect

Protein

deaD

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

dnaK

PMID:15690043[9]

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

Protein

eno

PMID:15690043[9]

Experiment(s):EBI-888473, EBI-880413, EBI-885840, EBI-893488

Protein

fabZ

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

fruR

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

pnp

PMID:15690043[9]

Experiment(s):EBI-888473, EBI-883913, EBI-891089, EBI-893488

Protein

rplA

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rplB

PMID:15690043[9]

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

Protein

rplC

PMID:15690043[9]

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

Protein

rplD

PMID:15690043[9]

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

Protein

rplI

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rplK

PMID:15690043[9]

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

Protein

rplV

PMID:15690043[9]

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

Protein

rpsB

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rpsC

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rpsD

PMID:15690043[9]

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

Protein

rpsG

PMID:15690043[9]

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

Protein

rpsU

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

srmB

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

tufA

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rnr

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

ycbY

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rluB

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

yfiQ

PMID:15690043[9]

Experiment(s):EBI-888473

Protein

rplL

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rplM

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rplU

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rplW

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rplX

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rpsE

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rpsF

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rpsJ

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rpsP

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

rpsT

PMID:15690043[9]

Experiment(s):EBI-893488

Protein

yfiF

PMID:15690043[9]

Experiment(s):EBI-893488

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.

CompartmentDescriptionEvidenceSourceNotes

plasma membrane

Cytoplasm

PMID:2011493[10]

EchoLocation:rne


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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MKRMLINATQ QEELRVALVD GQRLYDLDIE SPGHEQKKAN IYKGKITRIE PSLEAAFVDY
GAERHGFLPL KEIAREYFPA NYSAHGRPNI KDVLREGQEV IVQIDKEERG NKGAALTTFI
SLAGSYLVLM PNNPRAGGIS RRIEGDDRTE LKEALASLEL PEGMGLIVRT AGVGKSAEAL
QWDLSFRLKH WEAIKKAAES RPAPFLIHQE SNVIVRAFRD YLRQDIGEIL IDNPKVLELA
RQHIAALGRP DFSSKIKLYT GEIPLFSHYQ IESQIESAFQ REVRLPSGGS IVIDSTEALT
AIDINSARAT RGGDIEETAF NTNLEAADEI ARQLRLRDLG GLIVIDFIDM TPVRHQRAVE
NRLREAVRQD RARIQISHIS RFGLLEMSRQ RLSPSLGESS HHVCPRCSGT GTVRDNESLS
LSILRLIEEE ALKENTQEVH AIVPVPIASY LLNEKRSAVN AIETRQDGVR CVIVPNDQME
TPHYHVLRVR KGEETPTLSY MLPKLHEEAM ALPSEEEFAE RKRPEQPALA TFAMPDVPPA
PTPAEPAAPV VAPAPKAAPA TPAAPAQPGL LSRFFGALKA LFSGGEETKP TEQPAPKAEA
KPERQQDRRK PRQNNRRDRN ERRDTRSERT EGSDNREENR RNRRQAQQQT AETRESRQQA
EVTEKARTAD EQQAPRRERS RRRNDDKRQA QQEAKALNVE EQSVQETEQE ERVRPVQPRR
KQRQLNQKVR YEQSVAEEAV VAPVVEETVA AEPIVQEAPA PRTELVKVPL PVVAQTAPEQ
QEENNADNRD NGGMPRRSRR SPRHLRVSGQ RRRRYRDERY PTQSPMPLTV ACASPELASG
KVWIRYPIVR PQDVQVEEQR EQEEVHVQPM VTEVPVAAAI EPVVSAPVVE EVAGVVEAPV
QVAEPQPEVV ETTHPEVIAA AVTEQPQVIT ESDVAVAQEV AEQAEPVVEP QEETADIEEV
VETAEVVVAE PEVVAQPAAP VVAEVAAEVE TVAAVEPEVT VEHNHATAPM TRAPAPEYVP
EAPRHSDWQR PTFAFEGKGA AGGHTATHHA SAAPARPQPV E
Length

1,061

Mol. Wt

118.193 kDa

pI

5.5 (calculated)

Extinction coefficient

47,330 - 47,830 (calc based on 17 Y, 4 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.

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

Structures
  • Representative Escherichia coli structure:
    2VMK|A
    1-515 of 1061 residues (E-value: 4e-271) (Percent Identity: 100.00)
  • Representative homolog:
    3H1C|D (Shigella dysenteriae Sd197)
    1-41 of 1061 residues (E-value: 1e-18) (Percent Identity: 100.00)
  • View the PDB Table for rne
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10859-MONOMER

UniProt (EcoliWiki Page)

UniProt:P21513

PFAM (EcoliWiki Page)

PFAM:PF00575

RefSeq (EcoliWiki Page)

RefSeq:NP_415602


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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 1.5 1.6 1.7 1.8 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 2.5 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 3.3 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. ↑ 5.0 5.1 Callaghan AJ et al. (2004) Studies of the RNA degradosome-organizing domain of the Escherichia coli ribonuclease RNase E. J Mol Biol 340: 965-79 PubMed EcoliWiki page
  6. ↑ 6.0 6.1 6.2 6.3 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.0 7.1 Regonesi ME et al. (2006) Analysis of the Escherichia coli RNA degradosome composition by a proteomic approach. Biochimie 88: 151-61 PubMed EcoliWiki page
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  9. ↑ 9.00 9.01 9.02 9.03 9.04 9.05 9.06 9.07 9.08 9.09 9.10 9.11 9.12 9.13 9.14 9.15 9.16 9.17 9.18 9.19 9.20 9.21 9.22 9.23 9.24 9.25 9.26 9.27 9.28 9.29 9.30 9.31 9.32 9.33 9.34 Butland G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433: 531-7 PubMed EcoliWiki page
  10. ↑ Chauhan AK et al. (1991) Sequencing and expression of the rne gene of Escherichia coli. Nucleic Acids Res 19: 125-9 PubMed EcoliWiki page

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