rne:Gene Product(s)

From EcoliWiki
Jump to: navigation, search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
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] , ams, ECK1069, hmp1, JW1071, smbB, b1084

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)
edit table

<protect></protect>

Notes

Function

[back to top]


<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:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003029

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:0004518

nuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc (v14.0)

complete

GO:0004519

endonuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0255

F

Seeded from EcoCyc (v14.0)

complete

GO:0004540

ribonuclease activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004659

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004659

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006396

RNA processing

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004659

P

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

edit table

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 ribonuclease E

could be indirect

Protein

deaD

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

dnaK

PMID:15690043[5]

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

Protein

eno

PMID:15690043[5]

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

Protein

fabZ

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

fruR

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

pnp

PMID:15690043[5]

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

Protein

rplA

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rplB

PMID:15690043[5]

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

Protein

rplC

PMID:15690043[5]

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

Protein

rplD

PMID:15690043[5]

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

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rplK

PMID:15690043[5]

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

Protein

rplV

PMID:15690043[5]

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

Protein

rpsB

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rpsD

PMID:15690043[5]

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

Protein

rpsG

PMID:15690043[5]

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

Protein

rpsU

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

srmB

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

tufA

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rnr

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

ycbY

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rluB

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

yfiQ

PMID:15690043[5]

Experiment(s):EBI-888473

Protein

rplL

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rplU

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rplW

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rplX

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rpsF

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rpsJ

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rpsP

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

rpsT

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

yfiF

PMID:15690043[5]

Experiment(s):EBI-893488

Protein

tufB

PMID:19402753[6]

MALDI(Z-score):20.139108

Protein

rplK

PMID:19402753[6]

LCMS(ID Probability):99.2 MALDI(Z-score):17.053160

Protein

rpsJ

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

eno

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):39.667839

Protein

rpsF

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsD

PMID:19402753[6]

LCMS(ID Probability):99.4 MALDI(Z-score):37.560803

Protein

rplM

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplX

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

srmB

PMID:19402753[6]

MALDI(Z-score):25.669160

Protein

rplB

PMID:19402753[6]

LCMS(ID Probability):99.4 MALDI(Z-score):38.914031

Protein

rpsC

PMID:19402753[6]

MALDI(Z-score):34.363850

Protein

rplA

PMID:19402753[6]

MALDI(Z-score):32.032056

Protein

pnp

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):48.805794

Protein

hfq

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):18.980165

Protein

yfiF

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):23.414397

Protein

rnr

PMID:19402753[6]

MALDI(Z-score):25.940957

Protein

rplD

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):19.506531

Protein

rluB

PMID:19402753[6]

MALDI(Z-score):39.206232

Protein

deaD

PMID:19402753[6]

LCMS(ID Probability):92.5 MALDI(Z-score):26.713564

Protein

rplL

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

Subunits of degradosome

could be indirect


edit table

</protect>

Notes

Localization

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

Compartment Description Evidence Reference/Source Notes

plasma membrane

Cytoplasm

PMID:2011493[7]

EchoLocation:rne


edit table

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<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 

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)

edit table


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

Domain

35..119

PF00575 S1 RNA binding domain

PMID:19920124[8]

Domain

121..393

PF10150 Ribonuclease E/G family

PMID:19920124[8]

Domain

1021..1059

PF12111 Polyribonucleotide phosphorylase C terminal

PMID:19920124[8]

edit table

<motif_map/>

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

Structures

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

Models

View models at:

edit table
</protect>

Structure figures

<protect>

</protect>

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference
edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129047

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945641

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003668

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P21513

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10859

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10859

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945641

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000850

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0852

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]




References

[back to top]


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 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 5.24 5.25 5.26 5.27 5.28 5.29 5.30 5.31 5.32 5.33 5.34 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 6.11 6.12 6.13 6.14 6.15 6.16 6.17 6.18 6.19 6.20 6.21 6.22 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  7. ↑ Chauhan, AK et al. (1991) Sequencing and expression of the rne gene of Escherichia coli. Nucleic Acids Res. 19 125-9 PubMed
  8. ↑ 8.0 8.1 8.2 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=rne:Gene_Product(s)&oldid=1493050"