rpoN: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

RpoN

Synonyms

RNA polymerase, sigma 54 (sigma N) factor[1], B3202[2][1], NtrA[2][1], GlnF[2][1], RpoN[2][1], sigma N factor[2][1], sigma 54 factor[3][1], sigma N[3][1] , ECK3191, glnF, JW3169, ntrA, b3202

Product description

sigma54 factor[2]; RNA polymerase, sigma 54 (sigma N) factor[3];

Component of RNA polymerase sigma54[2]; RNA polymerase sigma 54[3]

RNA polymerase subunit, sigma 54; needed for expression of various regulons, promoter specificity set by various activator proteins required for sigma 54 recruitment[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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007046

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0240

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007046

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0731

P

Seeded from EcoCyc (v14.0)

complete

GO:0006525

arginine metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0056

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016779

nucleotidyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000394

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0731

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 RNA polymerase sigma54

could be indirect

Protein

dnaK

PMID:15690043[5]

Experiment(s):EBI-879445, EBI-883645

Protein

manX

PMID:15690043[5]

Experiment(s):EBI-879445

Protein

rplD

PMID:15690043[5]

Experiment(s):EBI-879445

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-879445

Protein

rpoA

PMID:15690043[5]

Experiment(s):EBI-879445, EBI-883645

Protein

rpoC

PMID:15690043[5]

Experiment(s):EBI-879445

Protein

yraM

PMID:15690043[5]

Experiment(s):EBI-879445

Protein

rpoC

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

rpsC

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

rpoA

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

rpsG

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

nagZ

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

rpoB

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

phnN

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

yagS

PMID:16606699[6]

Experiment(s):EBI-1145142

Protein

manX

PMID:19402753[7]

MALDI(Z-score):24.617987

Protein

yraM

PMID:19402753[7]

MALDI(Z-score):17.053160

Protein

rplM

PMID:19402753[7]

MALDI(Z-score):20.474034

Protein

rpoB

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):20.106361

Protein

rpoA

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):39.202085

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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 

MKQGLQLRLS QQLAMTPQLQ QAIRLLQLST LELQQELQQA LESNPLLEQI DTHEEIDTRE
TQDSETLDTA DALEQKEMPE ELPLDASWDT IYTAGTPSGT SGDYIDDELP VYQGETTQTL
QDYLMWQVEL TPFSDTDRAI ATSIVDAVDE TGYLTVPLED ILESIGDEEI DIDEVEAVLK
RIQRFDPVGV AAKDLRDCLL IQLSQFDKTT PWLEEARLII SDHLDLLANH DFRTLMRVTR
LKEDVLKEAV NLIQSLDPRP GQSIQTGEPE YVIPDVLVRK HNGHWTVELN SDSIPRLQIN
QHYASMCNNA RNDGDSQFIR SNLQDAKWLI KSLESRNDTL LRVSRCIVEQ QQAFFEQGEE
YMKPMVLADI AQAVEMHEST ISRVTTQKYL HSPRGIFELK YFFSSHVNTE GGGEASSTAI
RALVKKLIAA ENPAKPLSDS KLTSLLSEQG IMVARRTVAK YRESLSIPPS NQRKQLV
Length

477

Mol. Wt

53.99 kDa

pI

4.5 (calculated)

Extinction coefficient

43,890 - 44,265 (calc based on 11 Y, 5 W, and 3 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

Domain

3..51

PF00309 Sigma-54 factor, Activator interacting domain (AID)

PMID:19920124[8]

Domain

106..304

PF04963 Sigma-54 factor, core binding domain

PMID:19920124[8]

Domain

316..475

PF04552 Sigma-54, DNA binding domain

PMID:19920124[8]

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

Structures

<beststructure> gene=rpoN 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:16131092

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947714

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010514

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P24255

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10898

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10898

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947714

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000889

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0891

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 1.4 1.5 1.6 1.7 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 2.6 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 5.2 5.3 5.4 5.5 5.6 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 6.2 6.3 6.4 6.5 6.6 6.7 6.8 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 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 8.2 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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