RegulonDB RegulonDB 11.1: Gene Form
   

rpoE gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

nadB rseA rpoE rseD yfiC IHF GlrR NadR GlrR RcsB NtrC GlrR CRP CpxR DksA DksA DksA DksA-ppGpp DksA-ppGpp DksA-ppGpp DksA-ppGpp DksA-ppGpp DksA-ppGpp ppGpp ppGpp ppGpp terminator rpoEp1b rpoEp1b TSS_2873 TSS_2873 nadBp nadBp rseDp rseDp rpoEp2b rpoEp2b rpoEp4 rpoEp4 rpoEp1a rpoEp1a rpoEp5 rpoEp5 rpoEp2a rpoEp2a rpoEp rpoEp TSS_2871 TSS_2871 TSS_2870 TSS_2870 rseAp3 rseAp3 TSS_2869 TSS_2869

Gene      
Name: rpoE    Texpresso search in the literature
Synonym(s): ECK2571, EG11897, b2573, sigE
Genome position(nucleotides): 2709437 <-- 2710012
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 48.78
External database links:  
ASAP:
 ABE-0008467
CGSC:
 36181
ECHOBASE:
 EB1843
ECOLIHUB:
 rpoE
OU-MICROARRAY:
 b2573
STRING:
 511145.b2573
COLOMBOS: rpoE


Product      
Name: RNA polymerase sigma factor RpoE
Synonym(s): sigma;24, RNA polymerase sigma E factor, RNA polymerase, sigma 24 (sigma E) factor, RpoE, SigE, sigma 24 factor, sigma E factor
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane,cytosol
Molecular weight: 21.696
Isoelectric point: 5.13
Motif(s):
 
Type Positions Sequence Comment
1 -> 153 MSEQLTDQVLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVPSGDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGRRPPSSDVDAIEAENFESGGALKEISNPENLMLSEELRQIVFRTIESLPEDLRMAITLRELDG UniProt: Binds RNAP core; Sequence Annotation Type: region of interest.
25 -> 91 LVVRYQHKVASLVSRYVPSGDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLVAQGR
48 -> 61 DVVQEAFIKAYRAL UniProt: Polymerase core binding; Sequence Annotation Type: short sequence motif.
129 -> 180 QIVFRTIESLPEDLRMAITLRELDGLSYEEIAAIMDCPVGTVRSRIFRAREA
156 -> 175 YEEIAAIMDCPVGTVRSRIF UniProt: H-T-H motif.

 
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.1 - sigma factors, anti-sigmafactors
  3 - regulation --> 3.3 - genetic unit regulated --> 3.3.3 - stimulon
  5 - cell processes --> 5.5 - adaptations --> 5.5.2 - temperature extremes
  5 - cell processes --> 5.5 - adaptations --> 5.5.6 - other (mechanical, nutritional, oxidative stress)
Gene Ontology Terms (GO)  
cellular_component GO:1903865 - sigma factor antagonist complex
GO:0000345 - cytosolic DNA-directed RNA polymerase complex
GO:0005737 - cytoplasm
GO:0005886 - plasma membrane
molecular_function GO:0003677 - DNA binding
GO:0005515 - protein binding
GO:0016987 - sigma factor activity
GO:0003700 - DNA-binding transcription factor activity
biological_process GO:0006355 - regulation of transcription, DNA-templated
GO:0006970 - response to osmotic stress
GO:0009266 - response to temperature stimulus
GO:0006352 - DNA-templated transcription, initiation
GO:0045892 - negative regulation of transcription, DNA-templated
GO:2000142 - regulation of DNA-templated transcription, initiation
GO:0036460 - cellular response to cell envelope stress
GO:0090605 - submerged biofilm formation
Note(s): Note(s): ...[more].
Evidence: [EXP-IDA-PURIFIED-PROTEIN] Assay of protein purified to homogeneity
Reference(s): [1] Frohlich KS., et al., 2018
[2] Raina S., et al., 1995
External database links:  
ALPHAFOLD:
 P0AGB6
DIP:
 DIP-10774N
DISPROT:
 DP01505
ECOCYC:
 RPOE-MONOMER
ECOLIWIKI:
 b2573
INTERPRO:
 IPR014284
INTERPRO:
 IPR039425
INTERPRO:
 IPR036388
INTERPRO:
 IPR014286
INTERPRO:
 IPR013325
INTERPRO:
 IPR013324
INTERPRO:
 IPR013249
INTERPRO:
 IPR007627
INTERPRO:
 IPR000838
MODBASE:
 P0AGB6
PANTHER:
 PTHR43133
PDB:
 1OR7
PDB:
 6JBQ
PDB:
 2H27
PDB:
 5OR5
PFAM:
 PF04542
PFAM:
 PF08281
PRIDE:
 P0AGB6
PRODB:
 PRO_000023848
PROSITE:
 PS01063
REFSEQ:
 NP_417068
SMR:
 P0AGB6
SWISSMODEL:
 P0AGB6
UNIPROT:
 P0AGB6


Operon      
Name: rseD-rpoE-rseABC         
Operon arrangement:
Transcription unit        Promoter
rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC
rpoE-rseABC


Transcriptional Regulation      
Display Regulation             
Activated by: CRP, NtrC, GlrR, RcsB
Repressed by: CpxR, IHF


RNA cis-regulatory element    
Attenuation: Translational


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_2869 2709043 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2870 2709761 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2871 2709854 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2873 2710392 forward nd [RS-EPT-CBR] [3]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Frohlich KS., Gottesman S., 2018, Small Regulatory RNAs in the Enterobacterial Response to Envelope Damage and Oxidative Stress., Microbiol Spectr 6(4)

 [2] Raina S., Missiakas D., Georgopoulos C., 1995, The rpoE gene encoding the sigma E (sigma 24) heat shock sigma factor of Escherichia coli., EMBO J 14(5):1043-55

 [3] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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