RegulonDB RegulonDB 11.1: Gene Form
   

rnc gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

lepB era recO rnc Cis-reg rncp rncp TSS_2865 (cluster) TSS_2865 (cluster) TSS_2864 TSS_2864 TSS_2863 TSS_2863 TSS_2862 TSS_2862 TSS_2861 TSS_2861 TSS_2860 (cluster) TSS_2860 (cluster) TSS_2859 TSS_2859 TSS_2858 TSS_2858 TSS_2857 TSS_2857 TSS_2856 TSS_2856 pdxJp pdxJp

Gene      
Name: rnc    Texpresso search in the literature
Synonym(s): ECK2565, EG10857, b2567
Genome position(nucleotides): 2703383 <-- 2704063
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.66
Reference(s): [1] Watson N., et al., 1985
External database links:  
ASAP:
 ABE-0008448
CGSC:
 271
ECHOBASE:
 EB0850
ECOLIHUB:
 rnc
OU-MICROARRAY:
 b2567
STRING:
 511145.b2567
COLOMBOS: rnc


Product      
Name: RNase III
Synonym(s): Rnc
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 25.55
Isoelectric point: 6.883
Motif(s):
 
Type Positions Sequence Comment
6 -> 128 INRLQRKLGYTFNHQELLQQALTHRSASSKHNERLEFLGDSILSYVIANALYHRFPRVDEGDMSRMRATLVRGNTLAELAREFELGECLRLGPGELKSGGFRRESILADTVEALIGGVFLDSD UniProt: RNase III.
20 -> 141 QELLQQALTHRSASSKHNERLEFLGDSILSYVIANALYHRFPRVDEGDMSRMRATLVRGNTLAELAREFELGECLRLGPGELKSGGFRRESILADTVEALIGGVFLDSDIQTVEKLILNWYQ
38 -> 38 E UniProt: Reduced affinity for Mg(2+), no catalytic defect at 10 mM Mg(2+)..
40 -> 40 L UniProt: No effect..
41 -> 41 E UniProt: Reduced affinity for Mg(2+), catalytic defect. 85-fold reduced affinity for Mg(2+); when associated with A-114..

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.2 - degradation of macromolecules --> 1.2.1 - RNA
  2 - information transfer --> 2.2 - RNA related --> 2.2.4 - RNA degradation
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0004518 - nuclease activity
GO:0004519 - endonuclease activity
GO:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0046872 - metal ion binding
GO:0003723 - RNA binding
GO:0019899 - enzyme binding
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0019843 - rRNA binding
GO:0004525 - ribonuclease III activity
GO:0000287 - magnesium ion binding
GO:0003725 - double-stranded RNA binding
GO:0042803 - protein homodimerization activity
biological_process GO:0006396 - RNA processing
GO:0006397 - mRNA processing
GO:0008033 - tRNA processing
GO:0006364 - rRNA processing
GO:0010468 - regulation of gene expression
GO:0016075 - rRNA catabolic process
GO:0090305 - nucleic acid phosphodiester bond hydrolysis
GO:0090501 - RNA phosphodiester bond hydrolysis
GO:0090502 - RNA phosphodiester bond hydrolysis, endonucleolytic
External database links:  
ALPHAFOLD:
 P0A7Y0
DIP:
 DIP-48223N
ECOCYC:
 EG10857-MONOMER
ECOLIWIKI:
 b2567
INTERPRO:
 IPR014720
INTERPRO:
 IPR036389
INTERPRO:
 IPR011907
INTERPRO:
 IPR000999
MODBASE:
 P0A7Y0
PFAM:
 PF14622
PFAM:
 PF00035
PRIDE:
 P0A7Y0
PROSITE:
 PS50142
PROSITE:
 PS00517
PROSITE:
 PS50137
REFSEQ:
 NP_417062
SMART:
 SM00358
SMART:
 SM00535
SMR:
 P0A7Y0
UNIPROT:
 P0A7Y0


Operon      
Name: rnc-era-recO-pdxJ-acpS         
Operon arrangement:
Transcription unit        Promoter
pdxJ-acpS
rnc-era
rnc-era-recO-pdxJ-acpS


RNA cis-regulatory element    
   
Cis-reg rncO
   
   


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_2856 2702292 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2857 2702302 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2858 2703503 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2859 2704008 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2860 (cluster) 2704016 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2861 2704074 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2862 2704076 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2863 2704093 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2864 2704101 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_2865 (cluster) 2704183 reverse nd [RS-EPT-CBR] [2]


Evidence    

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


Reference(s)    

 [1] Watson N., Apirion D., 1985, Molecular cloning of the gene for the RNA-processing enzyme RNase III of Escherichia coli., Proc Natl Acad Sci U S A 82(3):849-53

 [2] 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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