RegulonDB RegulonDB 10.8: Gene Form
   

rnhB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

dnaE lpxB lpxA rnhB FadR accAp accAp accAp2 accAp2 TSS_386 TSS_386 TSS_385 TSS_385 TSS_384 TSS_384 TSS_383 TSS_383 TSS_382 TSS_382 TSS_381 TSS_381 TSS_380 TSS_380 TSS_379 TSS_379 TSS_378 TSS_378

Gene      
Name: rnhB    Texpresso search in the literature
Synonym(s): ECK0182, EG10861, b0183
Genome position(nucleotides): 204493 --> 205089 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
57.29
External database links:  
ASAP:
ABE-0000622
CGSC:
30604
ECHOBASE:
EB0854
MIM:
610333
OU-MICROARRAY:
b0183
PortEco:
rnhB
STRING:
511145.b0183
COLOMBOS: rnhB


Product      
Name: RNase HII
Synonym(s): RnhB, ribonuclease HII, type 2 RNase H
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 21.526
Isoelectric point: 7.863
Motif(s):
 
Type Positions Sequence
196 -> 198 LAS
13 -> 188 AGVDEVGRGPLVGAVVTAAVILDPARPIAGLNDSKKLSEKRRLALYEEIKEKALSWSLGRAEPHEIDELNILHATMLAMQRAVAGLHIAPEYVLIDGNRCPKLPMPAMAVVKGDSRVPEISAASILAKVTRDAEMAALDIVFPQYGFAQHKGYPTAFHLEKLAEHGATEHHRRSFG

 

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
GO:0032299 - ribonuclease H2 complex
molecular_function GO:0003676 - nucleic acid binding
GO:0004518 - nuclease activity
GO:0004519 - endonuclease activity
GO:0016787 - hydrolase activity
GO:0046872 - metal ion binding
GO:0003723 - RNA binding
GO:0004523 - RNA-DNA hybrid ribonuclease activity
GO:0030145 - manganese ion binding
biological_process GO:1990516 - ribonucleotide excision repair
GO:0006401 - RNA catabolic process
GO:0006298 - mismatch repair
GO:0090305 - nucleic acid phosphodiester bond hydrolysis
GO:0043137 - DNA replication, removal of RNA primer
GO:0090502 - RNA phosphodiester bond hydrolysis, endonucleolytic
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
EG10861-MONOMER
ECOLIWIKI:
b0183
INTERPRO:
IPR001352
INTERPRO:
IPR036397
INTERPRO:
IPR024567
INTERPRO:
IPR022898
INTERPRO:
IPR012337
MODBASE:
P10442
PANTHER:
PTHR10954:SF18
PANTHER:
PTHR10954
PFAM:
PF01351
PRIDE:
P10442
PRODB:
PRO_000023796
REFSEQ:
NP_414725
SMR:
P10442
UNIPROT:
P10442


Operon      
Name: bamA-skp-lpxD-fabZ-lpxAB-rnhB-dnaE         
Operon arrangement:
Transcription unit        Promoter
bamA-hlpA-lpxD-fabZ-lpxAB-rnhB-dnaE
bamA
hlpA-lpxD-fabZ-lpxA
lpxD
fabZ


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_378 202585 forward nd [RS-EPT-CBR] [1]
  promoter TSS_379 202645 forward nd [RS-EPT-CBR] [1]
  promoter TSS_380 204501 forward nd [RS-EPT-CBR] [1]
  promoter TSS_381 204507 forward nd [RS-EPT-CBR] [1]
  promoter TSS_382 206909 forward nd [RS-EPT-CBR] [1]
  promoter TSS_383 207634 forward nd [RS-EPT-CBR] [1]
  promoter TSS_384 207925 forward nd [RS-EPT-CBR] [1]
  promoter TSS_385 208042 forward nd [RS-EPT-CBR] [1]
  promoter TSS_386 208276 forward nd [RS-EPT-CBR] [1]


Evidence    

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



Reference(s)    

 [1] 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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