RegulonDB RegulonDB 10.10: Gene Form
   

rapZ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rapZ ptsN npr yrbL3\' TSS_3526 TSS_3526

Gene      
Name: rapZ    Texpresso search in the literature
Synonym(s): ECK3194, EG12146, b3205, yhbJ
Genome position(nucleotides): 3347115 --> 3347969 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.16
External database links:  
ASAP:
 ABE-0010522
ECHOBASE:
 EB2066
ECOLIHUB:
 yhbJ
OU-MICROARRAY:
 b3205
STRING:
 511145.b3205
COLOMBOS: rapZ


Shine dalgarno      
Sequence: gacgttgtgaGGAGAAacagtacATG


Product      
Name: RNase adaptor protein RapZ
Synonym(s): RapZ, YhbJ
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 32.492
Isoelectric point: 7.278
Motif(s):
 
Type Positions Sequence
283 -> 283 K
8 -> 15 GRSGSGKS
56 -> 59 DVRN
282 -> 282 R
1 -> 282 MVLMIVSGRSGSGKSVALRALEDMGFYCVDNLPVVLLPDLARTLADREISAAVSIDVRNMPESPEIFEQAMSNLPDAFSPQLLFLDADRNTLIRRYSDTRRLHPLSSKNLSLESAIDKESDLLEPLRSRADLIVDTSEMSVHELAEMLRTRLLGKRERELTMVFESFGFKHGIPIDADYVFDVRFLPNPHWDPKLRPMTGLDKPVAAFLDRHTEVHNFIYQTRSYLELWLPMLETNNRSYLTVAIGCTGGKHRSVYIAEQLADYFRSRGKNVQSRHRTLEKR

 
Classification:
Multifun Terms (GenProtEC)  
  3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
GO:0032991 - protein-containing complex
molecular_function GO:0005515 - protein binding
GO:0003723 - RNA binding
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0005525 - GTP binding
GO:0060090 - molecular adaptor activity
GO:0042802 - identical protein binding
GO:0097367 - carbohydrate derivative binding
biological_process GO:0050779 - RNA destabilization
GO:0051289 - protein homotetramerization
External database links:  
DIP:
 DIP-35927N
ECOCYC:
 EG12146-MONOMER
ECOLIWIKI:
 b3205
INTERPRO:
 IPR005337
INTERPRO:
 IPR027417
MODBASE:
 P0A894
PANTHER:
 PTHR30448
PDB:
 5O5O
PDB:
 5O5S
PDB:
 5O5Q
PFAM:
 PF03668
PRIDE:
 P0A894
PRODB:
 PRO_000025046
REFSEQ:
 NP_417672
SMR:
 P0A894
UNIPROT:
 P0A894


Operon      
Name: yrbG-kdsDC-lptCAB-rpoN-hpf-ptsN-rapZ-npr         
Operon arrangement:
Transcription unit        Promoter
yrbG-kdsD
yrbG-kdsDC-lptCAB
kdsC-lptCAB
kdsC-lptCAB
kdsC-lptCAB
lptAB
lptAB
lptB-rpoN-hpf-ptsN-yhbJ
rpoN-hpf-ptsN-yhbJ-npr


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_3526 3347528 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3527 3348325 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_3528 (cluster) 3348425 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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