RegulonDB RegulonDB 10.9: Gene Form
   

yjhU gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yjhF yjhU insB7 insA7 TSS_5127 TSS_5127 TSS_5126 TSS_5126 yjhUp8 yjhUp8 TSS_5125 TSS_5125 yjhUp9 yjhUp9 yjhUp1 yjhUp1

Gene      
Name: yjhU    Texpresso search in the literature
Synonym(s): ECK4284, G7909, b4295
Genome position(nucleotides): 4519338 <-- 4520324 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
50.35
External database links:  
ASAP:
ABE-0014079
ECHOBASE:
EB2488
ECOLIHUB:
yjhU
ECOO157CYC:
Z5619
OU-MICROARRAY:
b4295
STRING:
511145.b4295
COLOMBOS: yjhU


Product      
Name: KpLE2 phage-like element; putative DNA-binding transcriptional regulator YjhU
Synonym(s): YjhU
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 36.112
Isoelectric point: 6.795
Motif(s):
 
Type Positions Sequence
64 -> 323 NVFGSIDAALQIRDKFNLQRVIIVPDGEHAGKRDDTKLMRTRLSRAGGMYLNQVIENGDVLGVAWGRTIHQMSKTMTPKSCKNVTVIQMLGSMPSQPDLTIIESSSQIAYKLSGRVASLHVPAVVSSARLAMELQAEPIIRSNFDVLTRCTKAFFVVGNALDENPLIRVGVLNKKEMQTYRDLGAVGVICGRFYDKEGMPVVADVDQRILGISLAQLRQIERKIFLAGGERGYDATLGALLGGYVTDLIVDEGTAEFLLA
72 -> 91 ALQIRDKFNLQRVIIVPDGE

 

Classification:
Multifun Terms (GenProtEC)  
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003677 - DNA binding
GO:0030246 - carbohydrate binding
biological_process GO:0006355 - regulation of transcription, DNA-templated
Note(s): Note(s): ...[more].
Evidence: [AIFS] Automated inference of function from sequence
Reference(s): [1] Monarrez R., et al., 2018
[2] Perez-Rueda E., et al., 2004
External database links:  
DIP:
DIP-12629N
ECOCYC:
G7909-MONOMER
ECOLIWIKI:
b4295
ECOO157CYC:
Z5619-MONOMER
INTERPRO:
IPR013324
INTERPRO:
IPR037171
INTERPRO:
IPR036388
INTERPRO:
IPR007324
MODBASE:
P39356
PFAM:
PF04198
PRIDE:
P39356
REFSEQ:
NP_418715
SMR:
P39356
UNIPROT:
P39356


Operon      
Name: yjhU         
Operon arrangement:
Transcription unit        Promoter
yjhU


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 yjhUp1 4520381 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter yjhUp9 4520401 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter TSS_5125 4520414 reverse nd [RS-EPT-CBR] [4]
  promoter yjhUp8 4520540 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter TSS_5126 4520663 reverse nd [RS-EPT-CBR] [4]
  promoter TSS_5127 4521212 reverse nd [RS-EPT-CBR] [4]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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



Reference(s)    

 [1] Monarrez R., Wang Y., Fu Y., Liao CH., Okumura R., Braun MR., Jacoby GA., Hooper DC., 2018, Genes and Proteins Involved in qnrS1 Induction., Antimicrob Agents Chemother 62(9)

 [2] Perez-Rueda E., Collado-Vides J., Segovia L., 2004, Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea., Comput Biol Chem 28(5-6):341-50

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] 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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