RegulonDB RegulonDB 11.1: Gene Form
   

ypfJ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

tmcA ypfJ purC TSS_2766 TSS_2766 tmcAp5 tmcAp5

Gene      
Name: ypfJ    Texpresso search in the literature
Synonym(s): ECK2471, G7298, b2475
Genome position(nucleotides): 2595874 <-- 2596737
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.59
External database links:  
ASAP:
 ABE-0008153
ECHOBASE:
 EB3949
ECOLIHUB:
 ypfJ
OU-MICROARRAY:
 b2475
STRING:
 511145.b2475
COLOMBOS: ypfJ


Product      
Name: uncharacterized protein YpfJ
Synonym(s): YpfJ
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 31.46
Isoelectric point: 5.677
Motif(s):
 
Type Positions Sequence Comment
1 -> 29 MRWQGRRESDNVEDRRNSSGGPSMGGPGF UniProt: Disordered; Sequence Annotation Type: region of interest.
38 -> 60 LILLIVVLVAGYYGVDLTGLMTG UniProt: Helical.

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P64429
DIP:
 DIP-48230N
ECOCYC:
 G7298-MONOMER
ECOLIWIKI:
 b2475
INTERPRO:
 IPR007343
PANTHER:
 PTHR30168
PFAM:
 PF04228
PRIDE:
 P64429
REFSEQ:
 NP_416970
SMR:
 P64429
UNIPROT:
 P64429


Operon      
Name: ypfJ-tmcA         
Operon arrangement:
Transcription unit        Promoter
ypfJ-tmcA


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 tmcAp5 2595938 reverse nd [COMP-AINF] [1]
  promoter TSS_2766 2596763 reverse nd [RS-EPT-CBR] [2]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] 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

 [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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