RegulonDB RegulonDB 11.2: Gene Form
   

yjiN gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yjiN mdtM yjiM TSS_5145 (cluster) TSS_5145 (cluster) yjiLp3 yjiLp3 yjiLp2 yjiLp2

Gene      
Name: yjiN    Texpresso search in the literature
Synonym(s): ECK4327, G7933, b4336
Genome position(nucleotides): 4565966 <-- 4567246
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.62
External database links:  
ASAP:
 ABE-0014219
ECHOBASE:
 EB2463
ECOLIHUB:
 yjiN
OU-MICROARRAY:
 b4336
STRING:
 511145.b4336
COLOMBOS: yjiN


Product      
Name: DUF445 domain-containing protein YjiN
Synonym(s): YjiN
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 48.242
Isoelectric point: 9.648
Motif(s):
 
Type Positions Sequence Comment
13 -> 33 LALSLLLIAAATFVVTLFLPP UniProt: Helical.
42 -> 62 AIAEAAMVGALADWFAVVALF UniProt: Helical.
44 -> 417 AEAAMVGALADWFAVVALFRRVPIPIISRHTAIIPRNKDRIGENLGQFVQEKFLDTQSLVALIRRHEPALLIGNWFSQPENARRVGQHLLQIMSGFLELTDDARIQRLLKRAVHRAIDKVDLSGTSALMLESMTKNDRHQVLLDTLIAQLIALLQRDKSRKFIAQQIVRWLESEHPLKAKILPTEWLGEHSAELVSDAVNSLLDDISRDRAHQIRHAFDRATFALIDKLKNDPEMAARADAVKSYLKEDEAFNRYLSELWGDLREWLKVDINSEDSRVKERIARAGQWFGETLIADDALRASLNGHLEQAAHRVAPEFSAFLTRHISDTVKSWDARDMSRQIELNIGKDLQFIRVNGTLVGGCIGLILYLLSQL
403 -> 423 VGGCIGLILYLLSQLPALFPL UniProt: Helical.

 
Classification:
Multifun Terms (GenProtEC)  
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P39385
DIP:
 DIP-12640N
ECOCYC:
 G7933-MONOMER
ECOLIWIKI:
 b4336
INTERPRO:
 IPR007383
PFAM:
 PF04286
PRIDE:
 P39385
REFSEQ:
 NP_418756
SMR:
 P39385
UNIPROT:
 P39385


Operon      
Name: mdtM-yjiN         
Operon arrangement:
Transcription unit        Promoter
mdtM-yjiN


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 yjiLp2 4564793 reverse nd [COMP-AINF] [1]
  promoter yjiLp3 4564802 reverse nd [COMP-AINF] [1]
  promoter TSS_5145 (cluster) 4565889 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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