RegulonDB RegulonDB 11.0: Gene Form
   

yifL gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

dapF yzcX cyaY yifL yigA yifLp yifLp TSS_4467 TSS_4467 cyaYp5 cyaYp5

Gene      
Name: yifL    Texpresso search in the literature
Synonym(s): ECK3803, G0-10471, b4558
Genome position(nucleotides): 3994522 --> 3994725
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.45
External database links:  
ASAP:
 ABE-0285079
ECHOBASE:
 EB2257
ECOLIHUB:
 yifL
STRING:
 511145.b4558
COLOMBOS: yifL


Product      
Name: putative lipoprotein YifL
Synonym(s): YifL
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 7.177
Isoelectric point: 9.194
Motif(s):
 
Type Positions Sequence Comment
1 -> 19 MKNVFKALTVLLTLFSLTG
8 -> 29 LTVLLTLFSLTGCGLKGPLYFP
20 -> 67 CGLKGPLYFPPADKNAPPPTKPVETQTQSTVPDKNDRATGDGPSQVNY UniProt: Uncharacterized lipoprotein YifL.
26 -> 67 LYFPPADKNAPPPTKPVETQTQSTVPDKNDRATGDGPSQVNY UniProt: Disordered; Sequence Annotation Type: region of interest.
39 -> 67 TKPVETQTQSTVPDKNDRATGDGPSQVNY UniProt: Polar residues; Sequence Annotation Type: compositionally biased region.

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
Note(s): Note(s): ...[more].
Reference(s): [1] Paradis-Bleau C., et al., 2014
[2] Rao S., et al., 2020
External database links:  
ALPHAFOLD:
 P0ADN6
ECOCYC:
 MONOMER0-2693
ECOLIWIKI:
 b4558
INTERPRO:
 IPR032831
PFAM:
 PF13627
PRIDE:
 P0ADN6
PROSITE:
 PS51257
REFSEQ:
 YP_588473
UNIPROT:
 P0ADN6


Operon      
Name: yifL-dapF-yigA-xerC-yigB         
Operon arrangement:
Transcription unit        Promoter
yifL-dapF-yigA-xerC-yigB


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 cyaYp5 3994083 reverse nd [ICWHO], [RS-EPT-CBR] [3], [4]
  promoter TSS_4467 3994491 forward 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] Paradis-Bleau C., Kritikos G., Orlova K., Typas A., Bernhardt TG., 2014, A genome-wide screen for bacterial envelope biogenesis mutants identifies a novel factor involved in cell wall precursor metabolism., PLoS Genet 10(1):e1004056

 [2] Rao S., Bates GT., Matthews CR., Newport TD., Vickery ON., Stansfeld PJ., 2020, Characterizing Membrane Association and Periplasmic Transfer of Bacterial Lipoproteins through Molecular Dynamics Simulations., Structure 28(4):475-487.e3

 [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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