RegulonDB RegulonDB 10.8: Gene Form
   

yifK gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yifK rffM argX Fis DksA DksA-ppGpp DksA-ppGpp ppGpp argXp argXp TSS_4451 (cluster) TSS_4451 (cluster) TSS_4450 TSS_4450 TSS_4449 TSS_4449

Gene      
Name: yifK    Texpresso search in the literature
Synonym(s): ECK3788, EG11459, b3795
Genome position(nucleotides): 3980887 --> 3982272 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
53.46
External database links:  
ASAP:
ABE-0012397
ECHOBASE:
EB1428
OU-MICROARRAY:
b3795
PortEco:
yifK
STRING:
511145.b3795
COLOMBOS: yifK


Product      
Name: putative transporter YifK
Synonym(s): YifK
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 50.399
Isoelectric point: 9.75
Motif(s):
 
Type Positions Sequence
40 -> 60 WAGPSVLLAYIIAGLFVFFIM
97 -> 117 WFMWMAVGISEITAIGVYVQF
201 -> 221 GFLTALCIVVASYQGVELIGI
278 -> 298 IGITAAAGIINFVVLTAALSG
430 -> 450 SLFVGIIFMLAVTAIYKVFGL

 

Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.2 - Electrochemical potential driven transporters --> 4.2.A - Porters (Uni-, Sym- and Antiporters)
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0022857 - transmembrane transporter activity
biological_process GO:0006865 - amino acid transport
GO:0055085 - transmembrane transport
Note(s): Note(s): ...[more].
Evidence: [HIFS] Human inference of function from sequence
Reference(s): [1] Jack DL., et al., 2000
[2] Jindal S., et al., 2019
[3] Yang Q., et al., 2014
External database links:  
ECOCYC:
YIFK-MONOMER
ECOLIWIKI:
b3795
INTERPRO:
IPR002293
INTERPRO:
IPR004841
INTERPRO:
IPR004840
PANTHER:
PTHR11785
PFAM:
PF00324
PRIDE:
P27837
PROSITE:
PS00218
REFSEQ:
YP_026258
SMR:
P27837
UNIPROT:
P27837


Operon      
Name: yifK         
Operon arrangement:
Transcription unit        Promoter
 


Regulation by small RNA    
  Display Regulation
small RNA gcvB


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_4449 3982165 forward nd [RS-EPT-CBR] [4]
  promoter TSS_4450 3982359 forward nd [RS-EPT-CBR] [4]
  promoter TSS_4451 (cluster) 3982361 forward For this promoter, there
Read more >
[RS-EPT-CBR] [4]


Evidence    

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



Reference(s)    

 [1] Jack DL., Paulsen IT., Saier MH., 2000, The amino acid/polyamine/organocation (APC) superfamily of transporters specific for amino acids, polyamines and organocations., Microbiology 146 ( Pt 8):1797-814

 [2] Jindal S., Yang L., Day PJ., Kell DB., 2019, Involvement of multiple influx and efflux transporters in the accumulation of cationic fluorescent dyes by Escherichia coli., BMC Microbiol 19(1):195

 [3] Yang Q., Figueroa-Bossi N., Bossi L., 2014, Translation enhancing ACA motifs and their silencing by a bacterial small regulatory RNA., PLoS Genet 10(1):e1004026

 [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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