RegulonDB RegulonDB 10.9: Gene Form
   

ydjE gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ydjE ydjF pncA terminator ydjEp6 ydjEp6 ydjEp5 ydjEp5 TSS_2077 TSS_2077

Gene      
Name: ydjE    Texpresso search in the literature
Synonym(s): ECK1767, EG12369, b1769
Genome position(nucleotides): 1852621 <-- 1853979 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
45.11
External database links:  
ASAP:
ABE-0005894
ECHOBASE:
EB2272
ECOLIHUB:
ydjE
OU-MICROARRAY:
b1769
STRING:
511145.b1769
COLOMBOS: ydjE


Product      
Name: putative transporter YdjE
Synonym(s): YdjE
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 50.318
Isoelectric point: 9.97
Motif(s):
 
Type Positions Sequence
55 -> 451 NNFLNAAFTSALMFGYFIGSLTGGFIGDYFGRRRAFRINLLIVGIAATGAAFVPDMYWLIFFRFLMGTGMGALIMVGYASFTEFIPATVRGKWSARLSFVGNWSPMLSAAIGVVVIAFFSWRIMFLLGGIGILLAWFLSGKYFIESPRWLAGKGQIAGAECQLREVEQQIEREKSIRLPPLTSYQSNSKVKVIKGTFWLLFKGEMLRRTLVAITVLIAMNISLYTITVWIPTIFVNSGIDVDKSILMTAVIMIGAPVGIFIAALIIDHFPRRLFGSTLLIIIAVLGYIYSIQTTEWAILIYGLVMIFFLYMYVCFASAVYIPELWPTHLRLRGSGFVNAVGRIVAVFTPYGVAALLTHYGSITVFMVLGVMLLLCALVLSIFGIETRKVSLEEISEV
92 -> 114 INLLIVGIAATGAAFVPDMYWLI
118 -> 140 FLMGTGMGALIMVGYASFTEFIP
153 -> 175 FVGNWSPMLSAAIGVVVIAFFSW
179 -> 198 FLLGGIGILLAWFLSGKYFI

 

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:0016021 - integral component of membrane
molecular_function GO:0022857 - transmembrane transporter activity
biological_process GO:0055085 - transmembrane transport
Note(s): Note(s): ...[more].
Reference(s): [1] Jindal S., et al., 2019
External database links:  
ECOCYC:
YDJE-MONOMER
ECOLIWIKI:
b1769
INTERPRO:
IPR005828
INTERPRO:
IPR020846
INTERPRO:
IPR036259
MODBASE:
P38055
PFAM:
PF00083
PRIDE:
P38055
PROSITE:
PS50850
REFSEQ:
NP_416283
UNIPROT:
P38055


Operon      
Name: ydjE         
Operon arrangement:
Transcription unit        Promoter
ydjE


RNA cis-regulatory element    
Attenuation: Translational


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_2077 1852392 forward nd [RS-EPT-CBR] [2]
  promoter ydjEp5 1853983 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter ydjEp6 1854041 reverse Similarity to the consensus
Read more >
[ICWHO] [3]


Evidence    

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

 [ICWHO] Inferred computationally without human oversight



Reference(s)    

 [1] 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

 [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.

 [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


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