RegulonDB RegulonDB 10.8: Gene Form
   

yaaJ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yaaJ talB yaaA TSS_24 TSS_24 TSS_23 TSS_23 TSS_22 TSS_22 TSS_21 (cluster) TSS_21 (cluster) TSS_20 TSS_20 TSS_19 TSS_19 talBp talBp yaaJp4 yaaJp4 yaaAp5 yaaAp5 yaaAp3 yaaAp3 TSS_17 TSS_17

Gene      
Name: yaaJ    Texpresso search in the literature
Synonym(s): ECK0007, EG11555, b0007
Genome position(nucleotides): 6529 <-- 7959 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
53.32
External database links:  
ASAP:
ABE-0000020
ECHOBASE:
EB1516
OU-MICROARRAY:
b0007
PortEco:
yaaJ
STRING:
511145.b0007
COLOMBOS: yaaJ


Product      
Name: putative transporter YaaJ
Synonym(s): YaaJ
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 51.663
Isoelectric point: 8.712
Motif(s):
 
Type Positions Sequence
351 -> 371 FVTLVVILFAFSSIVANYIYA
174 -> 194 FDFPPLVTGIILAVFTLLAIT
233 -> 253 VIWSIFESAFGWQEAAGGAAG
300 -> 320 MIGIFIDTLVICTASAMLILL
81 -> 101 ALAITAGGPGAVFWMWVAAFI

 

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:0015293 - symporter activity
GO:0005283 - amino acid:sodium symporter activity
GO:0015655 - alanine:sodium symporter activity
biological_process GO:0006814 - sodium ion transport
GO:0055085 - transmembrane transport
GO:0032328 - alanine transport
Note(s): Note(s): ...[more].
Evidence: [AIFS] Automated inference of function from sequence
Reference(s): [1] Jindal S., et al., 2019
[2] Riley M., et al., 2006
External database links:  
ECOCYC:
YAAJ-MONOMER
ECOLIWIKI:
b0007
INTERPRO:
IPR001463
PANTHER:
PTHR30330
PFAM:
PF01235
PRIDE:
P30143
PRINTS:
PR00175
PROSITE:
PS00873
REFSEQ:
NP_414548
UNIPROT:
P30143


Operon      
Name: yaaJ         
Operon arrangement:
Transcription unit        Promoter
 


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_17 6484 reverse nd [RS-EPT-CBR] [3]
  promoter yaaAp3 6587 reverse Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter yaaAp5 6615 reverse Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter yaaJp4 8017 reverse Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter TSS_19 8198 forward nd [RS-EPT-CBR] [3]
  promoter TSS_20 8211 forward nd [RS-EPT-CBR] [3]
  promoter TSS_21 (cluster) 8229 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_22 8232 forward nd [RS-EPT-CBR] [3]
  promoter TSS_23 8352 forward nd [RS-EPT-CBR] [3]
  promoter TSS_24 8638 forward nd [RS-EPT-CBR] [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] Riley M., Abe T., Arnaud MB., Berlyn MK., Blattner FR., Chaudhuri RR., Glasner JD., Horiuchi T., Keseler IM., Kosuge T., Mori H., Perna NT., Plunkett G., Rudd KE., Serres MH., Thomas GH., Thomson NR., Wishart D., Wanner BL., 2006, Escherichia coli K-12: a cooperatively developed annotation snapshot--2005., Nucleic Acids Res 34(1):1-9

 [3] 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.

 [4] 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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