RegulonDB RegulonDB 10.8: Gene Form
   

dtpD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

dtpD phr ybgI ybgA TSS_836 TSS_836 TSS_835 (cluster) TSS_835 (cluster) ybgIp2 ybgIp2 dtpDp8 dtpDp8 TSS_833 TSS_833 dtpDp6 dtpDp6 dtpDp5 dtpDp5 ybgIp1 ybgIp1

Gene      
Name: dtpD    Texpresso search in the literature
Synonym(s): ECK0698, G6378, b0709, ybgH
Genome position(nucleotides): 741075 <-- 742556 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
52.43
External database links:  
ASAP:
ABE-0002420
ECHOBASE:
EB3088
OU-MICROARRAY:
b0709
PortEco:
dtpD
STRING:
511145.b0709
COLOMBOS: dtpD


Product      
Name: dipeptide:H+ symporter DtpD
Synonym(s): DtpD, YbgH
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 54.159
Isoelectric point: 8.77
Motif(s):
 
Type Positions Sequence
14 -> 34 VVALQIWEYFSFYGMRALLIL
49 -> 69 ELFSAYCSLVYVTPILGGFLA
101 -> 121 SFLYLSLAIIVCGYGLFKSNV
235 -> 255 WSVYALIVATIIGLGVLAKIY
344 -> 364 IWGKFALGLGLMSAGFCILTL

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization --> 1.1.3 - amino acids
  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
GO:0015333 - peptide:proton symporter activity
GO:0042937 - tripeptide transmembrane transporter activity
GO:0035673 - oligopeptide transmembrane transporter activity
GO:0071916 - dipeptide transmembrane transporter activity
GO:1904680 - peptide transmembrane transporter activity
biological_process GO:0015031 - protein transport
GO:0006857 - oligopeptide transport
GO:0015833 - peptide transport
GO:0042938 - dipeptide transport
GO:0042939 - tripeptide transport
GO:0055085 - transmembrane transport
GO:0035672 - oligopeptide transmembrane transport
GO:1902600 - proton transmembrane transport
GO:0035442 - dipeptide transmembrane transport
Note(s): Note(s): ...[more].
Reference(s): [1] Jindal S., et al., 2019
[2] Kitamura K., et al., 2017
External database links:  
DIP:
DIP-11394N
ECOCYC:
B0709-MONOMER
ECOLIWIKI:
b0709
INTERPRO:
IPR005279
INTERPRO:
IPR036259
INTERPRO:
IPR023777
INTERPRO:
IPR020846
INTERPRO:
IPR018456
INTERPRO:
IPR000109
MINT:
MINT-1290177
MODBASE:
P75742
PANTHER:
PTHR11654
PDB:
4Q65
PFAM:
PF00854
PRIDE:
P75742
PROSITE:
PS01022
PROSITE:
PS50850
PROSITE:
PS01023
REFSEQ:
NP_415237
SMR:
P75742
UNIPROT:
P75742


Operon      
Name: dtpD         
Operon arrangement:
Transcription unit        Promoter
dtpD


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 dtpDp5 742622 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter dtpDp6 742623 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter TSS_833 742669 reverse nd [RS-EPT-CBR] [4]
  promoter dtpDp8 742670 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter TSS_835 (cluster) 743357 forward For this promoter, there
Read more >
[RS-EPT-CBR] [4]
  promoter TSS_836 743410 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] 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] Kitamura K., Kinsui EZ., Abe F., 2017, Critical role of the proton-dependent oligopeptide transporter (POT) in the cellular uptake of the peptidyl nucleoside antibiotic, blasticidin S., Biochim Biophys Acta 1864(2):393-398

 [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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