RegulonDB RegulonDB 10.9: Gene Form
   

dacA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

dacA rlpA ybeD terminator dacAp3 dacAp3 dacAp2 dacAp2 ybeDp ybeDp TSS_754 (cluster) TSS_754 (cluster) lipBp2 lipBp2 lipBp3 lipBp3

Gene      
Name: dacA    Texpresso search in the literature
Synonym(s): ECK0625, EG10201, b0632, pfv
Genome position(nucleotides): 662752 <-- 663963 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
49.34
Reference(s): [1] Broome-Smith JK., et al., 1988
External database links:  
ASAP:
ABE-0002168
CGSC:
886
ECHOBASE:
EB0197
ECOLIHUB:
dacA
OU-MICROARRAY:
b0632
STRING:
511145.b0632
COLOMBOS: dacA


Product      
Name: D-alanyl-D-alanine carboxypeptidase DacA
Synonym(s): D-alanine carboxypeptidase IA, DacA, PBP5, Pfv, murein D,D-carboxypeptidase DacA, penicillin-binding protein 5
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane,periplasmic space
Molecular weight: 44.444
Isoelectric point: 8.58
Motif(s):
 
Type Positions Sequence
115 -> 115 S
116 -> 116 S
134 -> 134 G
139 -> 139 S
141 -> 141 N

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents) --> 1.6.7 - murein (peptidoglycan)
  5 - cell processes --> 5.1 - cell division
  5 - cell processes --> 5.6 - protection --> 5.6.4 - drug resistance/sensitivity
Gene Ontology Terms (GO)  
cellular_component GO:1990914 - integral component of periplasmic side of plasma membrane
GO:0016020 - membrane
GO:0030288 - outer membrane-bounded periplasmic space
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
molecular_function GO:0005515 - protein binding
GO:0008233 - peptidase activity
GO:0016787 - hydrolase activity
GO:0004180 - carboxypeptidase activity
GO:0004175 - endopeptidase activity
GO:0008800 - beta-lactamase activity
GO:0009002 - serine-type D-Ala-D-Ala carboxypeptidase activity
GO:0008658 - penicillin binding
GO:0042803 - protein homodimerization activity
biological_process GO:0000270 - peptidoglycan metabolic process
GO:0051301 - cell division
GO:0006508 - proteolysis
GO:0009252 - peptidoglycan biosynthetic process
GO:0008360 - regulation of cell shape
GO:0071555 - cell wall organization
External database links:  
DIP:
DIP-47947N
ECOCYC:
EG10201-MONOMER
ECOLIWIKI:
b0632
INTERPRO:
IPR015956
INTERPRO:
IPR001967
INTERPRO:
IPR012338
INTERPRO:
IPR018044
INTERPRO:
IPR037167
INTERPRO:
IPR012907
MODBASE:
P0AEB2
PDB:
1hd8
PDB:
6NTZ
PDB:
5J8X
PDB:
3MZF
PDB:
3MZE
PDB:
3MZD
PDB:
3BEC
PDB:
3BEB
PDB:
1z6f
PDB:
1sdn
PDB:
1NJ4
PDB:
1NZU
PDB:
1nzo
PFAM:
PF07943
PFAM:
PF00768
PRIDE:
P0AEB2
PRINTS:
PR00725
PRODB:
PRO_000022392
REFSEQ:
NP_415165
SMART:
SM00936
SMR:
P0AEB2
SWISSMODEL:
P0AEB2
UNIPROT:
P0AEB2


Operon      
Name: dacA         
Operon arrangement:
Transcription unit        Promoter
dacA


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 lipBp3 662399 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter lipBp2 662401 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter TSS_754 (cluster) 662704 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter dacAp2 663967 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter dacAp3 664001 reverse Similarity to the consensus
Read more >
[ICWHO], [RS-EPT-CBR] [2], [3]


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] Broome-Smith JK., Ioannidis I., Edelman A., Spratt BG., 1988, Nucleotide sequences of the penicillin-binding protein 5 and 6 genes of Escherichia coli., Nucleic Acids Res 16(4):1617

 [2] 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

 [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.


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