RegulonDB RegulonDB 10.10: Gene Form
   

deoC gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yjjI deoA deoC yjjW DeoR ModE CRP CytR CytR CytR CRP Fis DeoR DeoR DeoR DeoR DeoR terminator TSS_5164 TSS_5164 TSS_5163 TSS_5163 deoCp2 deoCp2 TSS_5162 TSS_5162 deoCp1 deoCp1

Gene      
Name: deoC    Texpresso search in the literature
Synonym(s): ECK4373, EG10221, b4381, dra, thyR, tlr
Genome position(nucleotides): 4617323 --> 4618102 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 55.38
External database links:  
ASAP:
 ABE-0014371
CGSC:
 866
ECHOBASE:
 EB0217
ECOLIHUB:
 deoC
OU-MICROARRAY:
 b4381
STRING:
 511145.b4381
COLOMBOS: deoC


Product      
Name: deoxyribose-phosphate aldolase
Synonym(s): DeoC, Dra, ThyR, Tlr
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol,membrane
Molecular weight: 27.734
Isoelectric point: 5.423
Motif(s):
 
Type Positions Sequence
259 -> 259 Y
18 -> 18 T
137 -> 137 K
47 -> 47 C
102 -> 102 D

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.33 - nucleotide and nucleoside conversions
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0016020 - membrane
molecular_function GO:0003824 - catalytic activity
GO:0016829 - lyase activity
GO:0004139 - deoxyribose-phosphate aldolase activity
biological_process GO:0006974 - cellular response to DNA damage stimulus
GO:0015949 - nucleobase-containing small molecule interconversion
GO:0016052 - carbohydrate catabolic process
GO:0009264 - deoxyribonucleotide catabolic process
GO:0046386 - deoxyribose phosphate catabolic process
Note(s): Note(s): ...[more].
Reference(s): [1] Alikhanian SI., et al., 1966
[2] Breitman TR., et al., 1967
[3] Buxton RS. 1975
[4] Dick M., et al., 2016
[5] Lomax MS., et al., 1968
External database links:  
ECOCYC:
 DEOXYRIBOSE-P-ALD-MONOMER
ECOLIWIKI:
 b4381
INTERPRO:
 IPR023649
INTERPRO:
 IPR002915
INTERPRO:
 IPR011343
INTERPRO:
 IPR013785
MODBASE:
 P0A6L0
PANTHER:
 PTHR10889
PDB:
 5EKY
PDB:
 1JCJ
PDB:
 1P1X
PDB:
 5EMU
PDB:
 5EL1
PDB:
 1JCL
PDB:
 1KTN
PFAM:
 PF01791
PRIDE:
 P0A6L0
PRODB:
 PRO_000022429
REFSEQ:
 NP_418798
SMART:
 SM01133
SMR:
 P0A6L0
UNIPROT:
 P0A6L0


Operon      
Name: deoCABD         
Operon arrangement:
Transcription unit        Promoter
deoCABD
deoCABD
deoBD
deoA


Transcriptional Regulation      
Display Regulation             
Activated by: CRP, Fis
Repressed by: CRP, DeoR, ModE, CytR


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_5162 4617277 forward nd [RS-EPT-CBR] [6]
  promoter TSS_5163 4617293 forward nd [RS-EPT-CBR] [6]
  promoter TSS_5164 4617361 forward nd [RS-EPT-CBR] [6]


Evidence    

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


Reference(s)    

 [1] Alikhanian SI., Iljina TS., Kaliaeva ES., Kameneva SV., Sukhodolec VV., 1966, A genetical study of thymineless mutants of E. coli K12., Genet Res 8(1):83-100

 [2] Breitman TR., Bradford RM., 1967, The absence of deoxyriboaldolase activity in a thymineless mutant of Escherichia coli strain 15: a possible explanation for the low thymine requirement of some thymineless strains., Biochim Biophys Acta 138(1):217-20

 [3] Buxton RS., 1975, Genetic analysis of thymidine-resistant and low-thymine-requiring mutants of Escherichia coli K-12 induced by bacteriophage Mu-1., J Bacteriol 121(2):475-84

 [4] Dick M., Hartmann R., Weiergraber OH., Bisterfeld C., Classen T., Schwarten M., Neudecker P., Willbold D., Pietruszka J., 2016, Mechanism-based inhibition of an aldolase at high concentrations of its natural substrate acetaldehyde: structural insights and protective strategies., Chem Sci 7(7):4492-4502

 [5] Lomax MS., Greenberg GR., 1968, Characteristics of the deo operon: role in thymine utilization and sensitivity to deoxyribonucleosides., J Bacteriol 96(2):501-14

 [6] 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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