RegulonDB RegulonDB 10.10: Gene Form
   

deoD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yjjJ deoB deoD terminator anti-terminator anti-anti-terminator terminator anti-terminator anti-anti-terminator yjjJp4 yjjJp4 yjjJp2 yjjJp2 TSS_5171 TSS_5171 TSS_5170 TSS_5170 TSS_5169 TSS_5169 TSS_5168 TSS_5168 TSS_5167 TSS_5167

Gene      
Name: deoD    Texpresso search in the literature
Synonym(s): ECK4376, EG10222, b4384, pup
Genome position(nucleotides): 4620883 --> 4621602 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.36
External database links:  
ASAP:
 ABE-0014379
CGSC:
 865
ECHOBASE:
 EB0218
ECOLIHUB:
 deoD
NCBI-GENE:
 945654
OU-MICROARRAY:
 b4384
STRING:
 511145.b4384
COLOMBOS: deoD


Product      
Name: purine nucleoside phosphorylase
Synonym(s): DeoD, Pup
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol,membrane
Molecular weight: 25.95
Isoelectric point: 5.359
Motif(s):
 
Type Positions Sequence
204 -> 205 SD
2 -> 239 ATPHINAEMGDFADVVLMPGDPLRAKYIAETFLEDAREVNNVRGMLGFTGTYKGRKISVMGHGMGIPSCSIYTKELITDFGVKKIIRVGSCGAVLPHVKLRDVVIGMGACTDSKVNRIRFKDHDFAAIADFDMVRNAVDAAKALGIDARVGNLFSADLFYSPDGEMFDVMEKYGILGVEMEAAGIYGVAAEFGAKALTICTVSDHIRTHEQTTAAERQTTFNDMIKIALESVLLGDKE
88 -> 91 RVGS
180 -> 182 EME
15 -> 219 DVVLMPGDPLRAKYIAETFLEDAREVNNVRGMLGFTGTYKGRKISVMGHGMGIPSCSIYTKELITDFGVKKIIRVGSCGAVLPHVKLRDVVIGMGACTDSKVNRIRFKDHDFAAIADFDMVRNAVDAAKALGIDARVGNLFSADLFYSPDGEMFDVMEKYGILGVEMEAAGIYGVAAEFGAKALTICTVSDHIRTHEQTTAAERQ

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.33 - nucleotide and nucleoside conversions
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
GO:0016020 - membrane
molecular_function GO:0003824 - catalytic activity
GO:0016757 - glycosyltransferase activity
GO:0016740 - transferase activity
GO:0004731 - purine-nucleoside phosphorylase activity
GO:0016763 - pentosyltransferase activity
GO:0042802 - identical protein binding
GO:0047975 - guanosine phosphorylase activity
biological_process GO:0006139 - nucleobase-containing compound metabolic process
GO:0006974 - cellular response to DNA damage stimulus
GO:0009116 - nucleoside metabolic process
GO:0006152 - purine nucleoside catabolic process
GO:0042278 - purine nucleoside metabolic process
GO:0019686 - purine nucleoside interconversion
External database links:  
DIP:
 DIP-36195N
ECOCYC:
 DEOD-MONOMER
ECOLIWIKI:
 b4384
INTERPRO:
 IPR000845
INTERPRO:
 IPR035994
INTERPRO:
 IPR004402
INTERPRO:
 IPR018016
MINT:
 P0ABP8
MODBASE:
 P0ABP8
PANTHER:
 PTHR43691:SF2
PDB:
 5IU6
PDB:
 4TTA
PDB:
 4TTI
PDB:
 5I3C
PDB:
 4TTJ
PDB:
 1A69
PDB:
 1ECP
PDB:
 1K9S
PDB:
 1OTX
PDB:
 1OTY
PDB:
 1OU4
PDB:
 1OUM
PDB:
 1OV6
PDB:
 1OVG
PDB:
 3ONV
PDB:
 3OOE
PDB:
 3OOH
PDB:
 3OPV
PDB:
 3UT6
PDB:
 4TS3
PDB:
 4TS9
PFAM:
 PF01048
PRIDE:
 P0ABP8
PRODB:
 PRO_000022430
PROSITE:
 PS01232
REFSEQ:
 NP_418801
SMR:
 P0ABP8
UNIPROT:
 P0ABP8


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: Transcriptional


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_5167 4619991 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5168 4620783 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5169 4620785 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5170 4620789 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5171 4621110 forward nd [RS-EPT-CBR] [1]
  promoter yjjJp2 4621657 forward nd [ICWHO] [2]
  promoter yjjJp4 4621716 forward nd [ICWHO] [2]


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] 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.

 [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

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