RegulonDB RegulonDB 10.9: Gene Form
   

epd gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

pgk epd yggC fumE CRP Cra anti-anti-terminator anti-terminator terminator epdp epdp TSS_3260 TSS_3260 TSS_3259 (cluster) TSS_3259 (cluster) TSS_3258 TSS_3258 TSS_3257 (cluster) TSS_3257 (cluster) TSS_3256 (cluster) TSS_3256 (cluster) pgkp1 pgkp1 TSS_3255 TSS_3255 TSS_3254 TSS_3254 pgkp3 pgkp3 TSS_3252 (cluster) TSS_3252 (cluster) pgkp2 pgkp2 TSS_3250 (cluster) TSS_3250 (cluster) TSS_3249 (cluster) TSS_3249 (cluster) TSS_3248 TSS_3248 TSS_3247 TSS_3247 TSS_3246 TSS_3246 TSS_3245 (cluster) TSS_3245 (cluster) TSS_3244 (cluster) TSS_3244 (cluster) TSS_3243 TSS_3243 TSS_3242 TSS_3242 TSS_3241 TSS_3241 TSS_3240 TSS_3240 TSS_3239 TSS_3239 TSS_3238 TSS_3238 TSS_3237 TSS_3237 TSS_3236 TSS_3236 TSS_3235 TSS_3235 TSS_3234 TSS_3234 TSS_3233 TSS_3233 TSS_3232 (cluster) TSS_3232 (cluster) TSS_3231 TSS_3231 TSS_3230 TSS_3230 TSS_3229 TSS_3229 TSS_3228 TSS_3228

Gene      
Name: epd    Texpresso search in the literature
Synonym(s): ECK2923, EG10368, b2927, gap2, gapB
Genome position(nucleotides): 3072672 <-- 3073691 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
51.47
Reference(s): [1] Alefounder PR., et al., 1989
[2] Zhao G., et al., 1995
External database links:  
ASAP:
ABE-0009607
CGSC:
32089
ECHOBASE:
EB0363
ECOLIHUB:
epd
NCBI-GENE:
947413
OU-MICROARRAY:
b2927
STRING:
511145.b2927
COLOMBOS: epd


Product      
Name: D-erythrose-4-phosphate dehydrogenase
Synonym(s): Epd, Gap2, GapB
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 37.299
Isoelectric point: 6.751
Motif(s):
 
Type Positions Sequence
182 -> 182 H
3 -> 104 VRVAINGFGRIGRNVVRALYESGRRAEITVVAINELADAAGMAHLLKYDTSHGRFAWEVRQERDQLFVGDDAIRVLHERSLQSLPWRELGVDVVLDCTGVYG
2 -> 339 TVRVAINGFGRIGRNVVRALYESGRRAEITVVAINELADAAGMAHLLKYDTSHGRFAWEVRQERDQLFVGDDAIRVLHERSLQSLPWRELGVDVVLDCTGVYGSREHGEAHIAAGAKKVLFSHPGSNDLDATVVYGVNQDQLRAEHRIVSNASCTTNCIIPVIKLLDDAYGIESGTVTTIHSAMHDQQVIDAYHPDLRRTRAASQSIIPVDTKLAAGITRFFPQFNDRFEAIAVRVPTINVTAIDLSVTVKKPVKANEVNLLLQKAAQGAFHGIVDYTELPLVSVDFNHDPHSAIVDGTQTRVSGAHLIKTLVWCDNEWGFANRMLDTTLAMATVAFR
213 -> 214 TK
316 -> 316 C

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.3 - cofactors, small molecule carriers --> 1.5.3.6 - pyridoxal 5'phosphate
  1 - metabolism --> 1.7 - central intermediary metabolism
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0016491 - oxidoreductase activity
GO:0016620 - oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
GO:0004365 - glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity
GO:0048001 - erythrose-4-phosphate dehydrogenase activity
GO:0051287 - NAD binding
biological_process GO:0006006 - glucose metabolic process
GO:0008615 - pyridoxine biosynthetic process
GO:0042823 - pyridoxal phosphate biosynthetic process
GO:0055114 - oxidation-reduction process
Note(s): Note(s): ...[more].
External database links:  
DIP:
DIP-9520N
ECOCYC:
ERYTH4PDEHYDROG-MONOMER
ECOLIWIKI:
b2927
INTERPRO:
IPR020828
INTERPRO:
IPR036291
INTERPRO:
IPR020831
INTERPRO:
IPR020830
INTERPRO:
IPR020829
INTERPRO:
IPR006422
PDB:
2X5J
PDB:
2X5K
PDB:
2XF8
PFAM:
PF00044
PFAM:
PF02800
PRIDE:
P0A9B6
PRINTS:
PR00078
PRODB:
PRO_000022528
PROSITE:
PS00071
REFSEQ:
NP_417402
SMART:
SM00846
SMR:
P0A9B6
SWISSMODEL:
P0A9B6
UNIPROT:
P0A9B6


Operon      
Name: epd-pgk-fbaA         
Operon arrangement:
Transcription unit        Promoter
pgk
pgk-fbaA
pgk
pgk-fbaA
pgk
pgk-fbaA
epd-pgk
epd-pgk-fbaA
epd-pgk
epd-pgk-fbaA


Transcriptional Regulation      
Display Regulation             
Activated by: CRP
Repressed by: Cra


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_3228 3071654 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3229 3071673 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3230 3071681 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3231 3071926 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3232 (cluster) 3071970 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3233 3071974 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3234 3072004 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3235 3072006 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3236 3072009 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3237 3072011 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3238 3072030 forward nd [RS-EPT-CBR] [3]
  promoter TSS_3239 3072032 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3240 3072041 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3241 3072121 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3242 3072341 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3243 3072348 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3244 (cluster) 3072367 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3245 (cluster) 3072371 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3246 3072373 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3247 3072375 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3248 3072393 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3249 (cluster) 3072629 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3250 (cluster) 3072642 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3252 (cluster) 3072682 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3254 3072831 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3255 3072852 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3256 (cluster) 3072860 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3257 (cluster) 3072929 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3258 3072931 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_3259 (cluster) 3072934 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_3260 3073321 reverse nd [RS-EPT-CBR] [3]


Evidence    

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



Reference(s)    

 [1] Alefounder PR., Perham RN., 1989, Identification, molecular cloning and sequence analysis of a gene cluster encoding the class II fructose 1,6-bisphosphate aldolase, 3-phosphoglycerate kinase and a putative second glyceraldehyde 3-phosphate dehydrogenase of Escherichia coli., Mol Microbiol 3(6):723-32

 [2] Zhao G., Pease AJ., Bharani N., Winkler ME., 1995, Biochemical characterization of gapB-encoded erythrose 4-phosphate dehydrogenase of Escherichia coli K-12 and its possible role in pyridoxal 5'-phosphate biosynthesis., J Bacteriol 177(10):2804-12

 [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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