RegulonDB RegulonDB 10.8: Gene Form
   

atoC gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rcsC atoS atoC atoD IHF IHF AtoC AtoC atoDp atoDp rcsCp4 rcsCp4 rcsCp5 rcsCp5 TSS_2501 TSS_2501 TSS_2500 TSS_2500 TSS_2499 TSS_2499 TSS_2498 TSS_2498 TSS_2497 TSS_2497

Gene      
Name: atoC    Texpresso search in the literature
Synonym(s): ECK2213, EG11668, b2220
Genome position(nucleotides): 2321866 --> 2323251 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
48.99
External database links:  
ASAP:
ABE-0007343
CGSC:
984
ECHOBASE:
EB1619
OU-MICROARRAY:
b2220
PortEco:
atoC
STRING:
511145.b2220
COLOMBOS: atoC


Product      
Name: DNA-binding transcriptional activator/ornithine decarboxylase inhibitor AtoC
Synonym(s): AtoC, AtoC response regulator, AtoC transcriptional activator; Az protein inhibitor of ODC
Sequence: Get amino acid sequence Fasta Format
Regulator Family: EBP
Cellular location: cytosol
Molecular weight: 52.176
Isoelectric point: 6.389
Motif(s):
 
Type Positions Sequence
73 -> 73 H
145 -> 374 ILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVV
236 -> 245 ANEGTLLLDE
55 -> 55 D
6 -> 120 RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization --> 1.1.2 - fatty acids
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.14 - polyamine biosynthesis
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.4 - complex regulation --> 3.1.2.4.3 - two component regulatory systems (external signal)
  3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.3 - inhibition / activation of enzymes
  3 - regulation --> 3.3 - genetic unit regulated --> 3.3.1 - operon
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0003677 - DNA binding
GO:0008134 - transcription factor binding
GO:0003700 - DNA-binding transcription factor activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0043565 - sequence-specific DNA binding
biological_process GO:0006355 - regulation of transcription, DNA-templated
GO:0045893 - positive regulation of transcription, DNA-templated
GO:0000160 - phosphorelay signal transduction system
GO:0043086 - negative regulation of catalytic activity
Evidence: [GEA] Gene expression analysis
[HIFS] Human inference of function from sequence
Reference(s): [1] Canellakis ES., et al., 1993
[2] Jenkins LS., et al., 1987
[3] Pao GM., et al., 1995
[4] Parkinson JS. 1993
[5] Parkinson JS., et al., 1992
[6] Stock JB., et al., 1990
External database links:  
DIP:
DIP-9190N
ECOCYC:
ATOC-MONOMER
ECOLIWIKI:
b2220
INTERPRO:
IPR002197
INTERPRO:
IPR027417
INTERPRO:
IPR025944
INTERPRO:
IPR025943
INTERPRO:
IPR025662
INTERPRO:
IPR001789
INTERPRO:
IPR002078
INTERPRO:
IPR003593
INTERPRO:
IPR009057
INTERPRO:
IPR011006
MODBASE:
Q06065
PFAM:
PF00072
PFAM:
PF00158
PFAM:
PF02954
PRIDE:
Q06065
PRINTS:
PR01590
PRODB:
PRO_000022182
PROSITE:
PS00676
PROSITE:
PS50110
PROSITE:
PS50045
PROSITE:
PS00688
PROSITE:
PS00675
REFSEQ:
NP_416724
SMART:
SM00382
SMART:
SM00448
SMR:
Q06065
SWISSMODEL:
Q06065
UNIPROT:
Q06065


Operon      
Name: atoSC         
Operon arrangement:
Transcription unit        Promoter
 


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_2497 2317398 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_2498 2317454 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_2499 2319113 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_2500 2319298 reverse nd [RS-EPT-CBR] [7]
  promoter TSS_2501 2319911 reverse nd [RS-EPT-CBR] [7]
  promoter rcsCp5 2319979 reverse Similarity to the consensus
Read more >
[ICWHO] [8]
  promoter rcsCp4 2320081 reverse Similarity to the consensus
Read more >
[ICWHO] [8]


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] Canellakis ES., Paterakis AA., Huang SC., Panagiotidis CA., Kyriakidis DA., 1993, Identification, cloning, and nucleotide sequencing of the ornithine decarboxylase antizyme gene of Escherichia coli., Proc Natl Acad Sci U S A 90(15):7129-33

 [2] Jenkins LS., Nunn WD., 1987, Regulation of the ato operon by the atoC gene in Escherichia coli., J Bacteriol 169(5):2096-102

 [3] Pao GM., Saier MH., 1995, Response regulators of bacterial signal transduction systems: selective domain shuffling during evolution., J Mol Evol 40(2):136-54

 [4] Parkinson JS., 1993, Signal transduction schemes of bacteria., Cell 73(5):857-71

 [5] Parkinson JS., Kofoid EC., 1992, Communication modules in bacterial signaling proteins., Annu Rev Genet 26:71-112

 [6] Stock JB., Stock AM., Mottonen JM., 1990, Signal transduction in bacteria., Nature 344(6265):395-400

 [7] 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.

 [8] 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


RegulonDB