RegulonDB RegulonDB 10.7: Operon Form
   

arcA operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: arcA
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): arcA expression is increased when the oxygen concentration is decreased |CITS:[15988767]|.
The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
The expression of arcA is increased in the presence of gentamicin and decreased when nlpE is overexpressed |CITS:[28923010]|.
Based on genome-wide analysis, 472 single-gene knockouts were studied to determine their anaerobic fermentation products, based on the control of redox reactions. It was determined that the combined knockout of the guaB, pyrD, serA, fnr, arcA, and arcB genes enhanced D-lactate overproduction |CITS:[23563322]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp1
+1: 4640508
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 202
Sequence: ttgggtgtccggcccctcttagcctgttatgttgctgttaaaatggttaggatgacagccGtttttgacactgtcgggtcc
                           -35                  -10         +1                   
Note(s): The arcAp1 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch), but the -35 region is quite different from the -35 consensus hexamer Compan I,1994.
Evidence: [HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Compan I., et al., 1994
[2] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR1 activator arcAp1 4640584 4640597 -82.5 acaattgaacTTGATATATGTCAAcgaagcgtag nd [APIORCISFBSCS], [GEA] [1], [4]
Note(s): 1Shalel-Levanon et al. Shalel-Levanon S,2005 suggested that FNR has a minor positive effect or no effect on arcA expression under the conditions that they used.1Shalel-Levanon et al. Shalel-Levanon S,2005 suggested that FNR has a minor positive effect or no effect on arcA expression under the conditions that they used.


Transcription unit       
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp2
+1: 4640512
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 206
Sequence: tttattgggtgtccggcccctcttagcctgttatgttgctgttaaaatggttaggatgacAgccgtttttgacactgtcgg
                               -35                  -10     +1                   
Note(s): The arcAp2 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch) but the -35 region is quite different from the -35 consensus hexamer Compan I,1994.
Evidence: [HIPP]
[TIM]
Reference(s): [1] Compan I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985


Transcription unit          
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp3
+1: 4640535
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 229
Sequence: gatatatgtcaacgaagcgtagttttattgggtgtccggcccctcttagcctgttatgttGctgttaaaatggttaggatg
                            -35                        -10  +1                   
Note(s): The arcAp3 promoter presents a -35 region with a strong similarity to the consensus sequence (with one mismatch) and a -10 region with weak similarity to the -10 consensus Compan I,1994.
Evidence: [HIPP]
[TIM]
Reference(s): [1] Compan I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR repressor arcAp3 4640584 4640597 -55.5 acaattgaacTTGATATATGTCAAcgaagcgtag nd [APIORCISFBSCS], [GEA] [1], [4]


Transcription unit       
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp4
+1: 4640599
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 293
Sequence: tgacgaaagctagcatttagatacgatgatttcatcaaactgttaacgtgctacaattgaActtgatatatgtcaacgaag
                          -35                       -10     +1                   
Note(s): The arcAp4 promoter presents a -10 region very similar to the -10 consensus sequence (with one mismatch) but with a -35 region dissimilar to the -35 consensus hexamer. Expression of the arcA gene from this promoter appears to be constitutive Compan I,1994.
Evidence: [HIPP]
[TIM]
Reference(s): [1] Compan I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985


Transcription unit       
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp5
+1: 4640681
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 375
Sequence: tttataaaaaataaatctcgacaattggattcaccacgtttattagttgtatgatgcaacTagttggattattaaaataat
                         -35                      -10       +1                   
Note(s): The arcAp5 promoter presents a -35 region with a strong similarity to the consensus sequence (one mismatch) and a -10 region with weak similarity to the consensus. Expression of the arcA gene from the arcAp5 promoter appears to be constitutive Compan I,1994.
Evidence: [HIPP]
[TIM]
Reference(s): [1] Compan I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985


Transcription unit       
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp6
+1: 4640688
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 382
Sequence: ggataattttataaaaaataaatctcgacaattggattcaccacgtttattagttgtatgAtgcaactagttggattatta
                         -35                    -10         +1                   
Note(s): The arcAp6 promoter presents a -35 region with a strong similarity to the consensus sequence (one mismatch) and -10 region with weak similarity Compan I,1994.
Evidence: [HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Compan I., et al., 1994
[2] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985


Transcription unit       
Name: arcA
Gene(s): arcA   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the arcA gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the seven promoters that transcribe the gene could be regulated by Fur |CITS:[21272324]|.
The expression of the gene arcA is increased under acidic growth conditions in either aerobiosis or microaerobiosis |CITS:[23274360]|.
Reference(s): [1] Compan I., et al., 1994
Promoter
Name: arcAp7
+1: 4640801
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 495
Sequence: taacgtaagtcgcagaaaaagccctttacttagcttaaaaaaggctaaactatttcctgaCtgtactaacggttgagttgt
                         -35                       -10      +1                   
Note(s): The arcAp7 promoter presents weak homology with a promoter sequence. Expression of the arcA gene from this promoter appears to be constitutive Compan I,1994.
Evidence: [HIPP]
[TIM]
Reference(s): [1] Compan I., et al., 1994
Terminator(s)
Type: rho-independent
Sequence: aaggttgaaaAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTgacggtggta
Reference(s): [3] Drury LS., et al., 1985





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