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Synonyms: AraC-D-fucose, AraC, AraC-arabinose, AraC |
Summary:
The "arabinose regulator," AraC, is a transcription factor that regulates transcription of several genes and operons involved in arabinose catabolism and transport. It coregulates with another transcriptional regulator, CRP; both are transcription factors involved in l-arabinose degradation. These regulators bind cooperatively to activate transcription of five operons related to transport, catabolism, and autoregulation of l-arabinose. Transcription of these operons is induced when E. coli is grown in the absence of glucose and when the physiological inducer, l-arabinose, binds to the AraC regulator. In the absence of glucose, cellular cyclic AMP levels are high and cyclic AMP forms a dimeric complex with CRP to coregulate with AraC [1, 9, 13, 17, 20, 23, 24] AraC binds to five target sites in the araBp region. AraC binds to the less-conserved site (-42.5) with less strength; this binding occurs only in the presence of arabinose, and it is absolutely required for expression of araBp [7, 25] AraC binding to the distal site (-123.5) has been shown to down-regulate expression of araBp and araCp [6, 25] In the absence of arabinose, AraC is unable to activate araBp, but it regulates its own expression by repressing araCp and araBp simultaneously [25] Arabinose triggers AraC-dependent activation of araBp and relieves AraC-dependent repression of araCp [25] The araBAD operon is located upstream of araC and in the opposite direction. In the presence of arabinose, this regulator activates transcription by overlapping the -35 box of the core promoters, and the central position of the binding site is located near bp -41.5. Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | AraC/XylS | ||||||||||||||||||||||||||||||
Sensing class: | Sensing external and internal signals | ||||||||||||||||||||||||||||||
Connectivity class: | Local Regulator | ||||||||||||||||||||||||||||||
Gene name: | araC | ||||||||||||||||||||||||||||||
Genome position: | 70387-71265 | ||||||||||||||||||||||||||||||
Length: | 879 bp / 292 aa | ||||||||||||||||||||||||||||||
Operon name: | araC | ||||||||||||||||||||||||||||||
TU(s) encoding the TF: |
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Regulon |
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Regulated gene(s) | araA, araB, araC, araD, araE, araF, araG, araH, araJ, xylA, xylB, ydeM, ydeN, ygeA | ||||||
Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
carbon compounds (11)
membrane (3)
Porters (Uni-, Sym- and Antiporters) (2)
Transcription related (1)
activator (1)
Read more >
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Regulated operon(s) | araBAD, araC, araE-ygeA, araFGH, araJ, xylAB, ydeNM | ||||||
First gene in the operon(s) | araB, araC, araE, araE, araF, araJ, xylA, ydeN | ||||||
Simple and complex regulons | AraC,CRP AraC,CRP,XylR AraC,GadX,NagC | ||||||
Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) |
Transcription factor regulation |
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Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence![]() |
LeftPos | RightPos | Evidence (Confirmed, Strong, Weak) | References | |
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AraC | repressor | araBp | Sigma70 | -275.0 | -302.0 | araB, araA, araD |
attcagagaaGAAACCAATTGTCCATAttgcatcaga
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70342 | 70358 | [APIORCISFBSCS], [BCE], [BPP], [CV(SM)], [SM] | [4], [9], [11], [13], [14], [15], [16] | |
AraC-arabinose | repressor | araBp | Sigma70 | -138.0 | -165.0 | araB, araA, araD |
caaaaacgcgTAACAAAAGTGTCTATAatcacggcag
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70205 | 70221 | [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [6], [13], [15] | |
AraC-arabinose | repressor | araBp | Sigma70 | -117.0 | -144.0 | araB, araA, araD |
tctataatcaCGGCAGAAAAGTCCACAttgattattt
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70184 | 70200 | [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [6], [13], [15] | |
AraC | repressor | araBp | Sigma70 | -64.0 | -91.0 | araB, araA, araD |
tgctatgccaTAGCATTTTTATCCATAagattagcgg
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70131 | 70147 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [9], [11], [12], [13], [14], [15], [16] | |
AraC-arabinose | activator | araBp | Sigma70 | -64.0 | -91.0 | araB, araA, araD |
tgctatgccaTAGCATTTTTATCCATAagattagcgg
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70131 | 70147 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [9], [11], [12], [13], [14], [15], [16] | |
AraC-arabinose | activator | araBp | Sigma70 | -43.0 | -70.0 | araB, araA, araD |
tccataagatTAGCGGATCCTACCTGAcgctttttat
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70110 | 70126 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [4], [7], [9], [11], [12], [13], [16] | |
AraC-arabinose | activator | araCp | Sigma70 | -105.0 | -269.0 | araC |
ataaaaagcgTCAGGTAGGATCCGCTAatcttatgga
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70110 | 70126 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [4], [7], [11], [12], [13] | |
AraC | repressor | araCp | Sigma70 | -84.0 | -248.0 | araC |
ccgctaatctTATGGATAAAAATGCTAtggcatagca
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70131 | 70147 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [11], [12], [13], [14], [15] | |
AraC-arabinose | activator | araCp | Sigma70 | -84.0 | -248.0 | araC |
ccgctaatctTATGGATAAAAATGCTAtggcatagca
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70131 | 70147 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [3], [11], [12], [13], [14], [15] | |
AraC-arabinose | repressor | araCp | Sigma70 | -31.0 | -195.0 | araC |
aaataatcaaTGTGGACTTTTCTGCCGtgattataga
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70184 | 70200 | [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [6], [13], [15] | |
AraC-arabinose | repressor | araCp | Sigma70 | -10.0 | -174.0 | araC |
ctgccgtgatTATAGACACTTTTGTTAcgcgtttttg
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70205 | 70221 | [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] | [6], [13], [15] | |
AraC | repressor | araCp | Sigma70 | 128.0 | -37.0 | araC |
tctgatgcaaTATGGACAATTGGTTTCttctctgaat
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70342 | 70358 | [APIORCISFBSCS], [BCE], [BPP], [CV(SM)], [SM] | [4], [9], [11], [13], [14], [15] | |
AraC-arabinose | activator | araEp | Sigma70 | -65.0 | -91.0 | araE, ygeA |
cgacatgtcgCAGCAATTTAATCCATAtttatgctgt
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2982265 | 2982281 | [APIORCISFBSCS], [BPP] | [13], [17] | |
AraC-arabinose | activator | araEp | Sigma70 | -44.0 | -70.0 | araE, ygeA |
tccatatttaTGCTGTTTCCGACCTGAcacctgcgtg
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2982244 | 2982260 | [APIORCISFBSCS], [BPP] | [13], [17] | |
AraC-arabinose | activator | araFp | Sigma70, Sigma38 | -166.0 | -276.0 | araF, araG, araH |
ccaaagacaaCAAGGATTTCCAGGCTAatcttatgga
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1986396 | 1986412 | [BPP], [CV(SM)], [SM] | [1], [13], [18] | |
AraC-arabinose | activator | araFp | Sigma70, Sigma38 | -145.0 | -255.0 | araF, araG, araH |
aggctaatctTATGGATTAATCTGCTGtgcattcgac
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1986375 | 1986391 | [AIBSCS], [APIORCISFBSCS], [BPP] | [1], [2], [13], [18] | |
AraC-arabinose | activator | araFp | Sigma70, Sigma38 | -91.0 | -201.0 | araF, araG, araH |
ggctttccctTATGTCTTTTCCCGCTAaatttatgca
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1986321 | 1986337 | [BPP], [CV(SM)], [SM] | [1], [13], [18] | |
AraC-arabinose | activator | araFp | Sigma70, Sigma38 | -70.0 | -180.0 | araF, araG, araH |
ccgctaaattTATGCACGTTCTCACTGtaattctgcg
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1986300 | 1986316 | [APIORCISFBSCS], [BPP] | [1], [2], [18], [19] | |
AraC-arabinose | activator | araJp | Sigma70 | -64.0 | -112.0 | araJ |
aataactattCAGCAGGATAATGAATAcagaggggcg
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412585 | 412601 | [APIORCISFBSCS], [BPP] | [1], [13], [20] | |
AraC-arabinose | activator | araJp | Sigma70 | -43.0 | -91.0 | araJ |
tgaatacagaGGGGCGAATTATCTCTTggccttgctg
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412564 | 412580 | [AIBSCS], [BPP] | [1], [13], [20] | |
AraC-arabinose | repressor | xylAp | nd | -48.0 | -90.0 | xylA, xylB |
attatctcaaTAGCAGTGTGAAATAACataattgagc
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3730847 | 3730863 | [APIORCISFBSCS], [BCE], [CV(GEA)], [GEA] | [21] | |
AraC-arabinose | repressor | xylAp | nd | -25.0 | -67.0 | xylA, xylB |
taacataattGAGCAACTGAAAGGGAGtgcccaatat
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3730824 | 3730840 | [BCE], [CV(GEA)], [GEA] | [21] | |
AraC-arabinose | repressor | ydeNp | Sigma70 | nd | nd | ydeN, ydeM | nd | nd | [GEA] | [22] |
Functional conformation | Function | Object name | Object type | Distance to first Gene | Sequence | LeftPos | RightPos | Center Position | Growth Condition | Evidence (Confirmed, Strong, Weak) | References | |
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AraC | repressor | nd | tu | nd |
agacggtataCAGAGCAGGAAAATCCATAaccgtagccg
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4449772 | 4449791 | 4449781.0 | nd | [AIBSCS], [GEA], [SM] | [22] |
Alignment and PSSM for AraC TFBSs | ![]() |
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Aligned TFBS of AraC |
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Sequence | |
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CACAGCAGATTAATCCATAA | |
CGCAGCAATTTAATCCATAT | |
TACAGTGAGAACGTGCATAA | |
CATAGCATTTTTATCCATAA | |
CACGGCAGAAAAGTCCACAT | |
TTTAGCGGGAAAAGACATAA | |
TTCAGCAGGATAATGAATAC | |
AGCAGTGTGAAATAACATAA | |
AAGAAACCAATTGTCCATAT | |
CGTAACAAAAGTGTCTATAA | |
ATTAGCCTGGAAATCCTTGT | |
TCAGGTCGGAAACAGCATAA | |
GATTAGCGGATCCTACCTGA | |
AAGAGATAATTCGCCCCTCT | |
CCCTTTCAGTTGCTCAATTA |
Position weight matrix (PWM). AraC matrix-quality result |
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A 4 7 1 11 3 2 6 5 5 9 6 8 6 2 3 2 12 0 11 9 C 6 2 7 0 0 8 5 1 0 0 0 3 3 1 9 12 2 1 1 1 G 1 3 2 2 11 1 3 6 8 1 1 1 5 1 3 0 0 0 2 0 T 4 3 5 2 1 4 1 3 2 5 8 3 1 11 0 1 1 14 1 5 |
Consensus |
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; consensus.strict cacaGccggatagtCCaTaa ; consensus.strict.rc TTATGGACTATCCGGCTGTG ; consensus.IUPAC cayaGcmrrwwartCCaTaw ; consensus.IUPAC.rc WTATGGAYTWWYYKGCTRTG ; consensus.regexp ca[ct]aGc[ac][ag][ag][at][at]a[ag]tCCaTa[at] ; consensus.regexp.rc [AT]TATGGA[CT]T[AT][AT][CT][CT][GT]GCT[AG]TG |
Evolutionary conservation of regulatory elements | ![]() |
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