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Name: | carAB | |||||||||
Synonym(s): | OP00150, pyrA | |||||||||
Gene(s): | carA, carB Genome Browser M3D Gene expression COLOMBOS | |||||||||
Note(s): | The carAB operon is repressed in response to arginine, pyrimidine, and purine levels. Arginine regulation is exerted by ArgR at P2; pyrimidine regulation is exerted by IHF and PepA at P1; purine regulation is exerted by PurR. In particular, the IHF and PepA effects are sequence-structure and spacing dependent, as Devroede N,2004has demonstrated. In addition, it has been suggested that the UMP kinase, PyrH, is the pyrimidine sensor of the regulatory system and that it can interact with PepA and possibly bind to the DNA Devroede N,2004 Further studies will complete the evidence. A recent study showed that PepA specifically inhibits the activity of the carAB operon promoter P1 by itself; additionally, the interaction of PepA with the carAB promoter region induced a positive supercoiling in this region Nguyen Le Minh P, Nadal M, Charlier D,2016 The carAB operon is regulted by UTP-sensitive reiterative transcription in the transcription start site and between the -10 region and the transcription start Han X, Turnbough CL,2014 carAB operon expression is downregulated upon L-valine addition (isoleucine starvation) in the cellular growth medium Gummesson B, Shah SA, Borum AS, Fessler M, Mitarai N, Sørensen MA, Svenningsen SL,2020. |
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Evidence: | [CV(LTED/PM)] cross validation(LTED/PM) [LTED] Length of transcript experimentally determined [PM] Polar mutation |
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Reference(s): |
[1] Crabeel M., et al., 1980 [2] Gigot D., et al., 1980 [3] Shimada T., et al., 2007 |
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Promoter | ||||||||||
Name: | carAp1 | |||||||||
+1: | 29551 | |||||||||
Sigma Factor: | Sigma70 Sigmulon | |||||||||
Distance from start of the gene: | 100 | |||||||||
Sequence: |
taatataaaaaatcccgccattaagttgacttttagcgcccatatctccagaatgccgccGtttgccagaaattcgtcggt -35 -10 +1 |
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Evidence: |
[HIPP] [ICWHO] [TIM] |
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Reference(s): |
[4] Bouvier J., et al., 1984 [5] Charlier D., et al., 1995 [6] Charlier D., et al., 1995 [7] Charlier D., et al., 1988 [8] Huerta AM., et al., 2003 [3] Shimada T., et al., 2007 |
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Terminator(s) | ||||||||||
Type: | rho-independent | |||||||||
Sequence: | atcgaataacTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTgcccattaag | |||||||||
Reference(s): |
[4] Bouvier J., et al., 1984 [9] Nyunoya H., et al., 1983 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | Fis | activator | carAp1 | 29386 | 29405 | -156.0 | ttttttctgcTCGTTTTTATTTCATGCAATcttcttgctg | nd | [GEA], [AIBSCS] | [15] |
remote | Fis | activator | carAp1 | 29439 | 29458 | -103.0 | cagaacaggtTAGATGATCTTTTTGTCGCTtaatgcctgt | nd | [GEA], [AIBSCS] | [15] |
proximal | Fis | activator | carAp1 | 29461 | 29480 | -81.0 | ttgtcgcttaATGCCTGTAAAACATGCATGagccacaaaa | nd | [GEA], [AIBSCS] | [15] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | IHF | activator | carAp1 | 29240 | 29252 | -305.0 | atttaatttaTTGATTATAAAGGgctttaattt | nd | [GEA], [APIORCISFBSCS], [BCE], [BPP], [SM] | [10], [11], [12] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | IHF | repressor | carAp1 | 29240 | 29252 | -305.0 | atttaatttaTTGATTATAAAGGgctttaattt | nd | [GEA], [APIORCISFBSCS], [BCE], [BPP], [SM] | [10], [11], [12] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | PurR-hypoxanthine | repressor | carAp1 | 29415 | 29430 | -128.5 | tcttcttgctGCGCAAGCGTTTTCCAgaacaggtta | nd | [GEA], [AIBSCS], [BPP] | [12], [14], [16] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
remote | PepA | repressor | carAp1 | 29365 | 29391 | -173.0 | aattttgaccATTTGGTCCACTTTTTTCTGCTCGTTTttatttcatg | nd | [GEA], [IMP], [BPP] | [12], [14] |
proximal | PepA | repressor | carAp1 | 29459 | 29485 | -79.0 | ttttgtcgctTAATGCCTGTAAAACATGCATGAGCCAcaaaataata | nd | [GEA], [BPP] | [12], [14] |
Name: | carAB | |||||||||
Synonym(s): | OP00150 | |||||||||
Gene(s): | carA, carB Genome Browser M3D Gene expression COLOMBOS | |||||||||
Note(s): | The carAB operon is repressed in response to arginine, pyrimidine, and purine levels. Arginine regulation is exerted by ArgR at P2; pyrimidine regulation is exerted by IHF and PepA at P1; purine regulation is exerted by PurR. In particular, the IHF and PepA effects are sequence-structure and spacing dependent, as Devroede N,2004has demonstrated. In addition, it has been suggested that the UMP kinase, PyrH, is the pyrimidine sensor of the regulatory system and that it can interact with PepA and possibly bind to the DNA Devroede N,2004 Further studies will complete the evidence. The carAB operon is regulted by UTP-sensitive reiterative transcription in the transcription start site and between the -10 region and the transcription start Han X, Turnbough CL,2014 |
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Evidence: | [CV(LTED/PM)] cross validation(LTED/PM) [LTED] Length of transcript experimentally determined [PM] Polar mutation |
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Reference(s): |
[1] Crabeel M., et al., 1980 [2] Gigot D., et al., 1980 [3] Shimada T., et al., 2007 |
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Promoter | ||||||||||
Name: | carAp2 | |||||||||
+1: | 29619 | |||||||||
Sigma Factor: | Sigma70 Sigmulon | |||||||||
Distance from start of the gene: | 32 | |||||||||
Sequence: |
gaaattcgtcggtaagcagatttgcattgatttacgtcatcattgtgaattaatatgcaaAtaaagtgagtgaatattctc -35 -10 +1 |
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Evidence: |
[HIPP] [ICWHO] [TIM] |
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Reference(s): |
[4] Bouvier J., et al., 1984 [5] Charlier D., et al., 1995 [6] Charlier D., et al., 1995 [7] Charlier D., et al., 1988 [8] Huerta AM., et al., 2003 [3] Shimada T., et al., 2007 |
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Terminator(s) | ||||||||||
Type: | rho-independent | |||||||||
Sequence: | atcgaataacTAATACGGTTCTCTGATGAGGACCGTTTTTTTTTgcccattaag | |||||||||
Reference(s): |
[4] Bouvier J., et al., 1984 [9] Nyunoya H., et al., 1983 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence (Confirmed, Strong, Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | |||||||
proximal | ArgR-L-arginine | repressor | carAp2 | 29602 | 29619 | -8.5 | acgtcatcatTGTGAATTAATATGCAAAtaaagtgagt | nd | [GEA], [AIBSCS], [APIORCISFBSCS], [BPP], [SM] | [7], [17], [18] |
proximal | ArgR-L-arginine | repressor | carAp2 | 29623 | 29640 | 13.5 | atgcaaataaAGTGAGTGAATATTCTCTggagggtgtt | nd | [EME], [GEA], [AIBSCS], [AIBSPD], [APIORCISFBSCS], [BPP], [CEE], [SM] | [7], [17], [18] |
Name: | carB |
Gene(s): | carB Genome Browser M3D Gene expression COLOMBOS |
Promoter | |
Name: | carBp |
+1: | 30775 |
Distance from start of the gene: | 42 |
Sequence: |
agccagccctggtccacacgacgccgcgccgttgttcgaccactttatcgagttaattgaGcagtaccgtaaaaccgctaa |
Evidence: | [TAS] |
Reference(s): | [9] Nyunoya H., et al., 1983 |
Reference(s) |
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