RegulonDB RegulonDB 10.8: Regulon Form
   
   


ArgR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
ArgR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Sensing external and internal signals
Synonym(s): DNA-binding transcriptional dual regulator ArgR, XerA
Gene name(s): argR
Functional conformation(s): ArgR , ArgR-L-arginine
Coregulator(s): AdiY, ArgR, CRP, DksA-ppGpp, FNR, Fur, GadE, H-NS, HdfR, IHF, Lrp, Nac, NtrC, PhoP, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY ArgR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
ArgR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
ArgR-L-arginine repressor argCp argC , argB , argH 4154873 4154890 -3.5 ggtcatgataGTATCAATATTCATGCAGtatttatgaa [AIBSCS]
[BCE]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
ArgR-L-arginine repressor argCp argC , argB , argH 4154895 4154912 19.5 atgcagtattTATGAATAAAAATACACTaacgttgagc [AIBSCS]
[BCE]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
ArgR-L-arginine repressor argEp1 argE 4154873 4154890 16.5 ttcataaataCTGCATGAATATTGATACtatcatgacc [AIBSCS]
[BCE]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
ArgR-L-arginine repressor argEp1 argE 4154895 4154912 -6.5 gctcaacgttAGTGTATTTTTATTCATAaatactgcat [AIBSCS]
[BCE]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
ArgR-L-arginine repressor argFp argF 290354 290371 -22.5 tggggttgcaAATGAATAATTACACATAtaaagtgaat [AIBSCS]
[BCE]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[2]
[3]
[5]
[4]
[6]
[7]
ArgR-L-arginine repressor argFp argF 290333 290350 -1.5 acacatataaAGTGAATTTTAATTCAATaagtggcgtt [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[3]
[4]
[6]
[7]
ArgR-L-arginine repressor argRp1 argR 3384641 3384658 -27.5 gggctgactgTTTGCATAAAAATTCATCtgtatgcaca [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[2]
[5]
[8]
[4]
ArgR-L-arginine repressor argRp1 argR 3384661 3384678 -7.5 aattcatctgTATGCACAATAATGTTGTatcaaccacc [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[2]
[5]
[8]
[4]
ArgR-L-arginine repressor carAp2 carA , carB 29602 29619 -8.5 acgtcatcatTGTGAATTAATATGCAAAtaaagtgagt [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[9]
[4]
[10]
ArgR-L-arginine repressor carAp2 carA , carB 29623 29640 13.5 atgcaaataaAGTGAGTGAATATTCTCTggagggtgtt [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[2]
[9]
[4]
[10]
ArgR-L-arginine repressor artPp artM , artQ , artI , artP 903790 903808 -29.5 aaagcagaaaTATTGCATAATTATTCTGTcaaaggtact [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[11]
[4]
ArgR-L-arginine repressor artJp artJ 900645 900663 -27.5 taatcatgttTATTGCATATAAATTCACTtgatggcatt [AIBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[CV(GEA/SM)]
[CV(SM)]
[GEA]
[SM]
[1]
[11]
[4]
ArgR-L-arginine repressor artJp artJ 900666 900684 -48.5 ttttatttcaTTTAAATTATTTAATCATGtttattgcat [BPP]
[CV(SM)]
[GEA]
[SM]
[11]
ArgR-L-arginine repressor artPp artM , artQ , artI , artP 903811 903829 -50.5 tgcgctttgcTTTTAACTTTTAAAGCAGAaatattgcat [BPP]
[CV(SM)]
[GEA]
[SM]
[11]
ArgR-L-arginine repressor argAp argA 2949214 2949231 67.5 atacactaatTTCGAATAATCATGCAAAgaggtgtgcc [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[2]
[4]
ArgR-L-arginine repressor argAp argA 2949193 2949211 46.5 ctgcgaaaaaACAGAATAAAAATACACTAatttcgaata [AIBSCS]
[APIORCISFBSCS]
[BPP]
[CV(GEA)]
[CV(GEA)]
[GEA]
[1]
[2]
[4]
ArgR-L-arginine repressor lysOp lysO 914921 914938 -34.5 tttccttttaATTGCAACTTTACTCGTCcttccgcttt [BPP]
[CV(SM)]
[GEA]
[SM]
[12]
ArgR-L-arginine repressor lysOp lysO 914942 914959 -55.5 tactgctcctTATGCATAACATTTCCTTttaattgcaa [BPP]
[CV(SM)]
[GEA]
[SM]
[12]

Evidence: [AIBSCS] Automated inference based on similarity to consensus sequences
[BCE] Binding of cellular extracts
[BPP] Binding of purified proteins
[CV(GEA)] cross validation(GEA)
[CV(GEA/SM)] cross validation(GEA/SM)
[CV(SM)] cross validation(SM)
[GEA] Gene expression analysis
[SM] Site mutation
[APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
Reference(s): [1] Caldara M., et al., 2006
[2] Charlier D., et al., 1992
[3] Cunin R., et al., 1983
[4] Makarova KS., et al., 2001
[5] Levitt M. 1992
[6] Tian G., et al., 1992
[7] Tian G., et al., 1994
[8] Lim DB., et al., 1987
[9] Charlier D., et al., 1988
[10] Wang H., et al., 1998
[11] Caldara M., et al., 2007
[12] Pathania A., et al., 2015



Reference(s)    

 [1] Caldara M., Charlier D., Cunin R., 2006, The arginine regulon of Escherichia coli: whole-system transcriptome analysis discovers new genes and provides an integrated view of arginine regulation., Microbiology 152(Pt 11):3343-54

 [2] Charlier D., Roovers M., Van Vliet F., Boyen A., Cunin R., Nakamura Y., Glansdorff N., Pierard A., 1992, Arginine regulon of Escherichia coli K-12. A study of repressor-operator interactions and of in vitro binding affinities versus in vivo repression., J Mol Biol 226(2):367-86

 [3] Cunin R., Eckhardt T., Piette J., Boyen A., Pierard A., Glansdorff N., 1983, Molecular basis for modulated regulation of gene expression in the arginine regulon of Escherichia coli K-12., Nucleic Acids Res 11(15):5007-19

 [4] Makarova KS., Mironov AA., Gelfand MS., 2001, Conservation of the binding site for the arginine repressor in all bacterial lineages., Genome Biol 2(4):RESEARCH0013

 [5] Levitt M., 1992, Accurate modeling of protein conformation by automatic segment matching., J Mol Biol 226(2):507-33

 [6] Tian G., Lim D., Carey J., Maas WK., 1992, Binding of the arginine repressor of Escherichia coli K12 to its operator sites., J Mol Biol 226(2):387-97

 [7] Tian G., Maas WK., 1994, Mutational analysis of the arginine repressor of Escherichia coli., Mol Microbiol 13(4):599-608

 [8] Lim DB., Oppenheim JD., Eckhardt T., Maas WK., 1987, Nucleotide sequence of the argR gene of Escherichia coli K-12 and isolation of its product, the arginine repressor., Proc Natl Acad Sci U S A 84(19):6697-701

 [9] Charlier D., Weyens G., Roovers M., Piette J., Bocquet C., Pierard A., Glansdorff N., 1988, Molecular interactions in the control region of the carAB operon encoding Escherichia coli carbamoylphosphate synthetase., J Mol Biol 204(4):867-77

 [10] Wang H., Glansdorff N., Charlier D., 1998, The arginine repressor of Escherichia coli K-12 makes direct contacts to minor and major groove determinants of the operators., J Mol Biol 277(4):805-24

 [11] Caldara M., Minh PN., Bostoen S., Massant J., Charlier D., 2007, ArgR-dependent repression of arginine and histidine transport genes in Escherichia coli K-12., J Mol Biol 373(2):251-67

 [12] Pathania A., Sardesai AA., 2015, Distinct Paths for Basic Amino Acid Export in Escherichia coli: YbjE (LysO) Mediates Export of L-Lysine., J Bacteriol 197(12):2036-47


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