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Synonyms: PdhR, PdhR-pyruvate |
Summary:
PdhR, "pyruvate dehydrogenase complex regulator," regulates genes involved in the pyruvate dehydrogenase complex [2, 4, 9] Activity of PdhR is controlled by pyruvate. In the absence of this compound, the PdhR regulator binds to its target promoters. This repression is antagonized by its coeffector, pyruvate [3, 4] In addition to the role described above, PdhR also controls the synthesis of two key enzymes (Ndh and CyoA) in the terminal electron transport system [3] The pdhR deletion mutant enhanced glucose metabolism under oxygen-limited conditions. This mutant strain showed an increased activity of the pyruvate dehydrogenase complex and NADH dehydrogenase [] The PdhR belongs to the GntR family of transcriptional regulatory proteins, which share sequence similarities in their N-terminal DNA-binding domains [1, 10] PdhR is negatively autoregulated [11] The pdhR consensus sequences has been determined to be 17bp [4] and more recently as 15 bp [3] Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | GntR | ||||||||||||||||||
Sensing class: | Using internal synthesized signals | ||||||||||||||||||
Connectivity class: | Local Regulator | ||||||||||||||||||
Gene name: | pdhR | ||||||||||||||||||
Genome position: | 122092-122856 | ||||||||||||||||||
Length: | 765 bp / 254 aa | ||||||||||||||||||
Operon name: | pdhR-aceEF-lpd | ||||||||||||||||||
TU(s) encoding the TF: |
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Regulon |
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Regulated gene(s) | aceE, aceF, cyoA, cyoB, cyoC, cyoD, cyoE, ddlB, fecA, fecB, fecC, fecD, fecE, ftsA, ftsI, ftsL, ftsQ, ftsW, ftsZ, glcA, glcB, glcD, glcE, glcF, glcG, grcA, hemL, hha, lpd, lpxC, mraY, mraZ, murC, murD, murE, murF, murG, ndh, pdhR, rsmH, tomB | ||||||
Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
membrane (12)
murein (peptidoglycan) (8)
murein (8)
cell division (7)
aerobic respiration (6)
Read more >
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Regulated operon(s) | cyoABCDE, fecABCDE, glcDEFGBA, grcA, hemL, mraZ-rsmH-ftsLI-murEF-mraY-murD-ftsW-murGC-ddlB-ftsQAZ-lpxC, ndh, pdhR-aceEF-lpd, tomB-hha | ||||||
First gene in the operon(s) | cyoA, fecA, glcD, grcA, hemL, mraZ, ndh, pdhR, tomB | ||||||
Simple and complex regulons | ArcA,CRP,Cra,CusR,FNR,Fis,Fur,GadE,HprR,PdhR ArcA,CRP,FNR,Fis,Fur,PdhR ArcA,FNR,Fis,Fur,IHF,NsrR,PdhR ArcA,GlcC,IHF,PdhR BasR,CpxR,PdhR Read more > | ||||||
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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PdhR | repressor | cyoAp | Sigma70 | -177.0 | -220.0 | cyoA, cyoB, cyoC, cyoD, cyoE |
ttttatttcaCATTGGTTATACCAATTgcccgcccag
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451822 | 451838 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3] | |
PdhR | activator | fecAp | nd | -21.0 | -71.0 | fecA, fecB, fecC, fecD, fecE |
taaggaaaatAATTCTTATTTCGATTGtcctttttac
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4516740 | 4516756 | [AIBSCS], [CV(GEA)], [GEA] | [6] | |
PdhR | repressor | glcDp | Sigma70 | -56.0 | -111.0 | glcD, glcE, glcF, glcG, glcB, glcA |
gctggaaaaaAAATGGTCTGACCGGTAgctaaagaga
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3128124 | 3128140 | [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [7] | |
PdhR | repressor | grcAp1 | Sigma70 | 17.0 | -58.0 | grcA |
actcaagcaaCAATGGTTTTACCAATTggccgcgaca
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2716499 | 2716515 | [APIORCISFBSCS], [CV(GEA)], [GEA] | [8] | |
PdhR | repressor | hemLp | Sigma28 | -165.0 | -204.0 | hemL |
aatgatcactTATTGGTCATACAAATAagatgacggc
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175078 | 175094 | [AIBSCS] | [3] | |
PdhR | repressor | mraZp | Sigma70 | -42.0 | -80.0 | mraZ, rsmH, ftsL, ftsI, murE, murF, mraY, murD, ftsW, murG, murC, ddlB, ftsQ, ftsA, ftsZ, lpxC |
tatgccttgtGACTGGCTTGACAAGCTtttcctcagc
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89546 | 89562 | [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [7] | |
PdhR | repressor | ndhp | Sigma70 | -35.0 | -128.0 | ndh |
ttaacatcaaTTTTGGTATGACCAATGcaccattcat
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1165949 | 1165965 | [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [3] | |
PdhR | repressor | pdhRp | Sigma70, Sigma38 | 19.0 | -40.0 | pdhR, aceE, aceF, lpd |
acagacatgaAATTGGTAAGACCAATTgacttcggca
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122044 | 122060 | [AIBSCS], [APIORCISFBSCS], [BCE], [BPP], [CV(GEA)], [CV(GEA)], [GEA] | [4], [5], [7] | |
PdhR | repressor | tomBp1 | Sigma70 | -178.0 | -264.0 | tomB, hha |
gcaatcctggTATTAGTGTCACCAATTtcatctggcg
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480964 | 480980 | [AIBSCS] | [3] |
Alignment and PSSM for PdhR TFBSs | ![]() |
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Aligned TFBS of PdhR |
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Sequence | |
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CAATTGGTCTTACCAATTT | |
CAATTGGTATAACCAATGT | |
CAATTGGTAAAACCATTGT | |
CTACCGGTCAGACCATTTT | |
GCATTGGTCATACCAAAAT | |
TTATTGGTCATACAAATAA | |
GTATTAGTGTCACCAATTT | |
CAATCGAAATAAGAATTAT | |
TGACTGGCTTGACAAGCTT |
Position weight matrix (PWM). PdhR matrix-quality result |
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A 0 4 9 0 0 1 1 1 3 4 3 9 0 3 9 5 1 3 1 C 5 1 0 2 2 0 0 1 4 0 1 0 8 6 0 0 1 0 0 G 2 1 0 0 0 8 8 0 1 0 2 0 1 0 0 1 0 2 0 T 2 3 0 7 7 0 0 7 1 5 3 0 0 0 0 3 7 4 8 |
Consensus |
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; consensus.strict caAttGGtctaACCAattT ; consensus.strict.rc AAATTGGTTAGACCAATTG ; consensus.IUPAC swAyyGGtmwdACMAwtdT ; consensus.IUPAC.rc AHAWTKGTHWKACCRRTWS ; consensus.regexp [cg][at]A[ct][ct]GGt[ac][at][agt]AC[AC]A[at]t[agt]T ; consensus.regexp.rc A[ACT]A[AT]T[GT]GT[ACT][AT][GT]ACC[AG][AG]T[AT][CG] |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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