Difference between revisions of "Transcription factors and their control"

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(→‎Transcription factors/ other)
 
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{{CategoryTree
 
{{CategoryTree
 
|Parents=
 
|Parents=
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* 3.4.7. [[Phosphorelay]]
 
* 3.4.7. [[Phosphorelay]]
 
* 3.4.8. [[Quorum sensing]]
 
* 3.4.8. [[Quorum sensing]]
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* 3.4.9. [[Other regulators]]
 
|Related=
 
|Related=
−
none
+
* [[Transcription]]
 +
* [[Regulons]]
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* [[Trigger enzymes]]
 +
* [[Two-component systems]]
 
|}}
 
|}}
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__TOC__
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<br><br><br><br><br>
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Transcription factors control gene expression by regulating transcription initiation or transcription elongation. Transcription initiation is regulated by DNA-binding proteins, whereas transcription elongation can be controlled by DNA-binding proteins ("transcriptional roadblocks") or RNA-binding proteins (transcription termination/ antitermination).
 +
 +
Transcription factors can be grouped according to their mode of interaction with nucleic acids (DNA-or RNA-binding proteins) and also according to the mechanism by which they perceive the signal.
 +
 +
=DNA-binding transcription factors=
 +
* [[transcription factors activating transcription at SigL-dependent promoters]]
 +
* [[transcription factors of the AraC family]]
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* [[transcription factors of the ArgR family]]
 +
* [[transcription factors of the ArsR family]]
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* [[transcription factors of the BirA family]]
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* [[transcription factors of the CcpN family]]
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* [[transcription factors of the DeoR family]]
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* [[transcription factors of the Fur family]]
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* [[transcription factors of the GntR family]]
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* [[transcription factors of the LacI family]]
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* [[transcription factors of the Lrp family]]
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* [[transcription factors of the LysR family]]
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* [[transcription factors of the MarR/DUF24 family]]
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* [[transcription factors of the MerR family]]
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* [[transcription factors of the MocR/ GabR family]]
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* [[transcription factors of the OmpR family]]
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* [[transcription factors of the PucR family]]
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* [[transcription factors of the SorC family]]
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* [[transcription factors of the TetR family]]
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* [[transcription factors of the Xre family]]
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 +
=RNA-binding transcription factors=
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* [[transcription antiterminators]]
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* [[transcription termination proteins]]
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 +
=Transcription factors according to signal perception=
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* [[PRD-containing transcription factors]]
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* [[transcription factors modulated by trigger enzymes]]
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* [[two-component systems]]
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 +
=Reviews on transcription regulation=
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<pubmed> 19721087 19632156 16772031 18599813 22210308 23504016 22728391</pubmed>
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 +
== Genes in this functional category ==
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 +
=== Two-component system response regulators ===
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* ''[[bceR]]''
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* ''[[cheY]]''
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* ''[[citT]]''
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* ''[[comA]]''
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* ''[[cssR]]''
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* ''[[dctR]]''
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* ''[[degU]]''
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* ''[[desR]]''
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* ''[[glnL]]''
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* ''[[liaR]]''
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* ''[[lytT]]''
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* ''[[malR]]''
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* ''[[natR]]''
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* ''[[phoP]]''
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* ''[[psdR]]''
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* ''[[resD]]''
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* ''[[spo0A]]''
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* ''[[walR]]''
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* ''[[ybdJ]]''
 +
* ''[[ycbL]]''
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* ''[[yclJ]]''
 +
* ''[[ydfI]]''
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* ''[[yesN]]''
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* ''[[yfiK]]''
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* ''[[yhcZ]]''
 +
* ''[[ykoG]]''
 +
* ''[[yneI]]''
 +
* ''[[yrkP]]''
 +
* ''[[yvfU]]''
 +
* ''[[yvrHb]]''
 +
* ''[[yxdJ]]''
 +
* ''[[yxjL]]''
 +
 +
=== Control of two-component response regulators ===
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==== Two-component sensor kinase ====
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* ''[[bceS]]''
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* ''[[cheA]]''
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* ''[[citS]]''
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* ''[[comP]]''
 +
* ''[[cssS]]''
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* ''[[dctS]]''
 +
* ''[[degS]]''
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* ''[[desK]]''
 +
* ''[[glnK]]''
 +
* ''[[kinA]]''
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* ''[[kinB]]''
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* ''[[kinC]]''
 +
* ''[[kinD]]''
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* ''[[kinE]]''
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* ''[[liaS]]''
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* ''[[lytS]]''
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* ''[[malK]]''
 +
* ''[[natK]]''
 +
* ''[[phoR]]''
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* ''[[psdS]]''
 +
* ''[[resE]]''
 +
* ''[[walK]]''
 +
* ''[[ybdK]]''
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* ''[[ycbM]]''
 +
* ''[[yclK]]''
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* ''[[ydfH]]''
 +
* ''[[yesM]]''
 +
* ''[[yfiJ]]''
 +
* ''[[yhcY]]''
 +
* ''[[ykoH]]''
 +
* ''[[yrkQ]]''
 +
* ''[[yvfT]]''
 +
* ''[[yvrG]]''
 +
* ''[[ywpD]]''
 +
* ''[[yxdK]]''
 +
* ''[[yxjM]]''
 +
 +
==== Response regulator aspartate phosphatase ====
 +
* ''[[phrI]]''
 +
* ''[[phrK]]''
 +
* ''[[rapA]]''
 +
* ''[[rapB]]''
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* ''[[rapC]]''
 +
* ''[[rapD]]''
 +
* ''[[rapE]]''
 +
* ''[[rapF]]''
 +
* ''[[rapG]]''
 +
* ''[[rapH]]''
 +
* ''[[rapI]]''
 +
* ''[[rapJ]]''
 +
* ''[[rapK]]''
 +
 +
==== Control of response regulators/ other ====
 +
* ''[[cheV]]''
 +
* ''[[degQ]]''
 +
* ''[[degR]]''
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* ''[[liaF]]''
 +
* ''[[phrC]]''
 +
* ''[[phrF]]''
 +
* ''[[phrG]]''
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* ''[[swrAA/1]]''
 +
* ''[[swrAA/2]]''
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* ''[[yycH]]''
 +
* ''[[yycI]]''
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* ''[[yydF]]''
 +
* ''[[yydG]]''
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* ''[[yydH]]''
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* ''[[yydI]]''
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* ''[[yydJ]]''
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 +
=== PRD-type regulators ===
 +
* [[GlcT]]''
 +
* [[LevR]]
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* [[LicR]]
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* [[LicT]]
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* [[ManR]]
 +
* [[MtlR]]
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* [[SacT]]
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* [[SacY]]
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=== Control of PRD-type regulators ===
 +
* [[PtsG]]
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* [[BglP]]
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* [[SacP]]
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* [[SacX]]
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* [[LevE]]
 +
* [[MtlA]]
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* [[LicB]]
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* [[ManP]]
 +
 +
=== Transcription factors/ other ===
 +
* ''[[acoR]]''
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* ''[[adaA]]''
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* ''[[adeR]]''
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* ''[[adhR]]''
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* ''[[ahrC]]''
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* ''[[alaR]]''
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* ''[[alsR]]''
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* ''[[ansR]]''
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* ''[[araR]]''
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* ''[[arfM]]''
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* ''[[arsR]]''
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* ''[[aseR]]''
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* ''[[azlB]]''
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* ''[[birA]]''
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* ''[[bkdR]]''
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* ''[[bltR]]''
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* ''[[bmrR]]''
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* ''[[bsdA]]''
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* ''[[btr]]''
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* ''[[catR]]''
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* ''[[ccpA]]''
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* ''[[ccpB]]''
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* ''[[ccpC]]''
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* ''[[ccpN]]''
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* ''[[cggR]]''
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* ''[[chrS]]''
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* ''[[citR]]''
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* ''[[codY]]''
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* ''[[comK]]''
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* ''[[csoR]]''
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* ''[[ctsR]]''
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* ''[[cueR]]''
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* ''[[cysL]]''
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* ''[[cymR]]''
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* ''[[czrA]]''
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* ''[[degA]]''
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* ''[[deoR]]''
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* ''[[dtrR]]''
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* ''[[exuR]]''
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* ''[[fadR]]''
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* ''[[fapR]]''
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* ''[[fatR]]''
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* ''[[fnr]]''
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* ''[[frlR]]''
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* ''[[fruR]]''
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* ''[[fur]]''
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* ''[[gabR]]''
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* ''[[gamR]]''
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* ''[[gbsR]]''
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* ''[[gerE]]''
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* ''[[gerR]]''
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* ''[[glcR]]''
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* ''[[glnR]]''
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* ''[[glpP]]''
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* ''[[gltC]]''
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* ''[[gltR]]''
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* ''[[glvR]]''
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* ''[[gmuR]]''
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* ''[[gntR]]''
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* ''[[gutR]]''
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* ''[[hrcA]]''
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* ''[[hutP]]''
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* ''[[hxlR]]''
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* ''[[hypR]]''
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* ''[[immR]]''
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* ''[[iolR]]''
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* ''[[kdgR]]''
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* ''[[kipR]]''
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* ''[[lacR]]''
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* ''[[lexA]]''
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* ''[[lmrA]]''
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* ''[[lrpA]]''
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* ''[[lrpB]]''
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* ''[[lutR]]''
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* ''[[mdtR]]''
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* ''[[mgsR]]''
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* ''[[mhqR]]''
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* ''[[mntR]]''
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* ''[[msmR]]''
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* ''[[mta]]''
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* ''[[mtrB]]''
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* ''[[murR]]''
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* ''[[nadR]]''
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* ''[[nagR]]''
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* ''[[nrdR]]''
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* ''[[nsrR]]''
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* ''[[ntdR]]''
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* ''[[ohrR]]''
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* ''[[opcR]]''
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* ''[[padR]]''
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* ''[[paiB]]''
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* ''[[perR]]''
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* ''[[pksA]]''
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* ''[[pucR]]''
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* ''[[purR]]''
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*'' [[putR]]''
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* ''[[pyrR]]''
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* ''[[qdoR]]''
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* ''[[rbsR]]''
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* ''[[remA]]''
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* ''[[rex]]''
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* ''[[rghR]]''
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* ''[[rhaR]]''
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* ''[[rhgR]]''
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* ''[[rocR]]''
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* ''[[rok]]''
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* ''[[scoC]]''
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* ''[[sdpR]]''
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* ''[[senS]]''
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* ''[[sinR]]''
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* ''[[sknR]]''
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* ''[[slrR]]''
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* ''[[splA]]''
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* ''[[spoIIID]]''
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* ''[[spoVT]]''
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* ''[[spx]]''
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* [[TilS]]-[[HprT]]
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* ''[[thrR]]''
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* ''[[tnrA]]''
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* ''[[treR]]''
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* ''[[xre]]''
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* ''[[xylR]]''
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* ''[[ycbG]]''
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* ''[[ycnK]]''
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* ''[[yetL]]''
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* ''[[yfmP]]''
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* ''[[ykrK]]''
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* ''[[yodB]]''
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* ''[[yofA]]''
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* ''[[yplP]]''
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* ''[[ytlI]]''
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* ''[[ytrA]]''
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* ''[[ywbI]]''
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* ''[[ywcC]]''
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* ''[[zur]]''
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=== Transcription factor/ other/ based on similarity ===
 +
* ''[[yazB]]''
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* ''[[ybfI]]''
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* ''[[ybfP]]''
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* ''[[ybzH]]''
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* ''[[yceK]]''
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* ''[[ycgE]]''
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* ''[[ycgK]]''
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* ''[[ycnC]]''
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* ''[[ycxD]]''
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* ''[[yczG]]''
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* ''[[ydeB]]''
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* ''[[ydeC]]''
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* ''[[ydeE]]''
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* ''[[ydeF]]''
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* ''[[ydeL]]''
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* ''[[ydeP]]''
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* ''[[ydeS]]''
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* ''[[ydfD]]''
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* ''[[ydfL]]''
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* ''[[ydgG]]''
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* ''[[ydgJ]]''
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* ''[[ydhC]]''
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* ''[[yerO]]''
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* ''[[yezC]]''
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* ''[[yezE]]''
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* ''[[yfiF]]''
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* ''[[yfiR]]''
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* ''[[yfiV]]''
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* ''[[ygzD]]''
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* ''[[yhbI]]''
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* ''[[yhcB]]''
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* ''[[yhcF]]''
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* ''[[yhdI]]''
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* ''[[yhgD]]''
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* ''[[yisR]]''
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* ''[[yisV]]''
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* ''[[ykoM]]''
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* ''[[ykvN]]''
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* ''[[ykvZ]]''
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* ''[[ymfC]]''
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* ''[[yoaU]]''
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* ''[[yobD]]''
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* ''[[yobQ]]''
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* ''[[yonR]]''
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* ''[[yopO]]''
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* ''[[yopS]]''
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* ''[[yotL]]''
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* ''[[yozG]]''
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* ''[[ypoP]]''
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* ''[[yqaF]]''
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* ''[[yqaG]]''
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* ''[[yraN]]''
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* ''[[yrdQ]]''
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* ''[[ysmB]]''
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* ''[[ytcD]]''
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* ''[[ytdP]]''
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* ''[[ytoI]]''
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* ''[[ytzE]]''
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* ''[[yusT]]''
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* ''[[yvaO]]''
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* ''[[yvaV]]''
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* ''[[yvbU]]''
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* ''[[yvcL]]''
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* ''[[yvzC]]''
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* ''[[yvdE]]''
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* ''[[yvdT]]''
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* ''[[yvkB]]''
 +
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* ''[[ywhA]]''
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* ''[[ywoH]]''
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* ''[[ywqM]]''
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* ''[[yxaD]]''
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* ''[[yxjO]]''
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* ''[[yyaN]]''
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* ''[[yybA]]''
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* ''[[yybE]]''
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* ''[[yydK]]''
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=== Control of transcription factor (other than two-component system) ===
 +
* [[AbbA]]
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* [[Crh]]
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* [[CysK]]
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* [[GlnA]]
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* [[GudB]]
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* [[HprK]]
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* [[ImmA]]
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* [[McsA]]
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* [[McsB]]
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* [[NrgB]]
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* [[PtsH]]
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* [[RocG]]
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* [[RtpA]]
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* [[SalA]]
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* [[SinI]]
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* [[SlrA]]
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* [[YabJ]]
 +
* [[YlbF]]
 +
* [[YmcA]]
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* [[YqfL]]
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 +
=Back to [[categories]]=

Latest revision as of 17:37, 5 June 2016

Parent categories
Neighbouring categories
Related categories






Transcription factors control gene expression by regulating transcription initiation or transcription elongation. Transcription initiation is regulated by DNA-binding proteins, whereas transcription elongation can be controlled by DNA-binding proteins ("transcriptional roadblocks") or RNA-binding proteins (transcription termination/ antitermination).

Transcription factors can be grouped according to their mode of interaction with nucleic acids (DNA-or RNA-binding proteins) and also according to the mechanism by which they perceive the signal.

DNA-binding transcription factors

RNA-binding transcription factors

Transcription factors according to signal perception

Reviews on transcription regulation


Genes in this functional category

Two-component system response regulators

Control of two-component response regulators

Two-component sensor kinase

Response regulator aspartate phosphatase

Control of response regulators/ other

PRD-type regulators

Control of PRD-type regulators

Transcription factors/ other

Transcription factor/ other/ based on similarity

Control of transcription factor (other than two-component system)

Back to categories

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