Transcriptional activator: Difference between revisions

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'''Transcriptional activators''' (TA) are proteins which bind to DNA and stimulate nearby gene transcription.  TA transcription stimulation is achieved by enhancing RNA polymerase binding or by enhancing the formation of open complex which is required for initiation of transcription.  TA bind to a specific DNA sequence in or near an operon via their DNA-binding domain (DBD).  TA contains 3 domains: DBD, trans-activating domain (TAD) which binds coregulator proteins and an optional ligand-binding domain (LBD) which sense external signals.
'''Transcriptional activators''' (TA) are proteins which bind to DNA and stimulate nearby gene transcription.  TA transcription stimulation is achieved by enhancing RNA polymerase binding or by enhancing the formation of open complex which is required for initiation of transcription.  TA bind to a specific DNA sequence in or near an operon via their DNA-binding domain (DBD).  TA contains 3 domains: DBD, trans-activating domain (TAD) which binds coregulator proteins and an optional ligand-binding domain (LBD) which sense external signals.
</StructureSection>


== 3D Structures of transcriptional activator==
== 3D Structures of transcriptional activator==


Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
{{#tree:id=OrganizedByTopic|openlevels=0|


===Gcn4 TA===
*Gcn4 transcriptional activator see [[Gcn4]]


See [[Gcn4]]
*Gcn5 transcriptional activator


===Gcn5 TA===
**[[1e6i]] – yTA brododomain + histone H4 peptide - yeast<br />
**[[1ygh]] – yTA histone acetyltransferase domain <br />


[[1e6i]] – yTA brododomain + histone H4 peptide - yeast<br />
*C-Myb  transcriptional activator
[[1ygh]] – yTA histone acetyltransferase domain <br />


===C-Myb TA===
**[[1mse]], [[1msf]] – TA DBD + DNA - NMR<br />
**[[1mbe]], [[1mbf]] – mTA DBD repeat 1 + DNA – mouse - NMR<br />
**[[1mbg]], [[1mbh]] – mTA DBD repeat 2 + DNA - NMR<br />
**[[1mbj]], [[1mbk]] – mTA DBD repeat 3 + DNA - NMR<br />
**[[1h88]] – mTA DBD + DNA + CCAAT/enhancer binding protein β<br />
**[[1h89]] – mTA DBD + DNA + CAAT/enhancer binding protein β<br />
**[[1guu]] – mTA DBD repeat 1 <br />
**[[1gv2]] – mTA DBD repeat 2,3 <br />
**[[1gv5]] – mTA DBD repeat 2  <br />
**[[1gvd]] – mTA DBD repeat 2 (mutant) <br />
**[[1idy]], [[1idz]] – mTA DBD repeat 3 (mutant) - NMR<br />
**[[1sb0]], [[2agh]] – mTA TAD + CREB-binding protein - NMR<br />


[[1mse]], [[1msf]] – TA DBD + DNA - NMR<br />
*Psp operon transcriptional activator
[[1mbe]], [[1mbf]] – mTA DBD repeat 1 + DNA – mouse - NMR<br />
[[1mbg]], [[1mbh]] – mTA DBD repeat 2 + DNA - NMR<br />
[[1mbj]], [[1mbk]] – mTA DBD repeat 3 + DNA - NMR<br />
[[1h88]] – mTA DBD + DNA + CCAAT/enhancer binding protein β<br />
[[1h89]] – mTA DBD + DNA + CAAT/enhancer binding protein β<br />
[[1guu]] – mTA DBD repeat 1  <br />
[[1gv2]] – mTA DBD repeat 2,3 <br />
[[1gv5]] – mTA DBD repeat 2  <br />
[[1gvd]] – mTA DBD repeat 2 (mutant) <br />
[[1idy]], [[1idz]] – mTA DBD repeat 3 (mutant) - NMR<br />
[[1sb0]], [[2agh]] – mTA TAD + CREB-binding protein - NMR<br />


===Psp operon  TA===
**[[2bjw]] – EcTA AAA domain – ''Escherichia coli''<br />
**[[2bjv]], [[2c9c]] – EcTA AAA domain (mutant)<br />
**[[2c96]] – EcTA AAA domain + ATP<br />
**[[2c98]] – EcTA AAA domain + ADP<br />
**[[2c99]] – EcTA AAA domain + AMPPNP<br />
**[[2vii]] – EcTA AAA domain + AMP + Mg<br />


[[2bjw]] – EcTA AAA domain – ''Escherichia coli''<br />
*TenA transcriptional activator
[[2bjv]], [[2c9c]] – EcTA AAA domain (mutant)<br />
[[2c96]] – EcTA AAA domain + ATP<br />
[[2c98]] – EcTA AAA domain + ADP<br />
[[2c99]] – EcTA AAA domain + AMPPNP<br />
[[2vii]] – EcTA AAA domain + AMP + Mg<br />


===TenA  TA===
**[[1tyh]], [[1yaf]] – BsTA – ''Bacillus subtilis''<br />
**[[2qzc]] – TA – ''Sulfolobus solfataricus''<br />
**[[3no6]] – TA – ''Staphylococcus epidermidis''<br />
**[[1yak]] – BsTA + pyrimidine derivative<br />
**[[2qcx]] – BsTA (mutant) + pyrimidine derivative<br />


[[1tyh]], [[1yaf]] – BsTA – ''Bacillus subtilis''<br />
*LasR transcriptional activator
[[2qzc]] – TA – ''Sulfolobus solfataricus''<br />
[[3no6]] – TA – ''Staphylococcus epidermidis''<br />
[[1yak]] – BsTA + pyrimidine derivative<br />
[[2qcx]] – BsTA (mutant) + pyrimidine derivative<br />


===LasR  TA===
**[[2uv0]] – PaTA LBD – ''Pseudomonas aeruginosa''<br />
**[[3ix3]] – PaTA LBD + oxo-dodecanoyl-homoserine lactone<br />
**[[3ix4]], [[3ix8]], [[3jpu]] – PaTA LBD + benzoate derivative<br />
**[[4ng2]] – PaTA LBD + protein<br />


[[2uv0]] – PaTA LBD – ''Pseudomonas aeruginosa''<br />
*CadC transcriptional activator
[[3ix3]] – PaTA LBD + oxo-dodecanoyl-homoserine lactone<br />
[[3ix4]], [[3ix8]], [[3jpu]] – PaTA LBD + benzoate derivative<br />
[[4ng2]] – PaTA LBD + protein<br />


===CadC  TA===
**[[3ly7]], [[3lya]] – EcTA periplasmic domain <br />
**[[3ly8]], [[3ly9]] – EcTA periplasmic domain (mutant)<br />


[[3ly7]], [[3lya]] – EcTA periplasmic domain <br />
*CynR transcriptional activator
[[3ly8]], [[3ly9]] – EcTA periplasmic domain (mutant)<br />


===CynR  TA===
**[[2hxr]] – EcTA LBD <br />
**[[3hfu]] – EcTA LBD + N3<br />


[[2hxr]] – EcTA LBD <br />
*Mal-Rpel transcriptional activator
[[3hfu]] – EcTA LBD + N3<br />


===Mal-Rpel TA===
**[[2v51]], [[2v52]] – mTA residues 16-41 + actin <br />
**[[2yje]], [[2yjf]] – mTA Rpel domain + actin <br />


[[2v51]], [[2v52]] – mTA residues 16-41 + actin <br />
*Brg1 transcriptional activator
[[2yje]], [[2yjf]] – mTA Rpel domain + actin <br />


===Brg1  TA===
**[[3uvd]] – TA bromodomain + pyrrolidone derivative - human<br />


[[3uvd]] – TA bromodomain + pyrrolidone derivative - human<br />
*VP30 transcriptional activator


===VP30  TA===
**[[2i8b]] – TA C terminal – Zaire ebolavirus<br />
**[[3v7o]] – TA C terminal – Reston ebolavirus<br />


[[2i8b]] – TA C terminal – Zaire ebolavirus<br />
*TraR transcriptional activator
[[3v7o]] – TA C terminal – Reston ebolavirus<br />


===TraR TA===
**[[1l3l]] – AtTA + pheromone + DNA – ''Agrobacterium tumefaciens'' <br />
**[[1h0m]] – AtTA + auto-inducer + DNA <br />


[[1l3l]] – AtTA + pheromone + DNA – ''Agrobacterium tumefaciens'' <br />
*Flagelar transcriptional activator
[[1h0m]] – AtTA + auto-inducer + DNA  <br />


===Flagelar TA===
**[[1g8e]] – EcTA FLHD<br />
**[[2avu]] – EcTA  FLHC+FLHD<br />


[[1g8e]] – EcTA  FLHD<br />
*TipA transcriptional activator
[[2avu]] – EcTA  FLHC+FLHD<br />


===TipA TA===
**[[1ny9]] – SlTA antibiotic binding domain – ''Streptomyces lividans'' - NMR<br />
**[[2vz4]] – SlTA DBD + DNA<br />


[[1ny9]] – SlTA  antibiotic binding domain – ''Streptomyces lividans'' - NMR<br />
*MtaN transcriptional activator
[[2vz4]] – SlTA DBD + DNA<br />


===MtaN TA===
**[[1r8d]] – BsTA <br />


[[1r8d]] – BsTA  <br />
*RfaH transcriptional activator


===RfaH TA===
**[[2oug]] – EcTA <br />
**[[2lcl]] – EcTA C terminal - NMR<br />


[[2oug]] – EcTA  <br />
*SoxR transcriptional activator
[[2lcl]] – EcTA C terminal - NMR<br />


===SoxR TA===
**[[2zhh]] – EcTA <br />
**[[2zhg]] – EcTA  + DNA<br />


[[2zhh]] – EcTA  <br />
*AmpR transcriptional activator
[[2zhg]] – EcTA  + DNA<br />


===AmpR TA===
**[[3kos]] – CfTA effector binding domain – ''Citrobacter freundii''<br />
**[[3kot]] – CfTA  effector binding domain (mutant)<br />


[[3kos]] – CfTA  effector binding domain – ''Citrobacter freundii''<br />
*GlxR transcriptional activator
[[3kot]] – CfTA  effector binding domain (mutant)<br />


===GlxR  TA===
**[[3r6s]] – TA +cAMP – ''Corynebacterium glutamicum'' <br />


[[3r6s]] – TA +cAMP – ''Corynebacterium glutamicum'' <br />
*OxyR transcriptional activator


===OxyR  TA===
**[[3t22]] – TA regulatory domain – ''Porphyromonas gingivalis'' <br />


[[3t22]] – TA regulatory domain – ''Porphyromonas gingivalis'' <br />
*PlcR transcriptional activator


===PlcR TA===
**[[4fsc]] – BtTA - ''Bacillus thuringiensis'' <br />
**[[3u3w]] – BtTA + DNA + PAPR peptide <br />


[[4fsc]] – BtTA - ''Bacillus thuringiensis'' <br />
*VirB transcriptional activator
[[3u3w]] – BtTA + DNA + PAPR peptide  <br />


===VirB TA===
**[[3vwb]], [[3w2a]], [[3w3c]] – TA core domain + DNA – ''Shigella flexneri''<br />


[[3vwb]], [[3w2a]], [[3w3c]] – TA  core domain + DNA – ''Shigella flexneri''<br />
*MafA transcriptional activator


===MafA TA===
**[[4eot]] – hTA DBD<br />


[[4eot]] – hTA  DBD<br />
*CysB transcriptional activator


===CysB TA===
**[[4gwo]], [[4gxa]] – TA C terminal – ''Salmonella typhimurium''<br />


[[4gwo]], [[4gxa]] – TA C terminal – ''Salmonella typhimurium''<br />
*HlyU transcriptional activator


===HlyU TA===
**[[4k2e]] – TA - ''Vibrio cholerae''<br />


[[4k2e]] – TA  - ''Vibrio cholerae''<br />
*Aft2 transcriptional activator
 
===Aft2 TA===
 
[[4lmg]] – yTA + DNA<br />


**[[4lmg]] – yTA + DNA<br />
}}
[[Category:Topic Page]]
[[Category:Topic Page]]

Revision as of 13:30, 15 December 2014


Transcriptional activators (TA) are proteins which bind to DNA and stimulate nearby gene transcription. TA transcription stimulation is achieved by enhancing RNA polymerase binding or by enhancing the formation of open complex which is required for initiation of transcription. TA bind to a specific DNA sequence in or near an operon via their DNA-binding domain (DBD). TA contains 3 domains: DBD, trans-activating domain (TAD) which binds coregulator proteins and an optional ligand-binding domain (LBD) which sense external signals.

Structure of transcriptional activator C-Myb DNA-binding domain (pink) complex with DNA, CAAT/enhancer binding protein β (grey and green) and K+ ion (purple) (PDB entry 1h89)

Drag the structure with the mouse to rotate

3D Structures of transcriptional activator3D Structures of transcriptional activator

Updated on 15-December-2014

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky
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