Journal:Science:1
From Proteopedia
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<scene name='73/733981/Cv/31'>TAP, RNAP holoenzyme, DNA and RNA</scene>. | <scene name='73/733981/Cv/31'>TAP, RNAP holoenzyme, DNA and RNA</scene>. | ||
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| + | <scene name='73/733981/Cv/32'>DNA/RNA/protein interactions</scene>. | ||
To obtain a structure of TAP-RPo, we used a <scene name='73/733981/Cv/12'>nucleic-acid scaffold corresponding to positions –57 to +15</scene> (-54 to +11 shown) of a class II TAP-dependent promoter (positions numbered relative to transcription start site). Pink, nontemplate strand; red, template strand. The scaffold contained a <scene name='73/733981/Cv/13'>consensus DNA site for TAP centered between positions –41 and –42</scene> (TAP site: cyan, template strand; deeppink, nontemplate strand), a near-consensus <scene name='73/733981/Cv/23'>extended –10 element</scene> (violet), a <scene name='73/733981/Cv/15'>consensus –10 element</scene> (blue), a <scene name='73/733981/Cv/16'>consensus discriminator element</scene> (royalblue), a consensus core recognition element, a <scene name='73/733981/Cv/17'>13-bp transcription bubble</scene> (maintained in the unwound state by having noncomplementary sequences on nontemplate and template strands), and UpCpGpA (in magenta). | To obtain a structure of TAP-RPo, we used a <scene name='73/733981/Cv/12'>nucleic-acid scaffold corresponding to positions –57 to +15</scene> (-54 to +11 shown) of a class II TAP-dependent promoter (positions numbered relative to transcription start site). Pink, nontemplate strand; red, template strand. The scaffold contained a <scene name='73/733981/Cv/13'>consensus DNA site for TAP centered between positions –41 and –42</scene> (TAP site: cyan, template strand; deeppink, nontemplate strand), a near-consensus <scene name='73/733981/Cv/23'>extended –10 element</scene> (violet), a <scene name='73/733981/Cv/15'>consensus –10 element</scene> (blue), a <scene name='73/733981/Cv/16'>consensus discriminator element</scene> (royalblue), a consensus core recognition element, a <scene name='73/733981/Cv/17'>13-bp transcription bubble</scene> (maintained in the unwound state by having noncomplementary sequences on nontemplate and template strands), and UpCpGpA (in magenta). | ||
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<scene name='73/733981/Cv1/12'>Comparison of TAP-DNA in TAP-RPo to CAP-DNA</scene>. TAP in cyan, CAP in skyblue. <scene name='73/733981/Cv1/13'>Click here to see animation of this scene</scene>. | <scene name='73/733981/Cv1/12'>Comparison of TAP-DNA in TAP-RPo to CAP-DNA</scene>. TAP in cyan, CAP in skyblue. <scene name='73/733981/Cv1/13'>Click here to see animation of this scene</scene>. | ||
| - | '''Protein-DNA interactions | + | '''Protein-DNA interactions''' |
*<scene name='73/733981/Cv1/8'>TAP binding</scene>. TAP is in cyan/dodgerblue. Pink, nontemplate strand; red, template strand. | *<scene name='73/733981/Cv1/8'>TAP binding</scene>. TAP is in cyan/dodgerblue. Pink, nontemplate strand; red, template strand. | ||
*<scene name='73/733981/Cv1/7'>TAP binding (90° rotation)</scene>. | *<scene name='73/733981/Cv1/7'>TAP binding (90° rotation)</scene>. | ||
| - | *<scene name='73/733981/Cv1/ | + | *<scene name='73/733981/Cv1/14'>TAP site</scene>. TAP is in cyan, σ is in yellow. Pink, nontemplate strand; red, template strand. |
*<scene name='73/733981/Cv1/2'>Interactions between σR4 and –35 region</scene>. | *<scene name='73/733981/Cv1/2'>Interactions between σR4 and –35 region</scene>. | ||
*<scene name='73/733981/Cv1/3'>Interactions between σR3 and extended –10 element</scene> (in violet). | *<scene name='73/733981/Cv1/3'>Interactions between σR3 and extended –10 element</scene> (in violet). | ||
*<scene name='73/733981/Cv1/4'>Interactions between σR2 consensus –10 element</scene> (in blue). | *<scene name='73/733981/Cv1/4'>Interactions between σR2 consensus –10 element</scene> (in blue). | ||
*<scene name='73/733981/Cv1/5'>Protein-DNA interactions that mediate promoter recognition</scene>. | *<scene name='73/733981/Cv1/5'>Protein-DNA interactions that mediate promoter recognition</scene>. | ||
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*<scene name='73/733981/Cv1/9'>σ conserved region σR1.2 interacts with nontemplate-strand ssDNA of the discriminator element</scene> (in royalblue). | *<scene name='73/733981/Cv1/9'>σ conserved region σR1.2 interacts with nontemplate-strand ssDNA of the discriminator element</scene> (in royalblue). | ||
| + | *<scene name='73/733981/Cv/34'>DNA/RNA/protein interactions after the discriminator element</scene>. | ||
Current revision
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- ↑ Feng Y, Zhang Y, Ebright RH. Structural basis of transcription activation. Science. 2016 Jun 10;352(6291):1330-3. doi: 10.1126/science.aaf4417. PMID:27284196 doi:http://dx.doi.org/10.1126/science.aaf4417
This page complements a publication in scientific journals and is one of the Proteopedia's Interactive 3D Complement pages. For aditional details please see I3DC.
