1tjl

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[[Image:1tjl.gif|left|200px]]<br /><applet load="1tjl" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1tjl.gif|left|200px]]
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caption="1tjl, resolution 2.00&Aring;" />
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'''Crystal structure of transcription factor DksA from E. coli'''<br />
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{{Structure
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|PDB= 1tjl |SIZE=350|CAPTION= <scene name='initialview01'>1tjl</scene>, resolution 2.00&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=ZN:ZINC ION'>ZN</scene>
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|ACTIVITY=
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|GENE= DksA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
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}}
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'''Crystal structure of transcription factor DksA from E. coli'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1TJL is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=ZN:'>ZN</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TJL OCA].
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1TJL is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TJL OCA].
==Reference==
==Reference==
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Regulation through the secondary channel--structural framework for ppGpp-DksA synergism during transcription., Perederina A, Svetlov V, Vassylyeva MN, Tahirov TH, Yokoyama S, Artsimovitch I, Vassylyev DG, Cell. 2004 Aug 6;118(3):297-309. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15294156 15294156]
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Regulation through the secondary channel--structural framework for ppGpp-DksA synergism during transcription., Perederina A, Svetlov V, Vassylyeva MN, Tahirov TH, Yokoyama S, Artsimovitch I, Vassylyev DG, Cell. 2004 Aug 6;118(3):297-309. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15294156 15294156]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: rsgi]]
[[Category: rsgi]]
[[Category: stringent response]]
[[Category: stringent response]]
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[[Category: structural genomics]]
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[[Category: structural genomic]]
[[Category: transcription factor]]
[[Category: transcription factor]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:14:11 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:19:11 2008''

Revision as of 12:19, 20 March 2008

Image:1tjl.gif


PDB ID 1tjl

Drag the structure with the mouse to rotate
, resolution 2.00Å
Ligands:
Gene: DksA (Escherichia coli)
Coordinates: save as pdb, mmCIF, xml



Crystal structure of transcription factor DksA from E. coli


Overview

Bacterial transcription is regulated by the alarmone ppGpp, which binds near the catalytic site of RNA polymerase (RNAP) and modulates its activity. We show that the DksA protein is a crucial component of ppGpp-dependent regulation. The 2.0 A resolution structure of Escherichia coli DksA reveals a globular domain and a coiled coil with two highly conserved Asp residues at its tip that is reminiscent of the transcript cleavage factor GreA. This structural similarity suggests that DksA coiled coil protrudes into the RNAP secondary channel to coordinate a ppGpp bound Mg2+ ion with the Asp residues, thereby stabilizing the ppGpp-RNAP complex. Biochemical analysis demonstrates that DksA affects transcript elongation, albeit differently from GreA; augments ppGpp effects on initiation; and binds directly to RNAP, positioning the Asp residues near the active site. Substitution of these residues eliminates the synergy between DksA and ppGpp. Thus, the secondary channel emerges as a common regulatory entrance for transcription factors.

About this Structure

1TJL is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.

Reference

Regulation through the secondary channel--structural framework for ppGpp-DksA synergism during transcription., Perederina A, Svetlov V, Vassylyeva MN, Tahirov TH, Yokoyama S, Artsimovitch I, Vassylyev DG, Cell. 2004 Aug 6;118(3):297-309. PMID:15294156

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