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1tjl

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|PDB= 1tjl |SIZE=350|CAPTION= <scene name='initialview01'>1tjl</scene>, resolution 2.00&Aring;
|PDB= 1tjl |SIZE=350|CAPTION= <scene name='initialview01'>1tjl</scene>, resolution 2.00&Aring;
|SITE=
|SITE=
-
|LIGAND= <scene name='pdbligand=ZN:ZINC ION'>ZN</scene>
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|LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
|ACTIVITY=
|ACTIVITY=
|GENE= DksA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
|GENE= DksA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
 +
|DOMAIN=
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1tjl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tjl OCA], [http://www.ebi.ac.uk/pdbsum/1tjl PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1tjl RCSB]</span>
}}
}}
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[[Category: Vassylyeva, M N.]]
[[Category: Vassylyeva, M N.]]
[[Category: Yokoyama, S.]]
[[Category: Yokoyama, S.]]
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[[Category: ZN]]
 
[[Category: dksa]]
[[Category: dksa]]
[[Category: ppgpp]]
[[Category: ppgpp]]
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[[Category: transcription factor]]
[[Category: transcription factor]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:19:11 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:56:56 2008''

Revision as of 20:56, 30 March 2008

Image:1tjl.gif


PDB ID 1tjl

Drag the structure with the mouse to rotate
, resolution 2.00Å
Ligands:
Gene: DksA (Escherichia coli)
Resources: FirstGlance, OCA, PDBsum, RCSB
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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