2ek5: Difference between revisions

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|PDB= 2ek5 |SIZE=350|CAPTION= <scene name='initialview01'>2ek5</scene>, resolution 2.2&Aring;
|PDB= 2ek5 |SIZE=350|CAPTION= <scene name='initialview01'>2ek5</scene>, resolution 2.2&Aring;
|SITE=  
|SITE=  
|LIGAND=  
|LIGAND= <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>
|ACTIVITY=  
|ACTIVITY=  
|GENE= cgl2947 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1718 Corynebacterium glutamicum])
|GENE= cgl2947 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1718 Corynebacterium glutamicum])
|DOMAIN=
|RELATEDENTRY=[[2du9|2DU9]]
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ek5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ek5 OCA], [http://www.ebi.ac.uk/pdbsum/2ek5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2ek5 RCSB]</span>
}}
}}


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[[Category: transcription]]
[[Category: transcription]]


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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:50:19 2008''

Revision as of 02:50, 31 March 2008

File:2ek5.jpg


PDB ID 2ek5

Drag the structure with the mouse to rotate
, resolution 2.2Å
Ligands:
Gene: cgl2947 (Corynebacterium glutamicum)
Related: 2DU9


Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



Crystal strucutre of the transcriptional factor from C.glutamicum at 2.2 angstrom resolution


OverviewOverview

Among the transcription factors, the helix-turn-helix (HTH) GntR family comprised of FadR, HutC, MocR, YtrA, AraR, and PlmA subfamilies regulates the most varied biological processes. Generally, proteins belonging to this family contain an N-terminal DNA-binding domain and a C-terminal effector-binding/oligomerization domain. The members of the YtrA subfamily are much shorter than other members of this family, with chain lengths of 120-130 residues with about 50 residues located in the C-terminal domain. Because of this length, the mode of dimerization and the ability to bind effectors by the C-terminal domain are puzzling. Here, we first report the structure of the transcription factor CGL2947 from Corynebacterium glutamicum, which belongs to the YtrA family. The monomer is composed of a DNA-binding domain containing a winged HTH motif in the N terminus and two helices (alpha4 and alpha5) with a fishhook-shaped arrangement in the C terminus. Helices alpha4 and alpha5 of two monomers intertwine together to form a novel homodimer assembly. The effector-accommodating pocket with 2-methyl-2,4-pentanediol (MPD) docked was located, and it was suggested to represent a novel mode of effector binding. The structures in two crystal forms (MPD-free and -bound in the proposed effector-binding pocket) were solved. The structural variations have implications regarding how the effector-induced conformational change modulates DNA affinity for YtrA family members.

About this StructureAbout this Structure

2EK5 is a Single protein structure of sequence from Corynebacterium glutamicum. Full crystallographic information is available from OCA.

ReferenceReference

The structures of transcription factor CGL2947 from Corynebacterium glutamicum in two crystal forms: a novel homodimer assembling and the implication for effector-binding mode., Gao YG, Yao M, Itou H, Zhou Y, Tanaka I, Protein Sci. 2007 Sep;16(9):1878-86. PMID:17766384

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