1uvh: Difference between revisions

Revision as of 11:44, 3 May 2008

X-RAY STRUCTURE OF DPS FROM MYCOBACTERIUM SMEGMATIS

OverviewOverview

The structure and function of Mycobacterium smegmatis Dps (DNA-binding proteins from starved cells) and of the protein studied by Gupta and Chatterji, in which the C terminus that is used for binding DNA contains a histidine tag, have been characterized in parallel. The native dodecamer dissociated reversibly into dimers above pH 7.5 and below pH 6.0, with apparent pK(a) values of approximately 7.65 and 4.75; at pH approximately 4.0, dimers formed monomers. Based on structural analysis, the two dissociation steps have been attributed to breakage of the salt bridges between Glu(157) and Arg(99) located at the 3-fold symmetry axes and to protonation of Asp(66) hydrogen-bonded to Lys(36) across the dimer interface, respectively. The C-terminal tag did not affect subunit dissociation, but altered DNA binding dramatically. At neutral pH, protonation of the histidine tag promoted DNA condensation, whereas in the native C terminus, compensation of negative and positive charges led to DNA binding without condensation. This different mode of interaction with DNA has important functional consequences as indicated by the failure of the native protein to protect DNA from DNase-mediated cleavage and by the efficiency of the tagged protein in doing so as a result of DNA sequestration in the condensates. Chemical protection of DNA from oxidative damage is realized by Dps proteins in a multistep iron oxidation/uptake/mineralization process. Dimers have a decreased protection efficiency due to disruption of the dodecamer internal cavity, where iron is deposited and mineralized after oxidation at the ferroxidase center.

About this StructureAbout this Structure

1UVH is a Single protein structure of sequence from Mycobacterium smegmatis. Full crystallographic information is available from OCA.

ReferenceReference

Reassessment of protein stability, DNA binding, and protection of Mycobacterium smegmatis Dps., Ceci P, Ilari A, Falvo E, Giangiacomo L, Chiancone E, J Biol Chem. 2005 Oct 14;280(41):34776-85. Epub 2005 Jul 19. PMID:16030020 Page seeded by OCA on Sat May 3 11:44:35 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:1uvh.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 1uvh |SIZE=350|CAPTION= <scene name='initialview01'>1uvh</scene>, resolution 2.8&Aring;
+The line below this paragraph, containing "STRUCTURE_1uvh", creates the "Structure Box" on the page.
-|SITE= <scene name='pdbsite=AC1:Fe+Binding+Site+For+Chain+B'>AC1</scene>
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY=
+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_1uvh|  PDB=1uvh  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1uvh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uvh OCA], [http://www.ebi.ac.uk/pdbsum/1uvh PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1uvh RCSB]</span>
-}}
 '''X-RAY STRUCTURE OF DPS FROM MYCOBACTERIUM SMEGMATIS'''
@@ Line 29: / Line 26: @@
 [[Category: Falvo, E.]]
 [[Category: Ilari, A.]]
-[[Category: dna binding protein]]
+[[Category: Dna binding protein]]
-[[Category: dna protection from oxidative damage]]
+[[Category: Dna protection from oxidative damage]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 11:44:35 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:15:47 2008''