2r6f: Difference between revisions

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Revision as of 19:32, 20 March 2008

File:2r6f.jpg

, resolution 3.200Å

Sites:

, , , , , , , , and

Ligands:

and

Gene:

uvrA (Geobacillus stearothermophilus)

Coordinates:

save as pdb, mmCIF, xml

Crystal Structure of Bacillus stearothermophilus UvrA

OverviewOverview

The nucleotide excision repair pathway corrects many structurally unrelated DNA lesions. Damage recognition in bacteria is performed by UvrA, a member of the ABC ATPase superfamily whose functional form is a dimer with four nucleotide-binding domains (NBDs), two per protomer. In the 3.2 A structure of UvrA from Bacillus stearothermophilus, we observe that the nucleotide-binding sites are formed in an intramolecular fashion and are not at the dimer interface as is typically found in other ABC ATPases. UvrA also harbors two unique domains; we show that one of these is required for interaction with UvrB, its partner in lesion recognition. In addition, UvrA contains three zinc modules, the number and ligand sphere of which differ from previously published models. Structural analysis, biochemical experiments, surface electrostatics, and sequence conservation form the basis for models of ATP-modulated dimerization, UvrA-UvrB interaction, and DNA binding during the search for lesions.

About this StructureAbout this Structure

2R6F is a Single protein structure of sequence from Geobacillus stearothermophilus. Full crystallographic information is available from OCA.

ReferenceReference

Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding., Pakotiprapha D, Inuzuka Y, Bowman BR, Moolenaar GF, Goosen N, Jeruzalmi D, Verdine GL, Mol Cell. 2008 Jan 18;29(1):122-33. Epub 2007 Dec 27. PMID:18158267

Page seeded by OCA on Thu Mar 20 18:32:59 2008

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OCA

@@ Line 1: / Line 1: @@
-[[Image:2r6f.jpg|left|200px]]<br /><applet load="2r6f" size="350" color="white" frame="true" align="right" spinBox="true"
+[[Image:2r6f.jpg|left|200px]]
-caption="2r6f, resolution 3.200&Aring;" />
-'''Crystal Structure of Bacillus stearothermophilus UvrA'''<br />
+ {{Structure
+|PDB= 2r6f |SIZE=350|CAPTION= <scene name='initialview01'>2r6f</scene>, resolution 3.200&Aring;
+|SITE= <scene name='pdbsite=AC1:Zn+Binding+Site+For+Residue+A+1004'>AC1</scene>, <scene name='pdbsite=AC2:Zn+Binding+Site+For+Residue+A+1005'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Residue+A+1006'>AC3</scene>, <scene name='pdbsite=AC4:Zn+Binding+Site+For+Residue+B+1007'>AC4</scene>, <scene name='pdbsite=AC5:Zn+Binding+Site+For+Residue+B+1008'>AC5</scene>, <scene name='pdbsite=AC6:Zn+Binding+Site+For+Residue+B+1009'>AC6</scene>, <scene name='pdbsite=AC7:Adp+Binding+Site+For+Residue+A+1000'>AC7</scene>, <scene name='pdbsite=AC8:Adp+Binding+Site+For+Residue+A+1001'>AC8</scene>, <scene name='pdbsite=AC9:Adp+Binding+Site+For+Residue+B+1002'>AC9</scene> and <scene name='pdbsite=BC1:Adp+Binding+Site+For+Residue+B+1003'>BC1</scene>
+|LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> and <scene name='pdbligand=ADP:ADENOSINE-5'-DIPHOSPHATE'>ADP</scene>
+|ACTIVITY=
+|GENE= uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1422 Geobacillus stearothermophilus])
+}}
+'''Crystal Structure of Bacillus stearothermophilus UvrA'''
 ==Overview==
@@ Line 7: / Line 16: @@
 ==About this Structure==
-R6F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] with <scene name='pdbligand=ZN:'>ZN</scene> and <scene name='pdbligand=ADP:'>ADP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:Zn+Binding+Site+For+Residue+A+1004'>AC1</scene>, <scene name='pdbsite=AC2:Zn+Binding+Site+For+Residue+A+1005'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Residue+A+1006'>AC3</scene>, <scene name='pdbsite=AC4:Zn+Binding+Site+For+Residue+B+1007'>AC4</scene>, <scene name='pdbsite=AC5:Zn+Binding+Site+For+Residue+B+1008'>AC5</scene>, <scene name='pdbsite=AC6:Zn+Binding+Site+For+Residue+B+1009'>AC6</scene>, <scene name='pdbsite=AC7:Adp+Binding+Site+For+Residue+A+1000'>AC7</scene>, <scene name='pdbsite=AC8:Adp+Binding+Site+For+Residue+A+1001'>AC8</scene>, <scene name='pdbsite=AC9:Adp+Binding+Site+For+Residue+B+1002'>AC9</scene> and <scene name='pdbsite=BC1:Adp+Binding+Site+For+Residue+B+1003'>BC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R6F OCA].
+R6F is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R6F OCA].
 ==Reference==
-Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding., Pakotiprapha D, Inuzuka Y, Bowman BR, Moolenaar GF, Goosen N, Jeruzalmi D, Verdine GL, Mol Cell. 2008 Jan 18;29(1):122-33. Epub 2007 Dec 27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18158267 18158267]
+Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding., Pakotiprapha D, Inuzuka Y, Bowman BR, Moolenaar GF, Goosen N, Jeruzalmi D, Verdine GL, Mol Cell. 2008 Jan 18;29(1):122-33. Epub 2007 Dec 27. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18158267 18158267]
 [[Category: Geobacillus stearothermophilus]]
 [[Category: Single protein]]
@@ Line 36: / Line 45: @@
 [[Category: zinc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 18:45:01 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:32:59 2008''