2olc: Difference between revisions

Revision as of 11:09, 4 May 2008

Crystal structure of 5-methylthioribose kinase in complex with ADP-2Ho

OverviewOverview

Trivalent holmium ions were shown to isomorphously replace magnesium ions to form an ADP-2Ho complex in the nucleotide-binding domain of Bacillus subtilis 5-methylthioribose (MTR) kinase. This nucleotide-holmium complex provided sufficient phasing power to allow SAD and SIRAS phasing of this previously unknown structure using the L(III) absorption edge of holmium. The structure of ADP-2Ho reveals that the two Ho ions are approximately 4 A apart and are likely to share their ligands: the phosphoryl O atoms of ADP and a water molecule. The structure determination of MTR kinase using data collected using Cu Kalpha X-radiation was also attempted. Although the heavy-atom substructure determination was successful, interpretation of the map was more challenging. The isomorphous substitution of holmium for magnesium in the MTR kinase-nucleotide complex suggests that this could be a useful phasing tool for other metal-dependent nucleotide-containing proteins.

About this StructureAbout this Structure

2OLC is a Single protein structure of sequence from Bacillus subtilis. Full crystallographic information is available from OCA.

ReferenceReference

ADP-2Ho as a phasing tool for nucleotide-containing proteins., Ku SY, Smith GD, Howell PL, Acta Crystallogr D Biol Crystallogr. 2007 Apr;63(Pt 4):493-9. Epub 2007, Mar 16. PMID:17372354 Page seeded by OCA on Sun May 4 11:09:06 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:2olc.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 2olc |SIZE=350|CAPTION= <scene name='initialview01'>2olc</scene>, resolution 2.000&Aring;
+The line below this paragraph, containing "STRUCTURE_2olc", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=ADP:ADENOSINE-5&#39;-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CPS:3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE'>CPS</scene>, <scene name='pdbligand=HO:HOLMIUM+ATOM'>HO</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/S-methyl-5-thioribose_kinase S-methyl-5-thioribose kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.100 2.7.1.100] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= mtnK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
+-->
-|DOMAIN=
+{{STRUCTURE_2olc|  PDB=2olc  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2olc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2olc OCA], [http://www.ebi.ac.uk/pdbsum/2olc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2olc RCSB]</span>
-}}
 '''Crystal structure of 5-methylthioribose kinase in complex with ADP-2Ho'''
@@ Line 29: / Line 26: @@
 [[Category: Ku, S Y.]]
 [[Category: Smith, G D.]]
-[[Category: kinase adp-2ho complex]]
+[[Category: Kinase adp-2ho complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 11:09:06 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:19:34 2008''