4ukd: Difference between revisions

Revision as of 22:30, 4 May 2008

UMP/CMP KINASE FROM SLIME MOLD COMPLEXED WITH ADP, UDP, BERYLLIUM FLUORIDE

OverviewOverview

UMP/CMP kinase from Dictyostelium discoideum (UmpKdicty) catalyzes the specific transfer of the terminal phosphate of ATP to UMP or CMP. Crystal structures of UmpKdicty with substrates and the transition state analogs AlF3 or BeF2 that lock UmpKdicty in active conformations were solved. The positions of the catalytic Mg2+ and the highly conserved lysine of the P loop are virtually invariant in the different structures. In contrast, catalytic arginines move to stabilize charges that develop during this reaction. The location of the arginines indicates formation of negative charges during the reaction at the transferred phosphoryl group, but not at the phosphate bridging oxygen atoms. This is consistent with an associative phosphoryl transfer mechanism but not with a dissociative one.

About this StructureAbout this Structure

4UKD is a Single protein structure of sequence from Dictyostelium discoideum. Full crystallographic information is available from OCA.

ReferenceReference

Structures of active conformations of UMP kinase from Dictyostelium discoideum suggest phosphoryl transfer is associative., Schlichting I, Reinstein J, Biochemistry. 1997 Aug 5;36(31):9290-6. PMID:9280438 Page seeded by OCA on Sun May 4 22:30:50 2008

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OCA

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 [[Image:4ukd.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 4ukd |SIZE=350|CAPTION= <scene name='initialview01'>4ukd</scene>, resolution 2.0&Aring;
+The line below this paragraph, containing "STRUCTURE_4ukd", 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=BF2:BERYLLIUM+DIFLUORIDE'>BF2</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UDP:URIDINE-5&#39;-DIPHOSPHATE'>UDP</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/Cytidylate_kinase Cytidylate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.14 2.7.4.14] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= KCY_DICDI ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=44689 Dictyostelium discoideum])
+-->
-|DOMAIN=
+{{STRUCTURE_4ukd|  PDB=4ukd  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ukd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ukd OCA], [http://www.ebi.ac.uk/pdbsum/4ukd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=4ukd RCSB]</span>
-}}
 '''UMP/CMP KINASE FROM SLIME MOLD COMPLEXED WITH ADP, UDP, BERYLLIUM FLUORIDE'''
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 [[Category: Reinstein, J.]]
 [[Category: Schlichting, I.]]
-[[Category: nmp kinase]]
+[[Category: Nmp kinase]]
-[[Category: nucleoside monophosphate kinase]]
+[[Category: Nucleoside monophosphate kinase]]
-[[Category: phosphoryl transfer]]
+[[Category: Phosphoryl transfer]]
-[[Category: transferase]]
+[[Category: Transferase]]
-[[Category: transition state analog complex]]
+[[Category: Transition state analog complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 22:30:50 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:40:30 2008''