This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


5ukd

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (18:08, 20 September 2023) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:5ukd.gif|left|200px]]<br /><applet load="5ukd" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="5ukd, resolution 1.9&Aring;" />
 
-
'''PH INFLUENCES FLUORIDE COORDINATION NUMBER OF THE ALFX PHOSPHORYL TRANSFER TRANSITION STATE ANALOG'''<br />
 
-
==About this Structure==
+
==PH INFLUENCES FLUORIDE COORDINATION NUMBER OF THE ALFX PHOSPHORYL TRANSFER TRANSITION STATE ANALOG==
-
5UKD is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum] with <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=ADP:'>ADP</scene>, <scene name='pdbligand=C5P:'>C5P</scene> and <scene name='pdbligand=AF3:'>AF3</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [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] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UKD OCA].
+
<StructureSection load='5ukd' size='340' side='right'caption='[[5ukd]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[5ukd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UKD FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=AF3:ALUMINUM+FLUORIDE'>AF3</scene>, <scene name='pdbligand=C5P:CYTIDINE-5-MONOPHOSPHATE'>C5P</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5ukd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ukd OCA], [https://pdbe.org/5ukd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ukd RCSB], [https://www.ebi.ac.uk/pdbsum/5ukd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ukd ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/KCY_DICDI KCY_DICDI] This UMP-CMP kinase uses preferentially ATP as phosphate donor and is specific for UMP and CMP.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uk/5ukd_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=5ukd ConSurf].
 +
<div style="clear:both"></div>
-
==Reference==
+
==See Also==
-
pH influences fluoride coordination number of the AlFx phosphoryl transfer transition state analog., Schlichting I, Reinstein J, Nat Struct Biol. 1999 Aug;6(8):721-3. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10426946 10426946]
+
*[[UMP/CMP kinase|UMP/CMP kinase]]
-
[[Category: Cytidylate kinase]]
+
__TOC__
 +
</StructureSection>
[[Category: Dictyostelium discoideum]]
[[Category: Dictyostelium discoideum]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Reinstein, J.]]
+
[[Category: Reinstein J]]
-
[[Category: Schlichting, I.]]
+
[[Category: Schlichting I]]
-
[[Category: ADP]]
+
-
[[Category: AF3]]
+
-
[[Category: C5P]]
+
-
[[Category: MG]]
+
-
[[Category: nmp kinase]]
+
-
[[Category: nucleoside monophosphate kinase]]
+
-
[[Category: phosphoryl transfer]]
+
-
[[Category: transferase]]
+
-
[[Category: transition state analog complex]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:16:02 2008''
+

Current revision

PH INFLUENCES FLUORIDE COORDINATION NUMBER OF THE ALFX PHOSPHORYL TRANSFER TRANSITION STATE ANALOG

PDB ID 5ukd

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5ukd"
Personal tools