1ndl: Difference between revisions

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OCA

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-[[Image:1ndl.jpg|left|200px]]<br /><applet load="1ndl" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1ndl, resolution 2.4&Aring;" />
-'''THE AWD NUCLEOTIDE DIPHOSPHATE KINASE FROM DROSOPHILA'''<br />
-==Overview==
+==THE AWD NUCLEOTIDE DIPHOSPHATE KINASE FROM DROSOPHILA==
-BACKGROUND: Nucleotide diphosphate kinase (NDP kinase) is a phosphate, transfer enzyme involved in cell regulation and in animal development., Drosophila NDP kinase is the product of the abnormal wing disc (awd), developmental gene, a point mutation in which can produce the killer of, prune (K-pn) conditional lethal phenotype. The highly homologous mammalian, genes control metastasis and a human NDP kinase acts as a transcription, factor. RESULTS: The X-ray structure of the Awd protein prepared from, Drosophila was solved at 2.4 A resolution by molecular replacement from, the homologous Dictyostelium protein. Both are hexamers, and both have the, same fold and the same active site. Subunit contacts differ as a result of, sequence changes in the carboxy-terminal segment and in the loop that is, the site of the K-pn mutation. CONCLUSIONS: Regulatory properties of, animal NDP kinases depend on interactions with other macromolecules, such, as DNA and the product of the Drosophila prune gene. The Awd structure, suggests an allosteric mechanism of action of NDP kinase where DNA is the, effector and the protein undergoes a major conformational change, possibly, dissociating to dimers.
+<StructureSection load='1ndl' size='340' side='right'caption='[[1ndl]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1ndl]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NDL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NDL 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]] 2.4&#8491;</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=1ndl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ndl OCA], [https://pdbe.org/1ndl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ndl RCSB], [https://www.ebi.ac.uk/pdbsum/1ndl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ndl ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NDKA_DROME NDKA_DROME] Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate.<ref>PMID:2849580</ref> <ref>PMID:2175255</ref> <ref>PMID:7559441</ref>
+== 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/nd/1ndl_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=1ndl ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-NDL is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Active as [http://en.wikipedia.org/wiki/Nucleoside-diphosphate_kinase Nucleoside-diphosphate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.6 2.7.4.6] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NDL OCA].
+*[[Nucleoside diphosphate kinase 3D structures|Nucleoside diphosphate kinase 3D structures]]
+== References ==
-==Reference==
+<references/>
-Crystal structure of the Awd nucleotide diphosphate kinase from Drosophila., Chiadmi M, Morera S, Lascu I, Dumas C, Le Bras G, Veron M, Janin J, Structure. 1993 Dec 15;1(4):283-93. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8081741 8081741]
+__TOC__
+</StructureSection>
 [[Category: Drosophila melanogaster]]
-[[Category: Nucleoside-diphosphate kinase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Chiadmi M]]
-[[Category: Chiadmi, M.]]
+[[Category: Dumas C]]
-[[Category: Dumas, C.]]
+[[Category: Janin J]]
-[[Category: Janin, J.]]
+[[Category: Lascu I]]
-[[Category: Lascu, I.]]
+[[Category: Lebras G]]
-[[Category: Lebras, G.]]
+[[Category: Morera S]]
-[[Category: Morera, S.]]
+[[Category: Veron M]]
-[[Category: Veron, M.]]
-[[Category: phosphotransferase]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:10:02 2007''