2hvd: Difference between revisions

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-{{Seed}}
-[[Image:2hvd.png|left|200px]]
-<!--
+==Human nucleoside diphosphate kinase A complexed with ADP==
-The line below this paragraph, containing "STRUCTURE_2hvd", creates the "Structure Box" on the page.
+<StructureSection load='2hvd' size='340' side='right'caption='[[2hvd]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2hvd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HVD FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.15&#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></td></tr>
-{{STRUCTURE_2hvd|  PDB=2hvd  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2hvd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hvd OCA], [https://pdbe.org/2hvd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hvd RCSB], [https://www.ebi.ac.uk/pdbsum/2hvd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hvd ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NDKA_HUMAN NDKA_HUMAN] Major role in the synthesis of nucleoside triphosphates other than ATP. Possesses nucleoside-diphosphate kinase, serine/threonine-specific protein kinase, geranyl and farnesyl pyrophosphate kinase, histidine protein kinase and 3'-5' exonuclease activities. Involved in cell proliferation, differentiation and development, signal transduction, G protein-coupled receptor endocytosis, and gene expression. Required for neural development including neural patterning and cell fate determination.<ref>PMID:2056128</ref> <ref>PMID:8810265</ref> <ref>PMID:12628186</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/hv/2hvd_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2hvd ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Nm23 was the first metastasis suppressor gene identified. This gene encodes a NDP kinase that also exhibits other properties like histidine protein kinase and interactions with proteins and DNA. The S120G mutant of NDPK-A has been identified in aggressive neuroblastomas and has been found to reduce the metastasis suppressor effect of Nm23. In order to understand the differences between the wild type and the S120G mutant, we have determined the structure of both mutant and wild type NDPK-A in complex with ADP. Our results reveal that there are no significant changes between the two enzyme versions even in the surroundings of the catalytic histidine that is required for NDP kinase activity. This suggests that the S120G mutation may affect an other protein property than NDP kinase activity.
-===Human nucleoside diphosphate kinase A complexed with ADP===
+Crystal structures of S120G mutant and wild type of human nucleoside diphosphate kinase A in complex with ADP.,Giraud MF, Georgescauld F, Lascu I, Dautant A J Bioenerg Biomembr. 2006 Aug;38(3-4):261-4. Epub 2006 Sep 1. PMID:16944299<ref>PMID:16944299</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2hvd" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_16944299}}, adds the Publication Abstract to the page
+*[[Nucleoside diphosphate kinase 3D structures|Nucleoside diphosphate kinase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 16944299 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_16944299}}
+__TOC__
+</StructureSection>
-==About this Structure==
-HVD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HVD OCA].
-==Reference==
-Crystal structures of S120G mutant and wild type of human nucleoside diphosphate kinase A in complex with ADP., Giraud MF, Georgescauld F, Lascu I, Dautant A, J Bioenerg Biomembr. 2006 Aug;38(3-4):261-4. Epub 2006 Sep 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16944299 16944299]
-Crystal structure of human nucleoside diphosphate kinase A, a metastasis suppressor., Min K, Song HK, Chang C, Kim SY, Lee KJ, Suh SW, Proteins. 2002 Feb 15;46(3):340-2. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11835509 11835509]
-Nucleotide binding to nucleoside diphosphate kinases: X-ray structure of human NDPK-A in complex with ADP and comparison to protein kinases., Chen Y, Gallois-Montbrun S, Schneider B, Veron M, Morera S, Deville-Bonne D, Janin J, J Mol Biol. 2003 Sep 26;332(4):915-26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12972261 12972261]
 [[Category: Homo sapiens]]
-[[Category: Nucleoside-diphosphate kinase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Dautant A]]
-[[Category: Dautant, A.]]
+[[Category: Georgescauld F]]
-[[Category: Georgescauld, F.]]
+[[Category: Giraud M-F]]
-[[Category: Giraud, M F.]]
+[[Category: Lascu I]]
-[[Category: Lascu, I.]]
-[[Category: Complex adp]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 05:29:24 2008''