2az3

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[[Image:2az3.gif|left|200px]]
 
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==Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum in complex with CDP==
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The line below this paragraph, containing "STRUCTURE_2az3", creates the "Structure Box" on the page.
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<StructureSection load='2az3' size='340' side='right'caption='[[2az3]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2az3]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Halobacterium_salinarum Halobacterium salinarum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AZ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AZ3 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CDP:CYTIDINE-5-DIPHOSPHATE'>CDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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{{STRUCTURE_2az3| PDB=2az3 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2az3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2az3 OCA], [https://pdbe.org/2az3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2az3 RCSB], [https://www.ebi.ac.uk/pdbsum/2az3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2az3 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NDK_HALSA NDK_HALSA] 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.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/az/2az3_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2az3 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Nucleoside diphosphate kinase from the halophilic archaeon Halobacterium salinarum was crystallized in a free state and a substrate-bound form with CDP. The structures were solved to a resolution of 2.35 and 2.2A, respectively. Crystals with the apo-form were obtained with His6-tagged enzyme, whereas the untagged form was used for co-crystallization with the nucleotide. Crosslinking under different salt and pH conditions revealed a stronger oligomerization tendency for the tagged protein at low and high salt concentrations. The influence of the His6-tag on the halophilic nature of the enzyme is discussed on the basis of the observed structural properties.
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'''Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum in complex with CDP'''
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Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum.,Besir H, Zeth K, Bracher A, Heider U, Ishibashi M, Tokunaga M, Oesterhelt D FEBS Lett. 2005 Dec 5;579(29):6595-600. Epub 2005 Nov 9. PMID:16293253<ref>PMID:16293253</ref>
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==Overview==
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Nucleoside diphosphate kinase from the halophilic archaeon Halobacterium salinarum was crystallized in a free state and a substrate-bound form with CDP. The structures were solved to a resolution of 2.35 and 2.2A, respectively. Crystals with the apo-form were obtained with His6-tagged enzyme, whereas the untagged form was used for co-crystallization with the nucleotide. Crosslinking under different salt and pH conditions revealed a stronger oligomerization tendency for the tagged protein at low and high salt concentrations. The influence of the His6-tag on the halophilic nature of the enzyme is discussed on the basis of the observed structural properties.
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==About this Structure==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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2AZ3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Halobacterium_salinarum Halobacterium salinarum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AZ3 OCA].
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</div>
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<div class="pdbe-citations 2az3" style="background-color:#fffaf0;"></div>
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==Reference==
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==See Also==
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Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum., Besir H, Zeth K, Bracher A, Heider U, Ishibashi M, Tokunaga M, Oesterhelt D, FEBS Lett. 2005 Dec 5;579(29):6595-600. Epub 2005 Nov 9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16293253 16293253]
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*[[Nucleoside diphosphate kinase 3D structures|Nucleoside diphosphate kinase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Halobacterium salinarum]]
[[Category: Halobacterium salinarum]]
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[[Category: Nucleoside-diphosphate kinase]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Besir H]]
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[[Category: Besir, H.]]
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[[Category: Bracher A]]
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[[Category: Bracher, A.]]
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[[Category: Heider U]]
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[[Category: Heider, U.]]
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[[Category: Ishibashi M]]
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[[Category: Ishibashi, M.]]
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[[Category: Oesterhelt D]]
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[[Category: Oesterhelt, D.]]
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[[Category: Tokunaga M]]
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[[Category: Tokunaga, M.]]
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[[Category: Zeth K]]
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[[Category: Zeth, K.]]
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[[Category: Halophilic]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 19:39:08 2008''
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Current revision

Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum in complex with CDP

PDB ID 2az3

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