1wkl

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Current revision (07:56, 25 October 2023) (edit) (undo)
 
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<StructureSection load='1wkl' size='340' side='right'caption='[[1wkl]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='1wkl' size='340' side='right'caption='[[1wkl]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[1wkl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WKL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1WKL FirstGlance]. <br>
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<table><tr><td colspan='2'>[[1wkl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WKL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WKL FirstGlance]. <br>
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</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=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PHS:PHOSPHONIC+ACID'>PHS</scene></td></tr>
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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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1wkj|1wkj]], [[1wkk|1wkk]]</div></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=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PHS:PHOSPHONIC+ACID'>PHS</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ndk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>
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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=1wkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wkl OCA], [https://pdbe.org/1wkl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wkl RCSB], [https://www.ebi.ac.uk/pdbsum/1wkl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wkl ProSAT], [https://www.topsan.org/Proteins/RSGI/1wkl TOPSAN]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[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] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1wkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wkl OCA], [http://pdbe.org/1wkl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1wkl RCSB], [http://www.ebi.ac.uk/pdbsum/1wkl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1wkl ProSAT], [http://www.topsan.org/Proteins/RSGI/1wkl TOPSAN]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/NDK_THET8 NDK_THET8]] 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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[https://www.uniprot.org/uniprot/NDK_THET8 NDK_THET8] 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.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Nucleoside-diphosphate kinase]]
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[[Category: Thermus thermophilus]]
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[[Category: Kuramitsu, S]]
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[[Category: Kuramitsu S]]
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[[Category: Masui, R]]
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[[Category: Masui R]]
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[[Category: Nakagawa, N]]
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[[Category: Nakagawa N]]
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[[Category: Structural genomic]]
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[[Category: Takeishi S]]
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[[Category: Takeishi, S]]
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[[Category: Complex with atp and adp]]
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[[Category: Kinase]]
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[[Category: Nucleotide diphosphate kinase]]
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[[Category: Reaction intermediate]]
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[[Category: Rsgi]]
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[[Category: Thermus thermophilus hb8]]
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[[Category: Transferase]]
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Current revision

Crystal Structure of Nucleoside Diphosphate Kinase from Thermus thermophilus HB8 in Complex with ATP and ADP

PDB ID 1wkl

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