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2dcn

From Proteopedia

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(New page: 200px<br /><applet load="2dcn" size="350" color="white" frame="true" align="right" spinBox="true" caption="2dcn, resolution 2.25&Aring;" /> '''Crystal structure of...)
Current revision (13:47, 13 March 2024) (edit) (undo)
 
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[[Image:2dcn.gif|left|200px]]<br /><applet load="2dcn" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2dcn, resolution 2.25&Aring;" />
 
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'''Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate (alpha-furanose form)'''<br />
 
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==About this Structure==
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==Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate (alpha-furanose form)==
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2DCN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_tokodaii Sulfolobus tokodaii] with <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=K:'>K</scene>, <scene name='pdbligand=CKP:'>CKP</scene> and <scene name='pdbligand=ADP:'>ADP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DCN OCA].
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<StructureSection load='2dcn' size='340' side='right'caption='[[2dcn]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
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[[Category: Single protein]]
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== Structural highlights ==
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[[Category: Sulfolobus tokodaii]]
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<table><tr><td colspan='2'>[[2dcn]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfurisphaera_tokodaii_str._7 Sulfurisphaera tokodaii str. 7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DCN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DCN FirstGlance]. <br>
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[[Category: Kuramitsu, S.]]
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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]] 2.25&#8491;</td></tr>
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[[Category: Masui, R.]]
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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=CKP:(2R,3R,4S,5R)-2,3,4-TRIHYDROXY-5-[(PHOSPHONATOOXY)METHYL]TETRAHYDROFURAN-2-CARBOXYLIC+ACID'>CKP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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[[Category: Okazaki, S.]]
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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=2dcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dcn OCA], [https://pdbe.org/2dcn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dcn RCSB], [https://www.ebi.ac.uk/pdbsum/2dcn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dcn ProSAT]</span></td></tr>
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[[Category: Onda, H.]]
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</table>
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[[Category: Suzuki, A.]]
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== Function ==
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[[Category: Yamane, T.]]
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[https://www.uniprot.org/uniprot/KDGK_SULTO KDGK_SULTO] Involved in the degradation of glucose via the semi-phosphorylative Entner-Doudoroff pathway. Catalyzes the phosphorylation of 2-keto-3-deoxygluconate (KDG) to produce 2-keto-3-deoxy-6-phosphogluconate (KDPG). Can also use GTP, but not ADP or AMP, as a phosphoryl donor and 2-keto-D-gluconate (KG) as a phosphoryl acceptor.<ref>PMID:17407821</ref>
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[[Category: ADP]]
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== Evolutionary Conservation ==
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[[Category: CKP]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: K]]
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Check<jmol>
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[[Category: MG]]
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<jmolCheckbox>
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[[Category: 2-keto-3-deoxygluconate kinase]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dc/2dcn_consurf.spt"</scriptWhenChecked>
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[[Category: 2-keto-d-gluconate]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: sulfolobus tokodaii]]
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 19:00:34 2008''
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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=2dcn ConSurf].
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<div style="clear:both"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Sulfurisphaera tokodaii str. 7]]
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[[Category: Kuramitsu S]]
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[[Category: Masui R]]
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[[Category: Okazaki S]]
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[[Category: Onda H]]
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[[Category: Suzuki A]]
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[[Category: Yamane T]]

Current revision

Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate (alpha-furanose form)

PDB ID 2dcn

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