5olk

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==Crystal structure of the ATP-cone-containing NrdB from Leeuwenhoekiella blandensis==
==Crystal structure of the ATP-cone-containing NrdB from Leeuwenhoekiella blandensis==
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<StructureSection load='5olk' size='340' side='right' caption='[[5olk]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
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<StructureSection load='5olk' size='340' side='right'caption='[[5olk]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5olk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Flavobacteria_sp._med217 Flavobacteria sp. med217]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OLK FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5olk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Leeuwenhoekiella_blandensis_MED217 Leeuwenhoekiella blandensis MED217]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OLK FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 2.45&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MED217_17135 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=398720 Flavobacteria sp. MED217])</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=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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/Ribonucleoside-diphosphate_reductase Ribonucleoside-diphosphate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.17.4.1 1.17.4.1] </span></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=5olk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5olk OCA], [https://pdbe.org/5olk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5olk RCSB], [https://www.ebi.ac.uk/pdbsum/5olk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5olk ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5olk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5olk OCA], [http://pdbe.org/5olk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5olk RCSB], [http://www.ebi.ac.uk/pdbsum/5olk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5olk ProSAT]</span></td></tr>
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</table>
</table>
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== Function ==
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[https://www.uniprot.org/uniprot/A3XHF9_LEEBM A3XHF9_LEEBM]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Ribonucleotide reductases (RNRs) are key enzymes in DNA metabolism, with allosteric mechanisms controlling substrate specificity and overall activity. In RNRs, the activity master-switch, the ATP-cone, has been found exclusively in the catalytic subunit. In two class I RNR subclasses whose catalytic subunit lacks the ATP-cone, we discovered ATP-cones in the radical-generating subunit. The ATP-cone in the Leeuwenhoekiella blandensis radical-generating subunit regulates activity via quaternary structure induced by binding of nucleotides. ATP induces enzymatically competent dimers, whereas dATP induces non-productive tetramers, resulting in different holoenzymes. The tetramer forms by interactions between ATP-cones, shown by a 2.45 A crystal structure. We also present evidence for an Mn(III)Mn(IV) metal center. In summary, lack of an ATP-cone domain in the catalytic subunit was compensated by transfer of the domain to the radical-generating subunit. To our knowledge, this represents the first observation of transfer of an allosteric domain between components of the same enzyme complex.
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Novel ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit.,Rozman Grinberg I, Lundin D, Hasan M, Crona M, Jonna VR, Loderer C, Sahlin M, Markova N, Borovok I, Berggren G, Hofer A, Logan DT, Sjoberg BM Elife. 2018 Feb 1;7. pii: 31529. doi: 10.7554/eLife.31529. PMID:29388911<ref>PMID:29388911</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 5olk" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Flavobacteria sp. med217]]
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[[Category: Large Structures]]
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[[Category: Ribonucleoside-diphosphate reductase]]
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[[Category: Leeuwenhoekiella blandensis MED217]]
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[[Category: Grinberg, A R]]
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[[Category: Grinberg AR]]
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[[Category: Hasan, M]]
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[[Category: Hasan M]]
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[[Category: Logan, D T]]
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[[Category: Logan DT]]
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[[Category: Sjoberg, B M]]
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[[Category: Sjoberg BM]]
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[[Category: Oxidoreductase]]
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[[Category: Ribonucleotide reductase atp cone allosteric regulation oligomerization]]
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Current revision

Crystal structure of the ATP-cone-containing NrdB from Leeuwenhoekiella blandensis

PDB ID 5olk

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