4l57

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==High resolutin structure of human cytosolic 5'(3')-deoxyribonucleotidase==
==High resolutin structure of human cytosolic 5'(3')-deoxyribonucleotidase==
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<StructureSection load='4l57' size='340' side='right' caption='[[4l57]], [[Resolution|resolution]] 1.08&Aring;' scene=''>
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<StructureSection load='4l57' size='340' side='right'caption='[[4l57]], [[Resolution|resolution]] 1.08&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4l57]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4L57 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4L57 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4l57]] is a 2 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=4L57 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4L57 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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.08&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">DNT1, NT5C, UMPH2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=4l57 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4l57 OCA], [http://pdbe.org/4l57 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4l57 RCSB], [http://www.ebi.ac.uk/pdbsum/4l57 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4l57 ProSAT]</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=4l57 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4l57 OCA], [https://pdbe.org/4l57 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4l57 RCSB], [https://www.ebi.ac.uk/pdbsum/4l57 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4l57 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/NT5C_HUMAN NT5C_HUMAN]] Dephosphorylates the 5' and 2'(3')-phosphates of deoxyribonucleotides, with a preference for dUMP and dTMP, intermediate activity towards dGMP, and low activity towards dCMP and dAMP.
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[https://www.uniprot.org/uniprot/NT5C_HUMAN NT5C_HUMAN] Dephosphorylates the 5' and 2'(3')-phosphates of deoxyribonucleotides, with a preference for dUMP and dTMP, intermediate activity towards dGMP, and low activity towards dCMP and dAMP.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The human 5'(3')-deoxyribonucleotidases catalyze the dephosphorylation of deoxyribonucleoside monophosphates to the corresponding deoxyribonucleosides and thus help to maintain the balance between pools of nucleosides and nucleotides. Here, the structures of human cytosolic deoxyribonucleotidase (cdN) at atomic resolution (1.08 A) and mitochondrial deoxyribonucleotidase (mdN) at near-atomic resolution (1.4 A) are reported. The attainment of an atomic resolution structure allowed interatomic distances to be used to assess the probable protonation state of the phosphate anion and the side chains in the enzyme active site. A detailed comparison of the cdN and mdN active sites allowed the design of a cdN-specific inhibitor.
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Structures of human cytosolic and mitochondrial nucleotidases: implications for structure-based design of selective inhibitors.,Pachl P, Fabry M, Rosenberg I, Simak O, Rezacova P, Brynda J Acta Crystallogr D Biol Crystallogr. 2014 Feb;70(Pt 2):461-70. doi:, 10.1107/S1399004713030502. Epub 2014 Jan 29. PMID:24531480<ref>PMID:24531480</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 4l57" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Human]]
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[[Category: Homo sapiens]]
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[[Category: Brynda, J]]
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[[Category: Large Structures]]
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[[Category: Pachl, P]]
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[[Category: Brynda J]]
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[[Category: Rezacova, P]]
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[[Category: Pachl P]]
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[[Category: 5'-nucleotidase]]
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[[Category: Rezacova P]]
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[[Category: Dephosphorylation]]
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[[Category: Had-like]]
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[[Category: Hydrolase]]
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[[Category: Protein conformation]]
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[[Category: Sequence homology]]
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Current revision

High resolutin structure of human cytosolic 5'(3')-deoxyribonucleotidase

PDB ID 4l57

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