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4ohz

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==bound to ssRNA tetranucleotide GAAA, ADP, and Mg2+==
==bound to ssRNA tetranucleotide GAAA, ADP, and Mg2+==
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<StructureSection load='4ohz' size='340' side='right' caption='[[4ohz]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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<StructureSection load='4ohz' size='340' side='right'caption='[[4ohz]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4ohz]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OHZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OHZ FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4ohz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OHZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OHZ 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=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</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]] 2.4&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ohv|4ohv]], [[4ohw|4ohw]], [[4ohx|4ohx]], [[4ohy|4ohy]], [[4oi0|4oi0]], [[4oi1|4oi1]], [[4oi2|4oi2]]</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=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SAR:SARCOSINE'>SAR</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=4ohz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ohz OCA], [http://pdbe.org/4ohz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ohz RCSB], [http://www.ebi.ac.uk/pdbsum/4ohz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ohz 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=4ohz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ohz OCA], [https://pdbe.org/4ohz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ohz RCSB], [https://www.ebi.ac.uk/pdbsum/4ohz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ohz ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/CLP1_CAEEL CLP1_CAEEL]] Required for endonucleolytic cleavage during polyadenylation-dependent pre-mRNA 3'-end formation (By similarity).
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[https://www.uniprot.org/uniprot/CLP1_CAEEL CLP1_CAEEL] Required for endonucleolytic cleavage during polyadenylation-dependent pre-mRNA 3'-end formation (By similarity).
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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RNA-specific polynucleotide kinases of the Clp1 subfamily are key components of various RNA maturation pathways. However, the structural basis explaining their substrate specificity and the enzymatic mechanism is elusive. Here, we report crystal structures of Clp1 from Caenorhabditis elegans (ceClp1) in a number of nucleotide- and RNA-bound states along the reaction pathway. The combined structural and biochemical analysis of ceClp1 elucidates the RNA specificity and lets us derive a general model for enzyme catalysis of RNA-specific polynucleotide kinases. We identified an RNA binding motif referred to as "clasp" as well as a conformational switch that involves the essential Walker A lysine (Lys127) and regulates the enzymatic activity of ceClp1. Structural comparison with other P loop proteins, such as kinases, adenosine triphosphatases (ATPases), and guanosine triphosphatases (GTPases), suggests that the observed conformational switch of the Walker A lysine is a broadly relevant mechanistic feature.
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RNA specificity and regulation of catalysis in the eukaryotic polynucleotide kinase clp1.,Dikfidan A, Loll B, Zeymer C, Magler I, Clausen T, Meinhart A Mol Cell. 2014 Jun 19;54(6):975-86. doi: 10.1016/j.molcel.2014.04.005. Epub 2014 , May 8. PMID:24813946<ref>PMID:24813946</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 4ohz" 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: Clausen, T]]
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[[Category: Caenorhabditis elegans]]
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[[Category: Dikfidan, A]]
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[[Category: Large Structures]]
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[[Category: Loll, B]]
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[[Category: Clausen T]]
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[[Category: Meinhart, A]]
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[[Category: Dikfidan A]]
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[[Category: Zeymer, C]]
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[[Category: Loll B]]
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[[Category: Polynucleotide kinase]]
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[[Category: Meinhart A]]
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[[Category: Rna binding protein-rna complex]]
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[[Category: Zeymer C]]

Current revision

bound to ssRNA tetranucleotide GAAA, ADP, and Mg2+

PDB ID 4ohz

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