5ukf: Difference between revisions

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-'''Unreleased structure'''
-The entry 5ukf is ON HOLD
+==Crystal Structure of the Human Vaccinia-related Kinase 1 Bound to an Oxindole Inhibitor==
+<StructureSection load='5ukf' size='340' side='right'caption='[[5ukf]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5ukf]] is a 4 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=5UKF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UKF FirstGlance]. <br>
+</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>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8E1:4-{[(Z)-(7-OXO-6,7-DIHYDRO-8H-[1,3]THIAZOLO[5,4-E]INDOL-8-YLIDENE)METHYL]AMINO}BENZENE-1-SULFONAMIDE'>8E1</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5ukf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ukf OCA], [https://pdbe.org/5ukf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ukf RCSB], [https://www.ebi.ac.uk/pdbsum/5ukf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ukf ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/VRK1_HUMAN VRK1_HUMAN] Pontocerebellar hypoplasia type 1. The disease is caused by mutations affecting the gene represented in this entry.
+== Function ==
+[https://www.uniprot.org/uniprot/VRK1_HUMAN VRK1_HUMAN] Serine/threonine kinase involved in Golgi disassembly during the cell cycle: following phosphorylation by PLK3 during mitosis, required to induce Golgi fragmentation. Acts by mediating phosphorylation of downstream target protein. Phosphorylates 'Thr-18' of p53/TP53 and may thereby prevent the interaction between p53/TP53 and MDM2. Phosphorylates casein and histone H3. Phosphorylates BANF1: disrupts its ability to bind DNA, reduces its binding to LEM domain-containing proteins and causes its relocalization from the nucleus to the cytoplasm. Phosphorylates ATF2 which activates its transcriptional activity.<ref>PMID:10951572</ref> <ref>PMID:14645249</ref> <ref>PMID:15105425</ref> <ref>PMID:16495336</ref> <ref>PMID:18617507</ref> <ref>PMID:19103756</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The human genome encodes two active Vaccinia-related protein kinases (VRK), VRK1 and VRK2. These proteins have been implicated in a number of cellular processes and linked to a variety of tumors. However, understanding the cellular role of VRKs and establishing their potential use as targets for therapeutic intervention has been limited by the lack of tool compounds that can specifically modulate the activity of these kinases in cells. Here we identified BI-D1870, a dihydropteridine inhibitor of RSK kinases, as a promising starting point for the development of chemical probes targeting the active VRKs. We solved co-crystal structures of both VRK1 and VRK2 bound to BI-D1870 and of VRK1 bound to two broad-spectrum inhibitors. These structures revealed that both VRKs can adopt a P-loop folded conformation, which is stabilized by different mechanisms on each protein. Based on these structures, we suggest modifications to the dihydropteridine scaffold that can be explored to produce potent and specific inhibitors towards VRK1 and VRK2.
-Authors: Counago, R.M., Wells, C., Zuercher, W., Willson, T.M., Bountra, C., Edwards, A.M., Arruda, P., Gileadi, O., Structural Genomics Consortium (SGC)
+Structural characterization of human Vaccinia-Related Kinases (VRK) bound to small-molecule inhibitors identifies different P-loop conformations.,Counago RM, Allerston CK, Savitsky P, Azevedo H, Godoi PH, Wells CI, Mascarello A, de Souza Gama FH, Massirer KB, Zuercher WJ, Guimaraes CRW, Gileadi O Sci Rep. 2017 Aug 8;7(1):7501. doi: 10.1038/s41598-017-07755-y. PMID:28790404<ref>PMID:28790404</ref>
-Description: Crystal Structure of the Human Vaccinia-related Kinase 1 Bound to an Oxindole Inhibitor
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Wells, C]]
+<div class="pdbe-citations 5ukf" style="background-color:#fffaf0;"></div>
-[[Category: Zuercher, W]]
-[[Category: Counago, R.M]]
+==See Also==
-[[Category: Edwards, A.M]]
+*[[Serine/threonine protein kinase 3D structures|Serine/threonine protein kinase 3D structures]]
-[[Category: Gileadi, O]]
+== References ==
-[[Category: Willson, T.M]]
+<references/>
-[[Category: Arruda, P]]
+__TOC__
-[[Category: Structural Genomics Consortium (Sgc)]]
+</StructureSection>
-[[Category: Bountra, C]]
+[[Category: Homo sapiens]]
+[[Category: Large Structures]]
+[[Category: Arruda P]]
+[[Category: Bountra C]]
+[[Category: Counago RM]]
+[[Category: Edwards AM]]
+[[Category: Gileadi O]]
+[[Category: Wells C]]
+[[Category: Willson TM]]
+[[Category: Zuercher W]]