8fe2: Difference between revisions

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-'''Unreleased structure'''
-The entry 8fe2 is ON HOLD
+==Structure of J-PKAc chimera complexed with Aplithianine A==
+<StructureSection load='8fe2' size='340' side='right'caption='[[8fe2]], [[Resolution|resolution]] 2.34&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[8fe2]] 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=8FE2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FE2 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]] 2.34&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene>, <scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene>, <scene name='pdbligand=XTI:6-[(6M)-6-(1-methyl-1H-imidazol-5-yl)-2,3-dihydro-4H-1,4-thiazin-4-yl]-9H-purine'>XTI</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=8fe2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fe2 OCA], [https://pdbe.org/8fe2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fe2 RCSB], [https://www.ebi.ac.uk/pdbsum/8fe2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fe2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/KAPCA_HUMAN KAPCA_HUMAN] Phosphorylates a large number of substrates in the cytoplasm and the nucleus. Regulates the abundance of compartmentalized pools of its regulatory subunits through phosphorylation of PJA2 which binds and ubiquitinates these subunits, leading to their subsequent proteolysis. Phosphorylates CDC25B, ABL1, NFKB1, CLDN3, PSMC5/RPT6, PJA2, RYR2, RORA, TRPC1 and VASP. RORA is activated by phosphorylation. Required for glucose-mediated adipogenic differentiation increase and osteogenic differentiation inhibition from osteoblasts. Involved in the regulation of platelets in response to thrombin and collagen; maintains circulating platelets in a resting state by phosphorylating proteins in numerous platelet inhibitory pathways when in complex with NF-kappa-B (NFKB1 and NFKB2) and I-kappa-B-alpha (NFKBIA), but thrombin and collagen disrupt these complexes and free active PRKACA stimulates platelets and leads to platelet aggregation by phosphorylating VASP. Prevents the antiproliferative and anti-invasive effects of alpha-difluoromethylornithine in breast cancer cells when activated. RYR2 channel activity is potentiated by phosphorylation in presence of luminal Ca(2+), leading to reduced amplitude and increased frequency of store overload-induced Ca(2+) release (SOICR) characterized by an increased rate of Ca(2+) release and propagation velocity of spontaneous Ca(2+) waves, despite reduced wave amplitude and resting cytosolic Ca(2+). TRPC1 activation by phosphorylation promotes Ca(2+) influx, essential for the increase in permeability induced by thrombin in confluent endothelial monolayers. PSMC5/RPT6 activation by phosphorylation stimulates proteasome. Regulates negatively tight junction (TJs) in ovarian cancer cells via CLDN3 phosphorylation. NFKB1 phosphorylation promotes NF-kappa-B p50-p50 DNA binding. Involved in embryonic development by down-regulating the Hedgehog (Hh) signaling pathway that determines embryo pattern formation and morphogenesis. Isoform 2 phosphorylates and activates ABL1 in sperm flagellum to promote spermatozoa capacitation. Prevents meiosis resumption in prophase-arrested oocytes via CDC25B inactivation by phosphorylation. May also regulate rapid eye movement (REM) sleep in the pedunculopontine tegmental (PPT). Phosphorylates APOBEC3G and AICDA.<ref>PMID:15016832</ref> <ref>PMID:15642694</ref> <ref>PMID:15905176</ref> <ref>PMID:17565987</ref> <ref>PMID:17693412</ref> <ref>PMID:17333334</ref> <ref>PMID:20356841</ref> <ref>PMID:19949837</ref> <ref>PMID:21514275</ref> <ref>PMID:21812984</ref> <ref>PMID:21423175</ref> [https://www.uniprot.org/uniprot/DNJB1_HUMAN DNJB1_HUMAN] Interacts with HSP70 and can stimulate its ATPase activity. Stimulates the association between HSC70 and HIP.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The DNAJB1-PRKACA oncogenic gene fusion results in an active kinase enzyme, J-PKAcalpha, that has been identified as an attractive antitumor target for fibrolamellar hepatocellular carcinoma (FLHCC). A high-throughput assay was used to identify inhibitors of J-PKAcalpha catalytic activity by screening the NCI Program for Natural Product Discovery (NPNPD) prefractionated natural product library. Purification of the active agent from a single fraction of an Aplidium sp. marine tunicate led to the discovery of two unprecedented alkaloids, aplithianines A (1) and B (2). Aplithianine A (1) showed potent inhibition against J-PKAcalpha with an IC(50) of approximately 1 muM in the primary screening assay. In kinome screening, 1 inhibited wild-type PKA with an IC(50) of 84 nM. Further mechanistic studies including cocrystallization and X-ray diffraction experiments revealed that 1 inhibited PKAcalpha catalytic activity by competitively binding to the ATP pocket. Human kinome profiling of 1 against a panel of 370 kinases revealed potent inhibition of select serine/threonine kinases in the CLK and PKG families with IC(50) values in the range approximately 11-90 nM. An efficient, four-step total synthesis of 1 has been accomplished, enabling further evaluation of aplithianines as biologically relevant kinase inhibitors.
-Authors: Du, L., Wilson, B.A.P., Li, N., Dalilian, M., Wang, D., Martinez Fiesco, J.A., Smith, E.A., Wamiru, A., Goncharova, E.I., Zhang, P., O''Keefe, B.R.
+Discovery and Synthesis of a Naturally Derived Protein Kinase Inhibitor that Selectively Inhibits Distinct Classes of Serine/Threonine Kinases.,Du L, Wilson BAP, Li N, Shah R, Dalilian M, Wang D, Smith EA, Wamiru A, Goncharova EI, Zhang P, O'Keefe BR J Nat Prod. 2023 Oct 27;86(10):2283-2293. doi: 10.1021/acs.jnatprod.3c00394. Epub , 2023 Oct 16. PMID:37843072<ref>PMID:37843072</ref>
-Description: Structure of J-PKAc chimera complexed with Aplithianine A
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Martinez Fiesco, J.A]]
+<div class="pdbe-citations 8fe2" style="background-color:#fffaf0;"></div>
-[[Category: Zhang, P]]
+== References ==
-[[Category: Wang, D]]
+<references/>
-[[Category: Dalilian, M]]
+__TOC__
-[[Category: Goncharova, E.I]]
+</StructureSection>
-[[Category: Wamiru, A]]
+[[Category: Homo sapiens]]
-[[Category: Wilson, B.A.P]]
+[[Category: Large Structures]]
-[[Category: Du, L]]
+[[Category: Dalilian M]]
-[[Category: O''Keefe, B.R]]
+[[Category: Du L]]
-[[Category: Li, N]]
+[[Category: Goncharova EI]]
-[[Category: Smith, E.A]]
+[[Category: Li N]]
+[[Category: Martinez Fiesco JA]]
+[[Category: O'Keefe BR]]
+[[Category: Smith EA]]
+[[Category: Wamiru A]]
+[[Category: Wang D]]
+[[Category: Wilson BAP]]
+[[Category: Zhang P]]