3beg: Difference between revisions

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-{{Seed}}
-[[Image:3beg.png|left|200px]]
-<!--
+==Crystal structure of SR protein kinase 1 complexed to its substrate ASF/SF2==
-The line below this paragraph, containing "STRUCTURE_3beg", creates the "Structure Box" on the page.
+<StructureSection load='3beg' size='340' side='right'caption='[[3beg]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3beg]] 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=3BEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BEG FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALA:ALANINE'>ALA</scene>, <scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-{{STRUCTURE_3beg|  PDB=3beg  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3beg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3beg OCA], [https://pdbe.org/3beg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3beg RCSB], [https://www.ebi.ac.uk/pdbsum/3beg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3beg ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SRPK1_HUMAN SRPK1_HUMAN] Serine/arginine-rich protein-specific kinase which specifically phosphorylates its substrates at serine residues located in regions rich in arginine/serine dipeptides, known as RS domains and is involved in the phosphorylation of SR splicing factors and the regulation of splicing. Plays a central role in the regulatory network for splicing, controlling the intranuclear distribution of splicing factors in interphase cells and the reorganization of nuclear speckles during mitosis. Can influence additional steps of mRNA maturation, as well as other cellular activities, such as chromatin reorganization in somatic and sperm cells and cell cycle progression. Isoform 2 phosphorylates SFRS2, ZRSR2, LBR and PRM1. Isoform 2 phosphorylates SRSF1 using a directional (C-terminal to N-terminal) and a dual-track mechanism incorporating both processive phosphorylation (in which the kinase stays attached to the substrate after each round of phosphorylation) and distributive phosphorylation steps (in which the kinase and substrate dissociate after each phosphorylation event). The RS domain of SRSF1 binds first to a docking groove in the large lobe of the kinase domain of SRPK1. This induces certain structural changes in SRPK1 and/or RRM2 domain of SRSF1, allowing RRM2 to bind the kinase and initiate phosphorylation. The cycles continue for several phosphorylation steps in a processive manner (steps 1-8) until the last few phosphorylation steps (approximately steps 9-12). During that time, a mechanical stress induces the unfolding of the beta-4 motif in RRM2, which then docks at the docking groove of SRPK1. This also signals RRM2 to begin to dissociate, which facilitates SRSF1 dissociation after phosphorylation is completed. Isoform 2 can mediate hepatitis B virus (HBV) core protein phosphorylation. It plays a negative role in the regulation of HBV replication through a mechanism not involving the phosphorylation of the core protein but by reducing the packaging efficiency of the pregenomic RNA (pgRNA) without affecting the formation of the viral core particles. Isoform 1 and isoform 2 can induce splicing of exon 10 in MAPT/TAU. The ratio of isoform 1/isoform 2 plays a decisive role in determining cell fate in K-562 leukaemic cell line: isoform 2 favors proliferation where as isoform 1 favors differentiation.<ref>PMID:8208298</ref> <ref>PMID:11509566</ref> <ref>PMID:12134018</ref> <ref>PMID:15034300</ref> <ref>PMID:9237760</ref> <ref>PMID:10049757</ref> <ref>PMID:10390541</ref> <ref>PMID:14555757</ref> <ref>PMID:16122776</ref> <ref>PMID:18155240</ref> <ref>PMID:18687337</ref> <ref>PMID:19886675</ref> <ref>PMID:19240134</ref> <ref>PMID:19477182</ref> <ref>PMID:20708644</ref> <ref>PMID:16209947</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/be/3beg_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3beg ConSurf].
+<div style="clear:both"></div>
-===Crystal structure of SR protein kinase 1 complexed to its substrate ASF/SF2===
+==See Also==
+*[[Pre-mRNA splicing factors 3D structures|Pre-mRNA splicing factors 3D structures]]
+*[[Serine/threonine protein kinase 3D structures|Serine/threonine protein kinase 3D structures]]
-<!--
+== References ==
-The line below this paragraph, {{ABSTRACT_PUBMED_18342604}}, adds the Publication Abstract to the page
+<references/>
-(as it appears on PubMed at http://www.pubmed.gov), where 18342604 is the PubMed ID number.
+__TOC__
--->
+</StructureSection>
-{{ABSTRACT_PUBMED_18342604}}
-==About this Structure==
-BEG is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BEG OCA].
-==Reference==
-A sliding docking interaction is essential for sequential and processive phosphorylation of an SR protein by SRPK1., Ngo JC, Giang K, Chakrabarti S, Ma CT, Huynh N, Hagopian JC, Dorrestein PC, Fu XD, Adams JA, Ghosh G, Mol Cell. 2008 Mar 14;29(5):563-76. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18342604 18342604]
 [[Category: Homo sapiens]]
-[[Category: Non-specific serine/threonine protein kinase]]
+[[Category: Large Structures]]
-[[Category: Protein complex]]
+[[Category: Adams JA]]
-[[Category: Adams, J A.]]
+[[Category: Chakrabarti S]]
-[[Category: Chakrabarti, S.]]
+[[Category: Dorrestein PC]]
-[[Category: Dorrestein, P C.]]
+[[Category: Fu X-D]]
-[[Category: Fu, X D.]]
+[[Category: Ghosh G]]
-[[Category: Ghosh, G.]]
+[[Category: Giang K]]
-[[Category: Giang, K.]]
+[[Category: Hagopian J]]
-[[Category: Hagopian, J.]]
+[[Category: Huynh N]]
-[[Category: Huynh, N.]]
+[[Category: Ma C-T]]
-[[Category: Ma, C T.]]
+[[Category: Ngo JC]]
-[[Category: Ngo, J C.]]
-[[Category: Acetylation]]
-[[Category: Alternative splicing]]
-[[Category: Atp-binding]]
-[[Category: Chromosome partition]]
-[[Category: Cytoplasm]]
-[[Category: Differentiation]]
-[[Category: Kinase]]
-[[Category: Methylation]]
-[[Category: Mrna processing]]
-[[Category: Nucleotide-binding]]
-[[Category: Nucleus]]
-[[Category: Phosphoprotein]]
-[[Category: Polymorphism]]
-[[Category: Pre-mrna splicing]]
-[[Category: Rna-binding]]
-[[Category: Serine/threonine-protein kinase]]
-[[Category: Spliceosome]]
-[[Category: Sr protein]]
-[[Category: Sr protein kinase]]
-[[Category: Transferase]]
-[[Category: Transferase/splicing complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 06:49:02 2008''