1ldd: Difference between revisions

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-[[Image:1ldd.gif|left|200px]]
-<!--
+==Structure of the Cul1-Rbx1-Skp1-F boxSkp2 SCF Ubiquitin Ligase Complex==
-The line below this paragraph, containing "STRUCTURE_1ldd", creates the "Structure Box" on the page.
+<StructureSection load='1ldd' size='340' side='right'caption='[[1ldd]], [[Resolution|resolution]] 2.00&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'>[[1ldd]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LDD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LDD 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&#8491;</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=1ldd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ldd OCA], [https://pdbe.org/1ldd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ldd RCSB], [https://www.ebi.ac.uk/pdbsum/1ldd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ldd ProSAT]</span></td></tr>
-{{STRUCTURE_1ldd|  PDB=1ldd  |  SCENE=  }}
+</table>
+== Function ==
-'''Structure of the Cul1-Rbx1-Skp1-F boxSkp2 SCF Ubiquitin Ligase Complex'''
+[https://www.uniprot.org/uniprot/APC2_YEAST APC2_YEAST] Component of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin-protein ligase complex that controls progression through mitosis and the G1 phase of the cell cycle. The APC/C is thought to confer substrate specificity and, in the presence of ubiquitin-conjugating E2 enzymes, it catalyzes the formation of protein-ubiquitin conjugates that are subsequently degraded by the 26S proteasome. In early mitosis, the APC/C is activated by CDC20 and targets securin PDS1, the B-type cyclin CLB5, and other anaphase inhibitory proteins for proteolysis, thereby triggering the separation of sister chromatids at the metaphase-to-anaphase transition. In late mitosis and in G1, degradation of CLB5 allows activation of the APC/C by CDH1, which is needed to destroy CDC20 and the B-type cyclin CLB2 to allow exit from mitosis and creating the low CDK state necessary for cytokinesis and for reforming prereplicative complexes in G1 prior to another round of replication.<ref>PMID:9469814</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
-==Overview==
+Check<jmol>
-SCF complexes are the largest family of E3 ubiquitin-protein ligases and mediate the ubiquitination of diverse regulatory and signalling proteins. Here we present the crystal structure of the Cul1-Rbx1-Skp1-F boxSkp2 SCF complex, which shows that Cul1 is an elongated protein that consists of a long stalk and a globular domain. The globular domain binds the RING finger protein Rbx1 through an intermolecular beta-sheet, forming a two-subunit catalytic core that recruits the ubiquitin-conjugating enzyme. The long stalk, which consists of three repeats of a novel five-helix motif, binds the Skp1-F boxSkp2 protein substrate-recognition complex at its tip. Cul1 serves as a rigid scaffold that organizes the Skp1-F boxSkp2 and Rbx1 subunits, holding them over 100 A apart. The structure suggests that Cul1 may contribute to catalysis through the positioning of the substrate and the ubiquitin-conjugating enzyme, and this model is supported by Cul1 mutations designed to eliminate the rigidity of the scaffold.
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/1ldd_consurf.spt"</scriptWhenChecked>
-==About this Structure==
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-LDD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LDD OCA].
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
-==Reference==
+</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=1ldd ConSurf].
-Structure of the Cul1-Rbx1-Skp1-F boxSkp2 SCF ubiquitin ligase complex., Zheng N, Schulman BA, Song L, Miller JJ, Jeffrey PD, Wang P, Chu C, Koepp DM, Elledge SJ, Pagano M, Conaway RC, Conaway JW, Harper JW, Pavletich NP, Nature. 2002 Apr 18;416(6882):703-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11961546 11961546]
+<div style="clear:both"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
+[[Category: Chu C]]
-[[Category: Chu, C.]]
+[[Category: Conaway JW]]
-[[Category: Conaway, J W.]]
+[[Category: Conaway RC]]
-[[Category: Conaway, R C.]]
+[[Category: Elledge SJ]]
-[[Category: Elledge, S J.]]
+[[Category: Harper JW]]
-[[Category: Harper, J W.]]
+[[Category: Jeffrey PD]]
-[[Category: Jeffrey, P D.]]
+[[Category: Koepp DM]]
-[[Category: Koepp, D M.]]
+[[Category: Miller JJ]]
-[[Category: Miller, J J.]]
+[[Category: Pagano M]]
-[[Category: Pagano, M.]]
+[[Category: Pavletich NP]]
-[[Category: Pavletich, N P.]]
+[[Category: Schulman BA]]
-[[Category: Schulman, B A.]]
+[[Category: Song L]]
-[[Category: Song, L.]]
+[[Category: Wang P]]
-[[Category: Wang, P.]]
+[[Category: Zheng N]]
-[[Category: Zheng, N.]]
-[[Category: Ligase]]
-[[Category: Ring finger]]
-[[Category: Ubiquitin]]
-[[Category: Ubiquitination]]
-[[Category: Winged-helix]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 23:48:41 2008''