3brd: Difference between revisions

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-[[Image:3brd.jpg|left|200px]]
- {{Structure
+==CSL (Lag-1) bound to DNA with Lin-12 RAM peptide, P212121==
-|PDB= 3brd |SIZE=350|CAPTION= <scene name='initialview01'>3brd</scene>, resolution 2.210&Aring;
+<StructureSection load='3brd' size='340' side='right'caption='[[3brd]], [[Resolution|resolution]] 2.21&Aring;' scene=''>
-|SITE= <scene name='pdbsite=AC1:Edo+Binding+Site+For+Residue+A+1'>AC1</scene>, <scene name='pdbsite=AC2:Edo+Binding+Site+For+Residue+A+2'>AC2</scene>, <scene name='pdbsite=AC3:Edo+Binding+Site+For+Residue+A+3'>AC3</scene>, <scene name='pdbsite=AC4:Edo+Binding+Site+For+Residue+A+4'>AC4</scene>, <scene name='pdbsite=AC5:Edo+Binding+Site+For+Residue+A+5'>AC5</scene>, <scene name='pdbsite=AC6:Edo+Binding+Site+For+Residue+D+6'>AC6</scene>, <scene name='pdbsite=AC7:Edo+Binding+Site+For+Residue+C+16'>AC7</scene>, <scene name='pdbsite=AC8:Edo+Binding+Site+For+Residue+A+8'>AC8</scene>, <scene name='pdbsite=AC9:Edo+Binding+Site+For+Residue+A+9'>AC9</scene> and <scene name='pdbsite=BC1:Edo+Binding+Site+For+Residue+A+10'>BC1</scene>
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>
+<table><tr><td colspan='2'>[[3brd]] is a 4 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=3BRD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BRD FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.21&#8491;</td></tr>
-|GENE= lag-1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 Caenorhabditis elegans]), lin-12 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 Caenorhabditis elegans])
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd01176 IPT_RBP-Jkappa], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=pfam09271 LAG1-DNAbind], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=pfam09270 Beta-trefoil]</span>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3brd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3brd OCA], [https://pdbe.org/3brd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3brd RCSB], [https://www.ebi.ac.uk/pdbsum/3brd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3brd ProSAT]</span></td></tr>
-|RELATEDENTRY=[[3brf|3BRF]], [[3brg|3BRG]]
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3brd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3brd OCA], [http://www.ebi.ac.uk/pdbsum/3brd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3brd RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/LAG1_CAEEL LAG1_CAEEL] Transcriptional regulator that plays a central role in lin-12/Notch and glp-1/Notch signaling pathways, involved in cell-cell communication that regulate a broad spectrum of cell-fate determinations (PubMed:8625826). Binds directly to the 5'-[A/G]TGGGAA-3' DNA consensus sequence, which is present in the regulatory region of several genes (PubMed:8625826, PubMed:18706403, PubMed:23615264, PubMed:15297877, PubMed:32196486, PubMed:21737278). Acts as a transcriptional repressor when it is not associated with Notch proteins (By similarity). When in a complex with a Notch intracellular domain (NICD) product of lin-12/Notch or glp-1/Notch, and transcription regulator lag-3, it may act as a transcriptional activator that activates transcription of target genes(PubMed:18381292, PubMed:10830967, PubMed:32196486, PubMed:9003776). Probably represses or activates transcription via the recruitment of chromatin remodeling complexes containing histone deacetylase or histone acetylase proteins, respectively (By similarity). Autonomously required in the germline for the stem cell fate, acting in the glp-1-dependent transcriptional activation of genes, including lst-1 and sygl-1 (PubMed:32196486). Involved in cell-fate specification during reproductive system development, by positively autoregulating its own expression, in response to lin-12/Notch signaling (PubMed:23615264, PubMed:32839181). Plays a role in Notch-dependent induction of left-right asymmetry in interneurons and motoneurons (PubMed:21737278). May repress expression of hlh-6, in a lin-12/Notch-independent manner (PubMed:18706403).[UniProtKB:P28159]<ref>PMID:10830967</ref> <ref>PMID:15297877</ref> <ref>PMID:18381292</ref> <ref>PMID:18706403</ref> <ref>PMID:21737278</ref> <ref>PMID:23615264</ref> <ref>PMID:32196486</ref> <ref>PMID:32839181</ref> <ref>PMID:8625826</ref>
+== Evolutionary Conservation ==
-'''CSL (Lag-1) bound to DNA with Lin-12 RAM peptide, P212121'''
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
-==About this Structure==
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/br/3brd_consurf.spt"</scriptWhenChecked>
-BRD is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BRD OCA].
+    <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=3brd ConSurf].
+<div style="clear:both"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Caenorhabditis elegans]]
-[[Category: Protein complex]]
+[[Category: Large Structures]]
-[[Category: Kovall, R A.]]
+[[Category: Kovall RA]]
-[[Category: Wilson, J J.]]
+[[Category: Wilson JJ]]
-[[Category: ank repeat]]
-[[Category: developmental protein]]
-[[Category: differentiation]]
-[[Category: dna binding protein/dna complex]]
-[[Category: dna-binding]]
-[[Category: egf-like domain]]
-[[Category: glycoprotein]]
-[[Category: membrane]]
-[[Category: notch]]
-[[Category: protein-dna complex]]
-[[Category: signaling]]
-[[Category: transcription]]
-[[Category: transmembrane]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr  2 11:59:28 2008''