1ymt: Difference between revisions

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-{{Seed}}
-[[Image:1ymt.png|left|200px]]
-<!--
+==Mouse SF-1 LBD==
-The line below this paragraph, containing "STRUCTURE_1ymt", creates the "Structure Box" on the page.
+<StructureSection load='1ymt' size='340' side='right'caption='[[1ymt]], [[Resolution|resolution]] 1.20&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'>[[1ymt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YMT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YMT 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]] 1.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DR9:1-CIS-9-OCTADECANOYL-2-CIS-9-HEXADECANOYL+PHOSPHATIDYL+GLYCEROL'>DR9</scene></td></tr>
-{{STRUCTURE_1ymt|  PDB=1ymt  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ymt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ymt OCA], [https://pdbe.org/1ymt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ymt RCSB], [https://www.ebi.ac.uk/pdbsum/1ymt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ymt ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/STF1_MOUSE STF1_MOUSE] Transcriptional activator. Seems to be essential for sexual differentiation and formation of the primary steroidogenic tissues. Binds to the Ad4 site found in the promoter region of steroidogenic P450 genes such as CYP11A, CYP11B and CYP21B. Also regulates the AMH/Muellerian inhibiting substance gene as well as the AHCH and STAR genes. 5'-YCAAGGYC-3' and 5'-RRAGGTCA-3' are the consensus sequences for the recognition by NR5A1. The SFPQ-NONO-NR5A1 complex binds to the CYP17 promoter and regulates basal and cAMP-dependent transcriptional avtivity (By similarity). Transcription repressor of the Moloney leukemia virus long terminal repeat in undifferentiated murine embryonal carcinoma cells. Binds phosphatidylcholine and phospholipids with a phosphatidylinositol (PI) headgroup, in particular phosphatidyl(3,4)bisphosphate, phosphatidyl(3,5)bisphosphate and phosphatidyl(3,4,5)triphosphate. Activated by the phosphorylation of NR5A1 by HIPK3 leading to increased steroidogenic gene expression upon cAMP signaling pathway stimulation.<ref>PMID:17210646</ref> <ref>PMID:18988706</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/ym/1ymt_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=1ymt ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Vertebrate members of the nuclear receptor NR5A subfamily, which includes steroidogenic factor 1 (SF-1) and liver receptor homolog 1 (LRH-1), regulate crucial aspects of development, endocrine homeostasis, and metabolism. Mouse LRH-1 is believed to be a ligand-independent transcription factor with a large and empty hydrophobic pocket. Here we present structural and biochemical data for three other NR5A members-mouse and human SF-1 and human LRH-1-which reveal that these receptors bind phosphatidyl inositol second messengers and that ligand binding is required for maximal activity. Evolutionary analysis of structure-function relationships across the SF-1/LRH-1 subfamily indicates that ligand binding is the ancestral state of NR5A receptors and was uniquely diminished or altered in the rodent LRH-1 lineage. We propose that phospholipids regulate gene expression by directly binding to NR5A nuclear receptors.
-===Mouse SF-1 LBD===
+Structural analyses reveal phosphatidyl inositols as ligands for the NR5 orphan receptors SF-1 and LRH-1.,Krylova IN, Sablin EP, Moore J, Xu RX, Waitt GM, MacKay JA, Juzumiene D, Bynum JM, Madauss K, Montana V, Lebedeva L, Suzawa M, Williams JD, Williams SP, Guy RK, Thornton JW, Fletterick RJ, Willson TM, Ingraham HA Cell. 2005 Feb 11;120(3):343-55. PMID:15707893<ref>PMID:15707893</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_15707893}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1ymt" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 15707893 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15707893}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-YMT is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YMT OCA].
-==Reference==
-Structural analyses reveal phosphatidyl inositols as ligands for the NR5 orphan receptors SF-1 and LRH-1., Krylova IN, Sablin EP, Moore J, Xu RX, Waitt GM, MacKay JA, Juzumiene D, Bynum JM, Madauss K, Montana V, Lebedeva L, Suzawa M, Williams JD, Williams SP, Guy RK, Thornton JW, Fletterick RJ, Willson TM, Ingraham HA, Cell. 2005 Feb 11;120(3):343-55. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15707893 15707893]
 [[Category: Mus musculus]]
-[[Category: Protein complex]]
+[[Category: Bynum JM]]
-[[Category: Bynum, J M.]]
+[[Category: Fletterick RJ]]
-[[Category: Fletterick, R J.]]
+[[Category: Ingraham HA]]
-[[Category: Ingraham, H A.]]
+[[Category: Juzumiene D]]
-[[Category: Juzumiene, D.]]
+[[Category: Krylova IN]]
-[[Category: Krylova, I N.]]
+[[Category: Moore J]]
-[[Category: Moore, J.]]
+[[Category: Sablin EP]]
-[[Category: Sablin, E P.]]
+[[Category: Waitt GM]]
-[[Category: Waitt, G M.]]
+[[Category: Willson TM]]
-[[Category: Willson, T M.]]
+[[Category: Xu RX]]
-[[Category: Xu, R X.]]
-[[Category: Co-repressor peptide]]
-[[Category: Ligand]]
-[[Category: Ligand-binding domain]]
-[[Category: Nuclear receptor]]
-[[Category: Phosphatidyl glycerol]]
-[[Category: Sf-1]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 13:09:25 2008''