4e6s: Difference between revisions

Revision as of 06:54, 28 September 2022

Crystal structure of the SCAN domain from mouse Zfp206

Structural highlights

4e6s is a 1 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[ZSC10_MOUSE] Embryonic stem (ES) cell-specific transcription factor required to maintain ES cell pluripotency. Can both activate and /or repress expression of target genes, depending on the context. Specifically binds the 5'-[GA]CGCNNGCG[CT]-3' DNA consensus sequence. Regulates expression of POU5F1/OCT4, ZSCAN4 and ALYREF/THOC4.^[1] ^[2] ^[3]

Publication Abstract from PubMed

Zfp206 (also named Zscan10) is a transcription factor that plays an important role in maintaining the pluripotent state of embryonic stem cells. Zfp206 is a member of the SCAN-domain family of C(2)H(2) zinc-finger transcription factors. The SCAN domain is a highly conserved motif of 84 residues which mediates the self-association of and heterodimerization between SCAN-domain family transcription factors. The SCAN domain may therefore be the key to the selective oligomerization of and may combinatorially enhance the regulatory versatility of C(2)H(2) zinc fingers. This paper describes crystallization attempts with the SCAN domain of Zfp206 (Zfp206SCAN) and optimization strategies to obtain diffraction-quality crystals. The best diffracting crystal was grown in a solution consisting of 0.3 M ammonium sulfate, 0.1 M Tris-HCl pH 8.6, 25% PEG 3350, 0.1 M ethylenediaminetetraacetic acid disodium salt dehydrate (EDTA) using the hanging-drop vapour-diffusion technique. Optimized crystals diffracted to 1.85 A resolution and belonged to space group I422, with unit-cell parameters a = 67.57, c = 87.54 A. A Matthews analysis indicated the presence of one Zfp206SCAN molecule per asymmetric unit.

Crystal optimization and preliminary diffraction data analysis of the SCAN domain of Zfp206.,Liang Y, Choo SH, Rossbach M, Baburajendran N, Palasingam P, Kolatkar PR Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Apr 1;68(Pt 4):443-7. Epub, 2012 Mar 27. PMID:22505416^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Zhang W, Walker E, Tamplin OJ, Rossant J, Stanford WL, Hughes TR. Zfp206 regulates ES cell gene expression and differentiation. Nucleic Acids Res. 2006;34(17):4780-90. Epub 2006 Sep 13. PMID:16971461 doi:https://dx.doi.org/gkl631
↑ Wang ZX, Kueh JL, Teh CH, Rossbach M, Lim L, Li P, Wong KY, Lufkin T, Robson P, Stanton LW. Zfp206 is a transcription factor that controls pluripotency of embryonic stem cells. Stem Cells. 2007 Sep;25(9):2173-82. doi: 10.1634/stemcells.2007-0085. Epub 2007, Jul 12. PMID:17628018 doi:https://dx.doi.org/10.1634/stemcells.2007-0085
↑ Yu HB, Kunarso G, Hong FH, Stanton LW. Zfp206, Oct4, and Sox2 are integrated components of a transcriptional regulatory network in embryonic stem cells. J Biol Chem. 2009 Nov 6;284(45):31327-35. doi: 10.1074/jbc.M109.016162. Epub 2009, Sep 9. PMID:19740739 doi:https://dx.doi.org/10.1074/jbc.M109.016162
↑ Liang Y, Choo SH, Rossbach M, Baburajendran N, Palasingam P, Kolatkar PR. Crystal optimization and preliminary diffraction data analysis of the SCAN domain of Zfp206. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Apr 1;68(Pt 4):443-7. Epub, 2012 Mar 27. PMID:22505416 doi:10.1107/S1744309112006070

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OCA

[1] Zhang W, Walker E, Tamplin OJ, Rossant J, Stanford WL, Hughes TR. Zfp206 regulates ES cell gene expression and differentiation. Nucleic Acids Res. 2006;34(17):4780-90. Epub 2006 Sep 13. PMID:16971461 doi:https://dx.doi.org/gkl631

[2] Wang ZX, Kueh JL, Teh CH, Rossbach M, Lim L, Li P, Wong KY, Lufkin T, Robson P, Stanton LW. Zfp206 is a transcription factor that controls pluripotency of embryonic stem cells. Stem Cells. 2007 Sep;25(9):2173-82. doi: 10.1634/stemcells.2007-0085. Epub 2007, Jul 12. PMID:17628018 doi:https://dx.doi.org/10.1634/stemcells.2007-0085

[3] Yu HB, Kunarso G, Hong FH, Stanton LW. Zfp206, Oct4, and Sox2 are integrated components of a transcriptional regulatory network in embryonic stem cells. J Biol Chem. 2009 Nov 6;284(45):31327-35. doi: 10.1074/jbc.M109.016162. Epub 2009, Sep 9. PMID:19740739 doi:https://dx.doi.org/10.1074/jbc.M109.016162

[4] Liang Y, Choo SH, Rossbach M, Baburajendran N, Palasingam P, Kolatkar PR. Crystal optimization and preliminary diffraction data analysis of the SCAN domain of Zfp206. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Apr 1;68(Pt 4):443-7. Epub, 2012 Mar 27. PMID:22505416 doi:10.1107/S1744309112006070

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[2]

[3]

[4]

@@ Line 1: / Line 1: @@
 ==Crystal structure of the SCAN domain from mouse Zfp206==
-<StructureSection load='4e6s' size='340' side='right' caption='[[4e6s]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
+<StructureSection load='4e6s' size='340' side='right'caption='[[4e6s]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4e6s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E6S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E6S FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4e6s]] is a 1 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=4E6S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E6S FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3lhr|3lhr]], [[2fi2|2fi2]], [[1y7q|1y7q]]</td></tr>
+</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=4e6s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e6s OCA], [https://pdbe.org/4e6s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e6s RCSB], [https://www.ebi.ac.uk/pdbsum/4e6s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e6s ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Zscan10, Zfp206 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4e6s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e6s OCA], [http://pdbe.org/4e6s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4e6s RCSB], [http://www.ebi.ac.uk/pdbsum/4e6s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4e6s ProSAT]</span></td></tr>
 </table>
+== Function ==
+[[https://www.uniprot.org/uniprot/ZSC10_MOUSE ZSC10_MOUSE]] Embryonic stem (ES) cell-specific transcription factor required to maintain ES cell pluripotency. Can both activate and /or repress expression of target genes, depending on the context. Specifically binds the 5'-[GA]CGCNNGCG[CT]-3' DNA consensus sequence. Regulates expression of POU5F1/OCT4, ZSCAN4 and ALYREF/THOC4.<ref>PMID:16971461</ref> <ref>PMID:17628018</ref> <ref>PMID:19740739</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Lk3 transgenic mice]]
+[[Category: Large Structures]]
-[[Category: Baburajendran, N]]
+[[Category: Mus musculus]]
-[[Category: Choo, S H]]
+[[Category: Baburajendran N]]
-[[Category: Kolatkar, P R]]
+[[Category: Choo SH]]
-[[Category: Liang, Y]]
+[[Category: Kolatkar PR]]
-[[Category: Palasingam, P]]
+[[Category: Liang Y]]
-[[Category: Rossbach, M]]
+[[Category: Palasingam P]]
-[[Category: N-terminal part]]
+[[Category: Rossbach M]]
-[[Category: Other scan]]
-[[Category: Protein interaction]]
-[[Category: Scan domain]]
-[[Category: Transcription]]
-[[Category: Zinc finger transcription factor]]

4e6s: Difference between revisions

Revision as of 06:54, 28 September 2022

Crystal structure of the SCAN domain from mouse Zfp206

Structural highlights

Function

Publication Abstract from PubMed

References

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