4f2j: Difference between revisions

Revision as of 04:29, 7 October 2022

Crystal structure of ZNF217 bound to DNA, P6522 crystal form

Structural highlights

4f2j is a 2 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	ZN
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ZN217_HUMAN Binds to the promoters of target genes and functions as repressor. Promotes cell proliferation and antagonizes cell death. Promotes phosphorylation of AKT1 at 'Ser-473'.^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

Classical zinc fingers (ZFs) are one of the most abundant and best characterized DNA-binding domains. Typically, tandem arrays of three or more ZFs bind DNA target sequences with high affinity and specificity, and the mode of DNA recognition is sufficiently well understood that tailor-made ZF-based DNA-binding proteins can be engineered. We have shown previously that a two-zinc finger unit found in the transcriptional coregulator ZNF217 recognizes DNA but with an affinity and specificity that is lower than other ZF arrays. To investigate the basis for these differences, we determined the structure of a ZNF217-DNA complex. We show that although the overall position of the ZFs on the DNA closely resembles that observed for other ZFs, the side-chain interaction pattern differs substantially from the canonical model. The structure also reveals the presence of two methyl-pi interactions, each featuring a tyrosine contacting a thymine methyl group. To our knowledge, interactions of this type have not previously been described in classical ZF-DNA complexes. Finally, we investigated the sequence specificity of this two-ZF unit and discuss how ZNF217 might discriminate its target DNA sites in the cell.

New insights into DNA recognition by zinc fingers revealed by structural analysis of the oncoprotein ZNF217.,Vandevenne M, Jacques DA, Artuz C, Nguyen CD, Kwan AH, Segal DJ, Matthews JM, Crossley M, Guss JM, Mackay JP J Biol Chem. 2013 Apr 12;288(15):10616-27. doi: 10.1074/jbc.M112.441451. Epub, 2013 Feb 22. PMID:23436653^[5]

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

References

↑ Huang G, Krig S, Kowbel D, Xu H, Hyun B, Volik S, Feuerstein B, Mills GB, Stokoe D, Yaswen P, Collins C. ZNF217 suppresses cell death associated with chemotherapy and telomere dysfunction. Hum Mol Genet. 2005 Nov 1;14(21):3219-25. Epub 2005 Oct 3. PMID:16203743 doi:10.1093/hmg/ddi352
↑ Krig SR, Jin VX, Bieda MC, O'Geen H, Yaswen P, Green R, Farnham PJ. Identification of genes directly regulated by the oncogene ZNF217 using chromatin immunoprecipitation (ChIP)-chip assays. J Biol Chem. 2007 Mar 30;282(13):9703-12. Epub 2007 Jan 26. PMID:17259635 doi:10.1074/jbc.M611752200
↑ Thillainadesan G, Isovic M, Loney E, Andrews J, Tini M, Torchia J. Genome analysis identifies the p15ink4b tumor suppressor as a direct target of the ZNF217/CoREST complex. Mol Cell Biol. 2008 Oct;28(19):6066-77. doi: 10.1128/MCB.00246-08. Epub 2008 Jul , 14. PMID:18625718 doi:10.1128/MCB.00246-08
↑ Quinlan KG, Nardini M, Verger A, Francescato P, Yaswen P, Corda D, Bolognesi M, Crossley M. Specific recognition of ZNF217 and other zinc finger proteins at a surface groove of C-terminal binding proteins. Mol Cell Biol. 2006 Nov;26(21):8159-72. Epub 2006 Aug 28. PMID:16940172 doi:10.1128/MCB.00680-06
↑ Vandevenne M, Jacques DA, Artuz C, Nguyen CD, Kwan AH, Segal DJ, Matthews JM, Crossley M, Guss JM, Mackay JP. New insights into DNA recognition by zinc fingers revealed by structural analysis of the oncoprotein ZNF217. J Biol Chem. 2013 Apr 12;288(15):10616-27. doi: 10.1074/jbc.M112.441451. Epub, 2013 Feb 22. PMID:23436653 doi:10.1074/jbc.M112.441451

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Huang G, Krig S, Kowbel D, Xu H, Hyun B, Volik S, Feuerstein B, Mills GB, Stokoe D, Yaswen P, Collins C. ZNF217 suppresses cell death associated with chemotherapy and telomere dysfunction. Hum Mol Genet. 2005 Nov 1;14(21):3219-25. Epub 2005 Oct 3. PMID:16203743 doi:10.1093/hmg/ddi352

[2] Krig SR, Jin VX, Bieda MC, O'Geen H, Yaswen P, Green R, Farnham PJ. Identification of genes directly regulated by the oncogene ZNF217 using chromatin immunoprecipitation (ChIP)-chip assays. J Biol Chem. 2007 Mar 30;282(13):9703-12. Epub 2007 Jan 26. PMID:17259635 doi:10.1074/jbc.M611752200

[3] Thillainadesan G, Isovic M, Loney E, Andrews J, Tini M, Torchia J. Genome analysis identifies the p15ink4b tumor suppressor as a direct target of the ZNF217/CoREST complex. Mol Cell Biol. 2008 Oct;28(19):6066-77. doi: 10.1128/MCB.00246-08. Epub 2008 Jul , 14. PMID:18625718 doi:10.1128/MCB.00246-08

[4] Quinlan KG, Nardini M, Verger A, Francescato P, Yaswen P, Corda D, Bolognesi M, Crossley M. Specific recognition of ZNF217 and other zinc finger proteins at a surface groove of C-terminal binding proteins. Mol Cell Biol. 2006 Nov;26(21):8159-72. Epub 2006 Aug 28. PMID:16940172 doi:10.1128/MCB.00680-06

[5] Vandevenne M, Jacques DA, Artuz C, Nguyen CD, Kwan AH, Segal DJ, Matthews JM, Crossley M, Guss JM, Mackay JP. New insights into DNA recognition by zinc fingers revealed by structural analysis of the oncoprotein ZNF217. J Biol Chem. 2013 Apr 12;288(15):10616-27. doi: 10.1074/jbc.M112.441451. Epub, 2013 Feb 22. PMID:23436653 doi:10.1074/jbc.M112.441451

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@@ Line 1: / Line 1: @@
 ==Crystal structure of ZNF217 bound to DNA, P6522 crystal form==
-<StructureSection load='4f2j' size='340' side='right' caption='[[4f2j]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
+<StructureSection load='4f2j' size='340' side='right'caption='[[4f2j]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4f2j]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4F2J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4F2J FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4f2j]] 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=4F2J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4F2J FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3uk3|3uk3]]</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=4f2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f2j OCA], [https://pdbe.org/4f2j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4f2j RCSB], [https://www.ebi.ac.uk/pdbsum/4f2j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4f2j ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ZNF217, ZABC1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4f2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4f2j OCA], [http://pdbe.org/4f2j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4f2j RCSB], [http://www.ebi.ac.uk/pdbsum/4f2j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4f2j ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/ZN217_HUMAN ZN217_HUMAN]] Binds to the promoters of target genes and functions as repressor. Promotes cell proliferation and antagonizes cell death. Promotes phosphorylation of AKT1 at 'Ser-473'.<ref>PMID:16203743</ref> <ref>PMID:17259635</ref> <ref>PMID:18625718</ref> <ref>PMID:16940172</ref>
+[https://www.uniprot.org/uniprot/ZN217_HUMAN ZN217_HUMAN] Binds to the promoters of target genes and functions as repressor. Promotes cell proliferation and antagonizes cell death. Promotes phosphorylation of AKT1 at 'Ser-473'.<ref>PMID:16203743</ref> <ref>PMID:17259635</ref> <ref>PMID:18625718</ref> <ref>PMID:16940172</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Guss, J M]]
+[[Category: Large Structures]]
-[[Category: Jacques, D A]]
+[[Category: Guss JM]]
-[[Category: Mackay, J P]]
+[[Category: Jacques DA]]
-[[Category: Vandevenne, M S]]
+[[Category: Mackay JP]]
-[[Category: Dna binding]]
+[[Category: Vandevenne MS]]
-[[Category: Metal binding protein-dna complex]]
-[[Category: Nucleus]]
-[[Category: Transcription factor]]
-[[Category: Zinc finger]]

4f2j: Difference between revisions

Revision as of 04:29, 7 October 2022

Crystal structure of ZNF217 bound to DNA, P6522 crystal form

Structural highlights

Function

Publication Abstract from PubMed

References

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