4znf - Revision history

OCA at 09:49, 22 May 2024

2024-05-22T09:49:36Z

←Older revision		Revision as of 09:49, 22 May 2024
Line 1:		Line 1:

	==HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION==		==HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION==
-	<StructureSection load='4znf' size='340' side='right'caption='[[4znf~~]], [[NMR_Ensembles_of_Models \| 41 NMR models~~]]' scene=''>	+	<StructureSection load='4znf' size='340' side='right'caption='[[4znf]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[3znf\|3znf]]~~</~~div~~></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [https://pdbe.org/4znf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [https://www.ebi.ac.uk/pdbsum/4znf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4znf ProSAT]</span></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [https://pdbe.org/4znf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [https://www.ebi.ac.uk/pdbsum/4znf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4znf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ZEP1_HUMAN ZEP1_HUMAN]] This protein specifically binds to the DNA sequence 5'-GGGACTTTCC-3' which is found in the enhancer elements of numerous viral promoters such as those of SV40, CMV, or HIV-1. In addition, related sequences are found in the enhancer elements of a number of cellular promoters, including those of the class I MHC, interleukin-2 receptor, and interferon-beta genes. It may act in T-cell activation. Involved in activating HIV-1 gene expression. Isoform 2 and isoform 3 also bind to the IPCS (IRF1 and p53 common sequence) DNA sequence in the promoter region of interferon regulatory factor 1 and p53 genes and are involved in transcription regulation of these genes. Isoform 2 does not activate HIV-1 gene expression. Isoform 2 and isoform 3 may be involved in apoptosis.[:]<ref>PMID:1727488</ref> <ref>PMID:8289330</ref> <ref>PMID:11818340</ref>	+	[https://www.uniprot.org/uniprot/ZEP1_HUMAN ZEP1_HUMAN] This protein specifically binds to the DNA sequence 5'-GGGACTTTCC-3' which is found in the enhancer elements of numerous viral promoters such as those of SV40, CMV, or HIV-1. In addition, related sequences are found in the enhancer elements of a number of cellular promoters, including those of the class I MHC, interleukin-2 receptor, and interferon-beta genes. It may act in T-cell activation. Involved in activating HIV-1 gene expression. Isoform 2 and isoform 3 also bind to the IPCS (IRF1 and p53 common sequence) DNA sequence in the promoter region of interferon regulatory factor 1 and p53 genes and are involved in transcription regulation of these genes. Isoform 2 does not activate HIV-1 gene expression. Isoform 2 and isoform 3 may be involved in apoptosis.[:]<ref>PMID:1727488</ref> <ref>PMID:8289330</ref> <ref>PMID:11818340</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Clore~~, G M~~]]	+	[[Category: Clore GM]]
-	[[Category: Gronenborn~~, A M~~]]	+	[[Category: Gronenborn AM]]
-	[[Category: Omichinski~~, J G]]~~	+	[[Category: Omichinski JG]]
-	~~[[Category: Zinc finger dna binding domain~~]]	+

OCA at 07:05, 16 March 2022

2022-03-16T07:05:44Z

←Older revision		Revision as of 07:05, 16 March 2022
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	<StructureSection load='4znf' size='340' side='right'caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>		<StructureSection load='4znf' size='340' side='right'caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZNF 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">[[3znf\|3znf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3znf\|3znf]]</div></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [~~http~~://pdbe.org/4znf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4znf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4znf ProSAT]</span></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [https://pdbe.org/4znf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [https://www.ebi.ac.uk/pdbsum/4znf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4znf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ZEP1_HUMAN ZEP1_HUMAN]] This protein specifically binds to the DNA sequence 5'-GGGACTTTCC-3' which is found in the enhancer elements of numerous viral promoters such as those of SV40, CMV, or HIV-1. In addition, related sequences are found in the enhancer elements of a number of cellular promoters, including those of the class I MHC, interleukin-2 receptor, and interferon-beta genes. It may act in T-cell activation. Involved in activating HIV-1 gene expression. Isoform 2 and isoform 3 also bind to the IPCS (IRF1 and p53 common sequence) DNA sequence in the promoter region of interferon regulatory factor 1 and p53 genes and are involved in transcription regulation of these genes. Isoform 2 does not activate HIV-1 gene expression. Isoform 2 and isoform 3 may be involved in apoptosis.[:]<ref>PMID:1727488</ref> <ref>PMID:8289330</ref> <ref>PMID:11818340</ref>	+	[[https://www.uniprot.org/uniprot/ZEP1_HUMAN ZEP1_HUMAN]] This protein specifically binds to the DNA sequence 5'-GGGACTTTCC-3' which is found in the enhancer elements of numerous viral promoters such as those of SV40, CMV, or HIV-1. In addition, related sequences are found in the enhancer elements of a number of cellular promoters, including those of the class I MHC, interleukin-2 receptor, and interferon-beta genes. It may act in T-cell activation. Involved in activating HIV-1 gene expression. Isoform 2 and isoform 3 also bind to the IPCS (IRF1 and p53 common sequence) DNA sequence in the promoter region of interferon regulatory factor 1 and p53 genes and are involved in transcription regulation of these genes. Isoform 2 does not activate HIV-1 gene expression. Isoform 2 and isoform 3 may be involved in apoptosis.[:]<ref>PMID:1727488</ref> <ref>PMID:8289330</ref> <ref>PMID:11818340</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:33, 26 June 2019

2019-06-26T08:33:42Z

←Older revision		Revision as of 08:33, 26 June 2019
Line 1:		Line 1:
		+
	==HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION==		==HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION==
-	<StructureSection load='4znf' size='340' side='right' caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>	+	<StructureSection load='4znf' size='340' side='right'caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>		<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF 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"><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">[[3znf\|3znf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3znf\|3znf]]</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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://pdbe.org/4znf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://pdbe.org/4znf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4znf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zn/4znf_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zn/4znf_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 33:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Clore, G M]]		[[Category: Clore, G M]]
	[[Category: Gronenborn, A M]]		[[Category: Gronenborn, A M]]
	[[Category: Omichinski, J G]]		[[Category: Omichinski, J G]]
	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]

OCA at 11:49, 8 February 2016

2016-02-08T11:49:24Z

←Older revision		Revision as of 11:49, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='4znf' size='340' side='right' caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>		<StructureSection load='4znf' size='340' side='right' caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF 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"><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">[[3znf\|3znf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3znf\|3znf]]</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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://pdbe.org/4znf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=4znf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4znf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Clore, G M]]		[[Category: Clore, G M]]
	[[Category: Gronenborn, A M]]		[[Category: Gronenborn, A M]]
	[[Category: Omichinski, J G]]		[[Category: Omichinski, J G]]
	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]

OCA at 23:06, 24 December 2014

2014-12-24T23:06:05Z

←Older revision		Revision as of 23:06, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>		<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><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>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3znf\|3znf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3znf\|3znf]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></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=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ZEP1_HUMAN ZEP1_HUMAN]] This protein specifically binds to the DNA sequence 5'-GGGACTTTCC-3' which is found in the enhancer elements of numerous viral promoters such as those of SV40, CMV, or HIV-1. In addition, related sequences are found in the enhancer elements of a number of cellular promoters, including those of the class I MHC, interleukin-2 receptor, and interferon-beta genes. It may act in T-cell activation. Involved in activating HIV-1 gene expression. Isoform 2 and isoform 3 also bind to the IPCS (IRF1 and p53 common sequence) DNA sequence in the promoter region of interferon regulatory factor 1 and p53 genes and are involved in transcription regulation of these genes. Isoform 2 does not activate HIV-1 gene expression. Isoform 2 and isoform 3 may be involved in apoptosis.[:]<ref>PMID:1727488</ref> <ref>PMID:8289330</ref> <ref>PMID:11818340</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Clore, G M.]]	+	[[Category: Clore, G M]]
-	[[Category: Gronenborn, A M.]]	+	[[Category: Gronenborn, A M]]
-	[[Category: Omichinski, J G.]]	+	[[Category: Omichinski, J G]]
	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]

OCA: Protected "4znf" [edit=sysop:move=sysop]

2014-06-05T08:10:43Z

Protected "4znf" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:10, 5 June 2014

OCA at 08:10, 5 June 2014

2014-06-05T08:10:41Z

←Older revision		Revision as of 08:10, 5 June 2014
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-	~~{{Seed}}~~	+	==HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION==
-	[[~~Image:~~4znf.~~png~~\|~~left~~\|200px]]	+	<StructureSection load='4znf' size='340' side='right' caption='[[4znf]], [[NMR_Ensembles_of_Models \| 41 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4znf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZNF FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3znf\|3znf]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum]</span></td></tr>
		+	<table>
		+	== 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/zn/4znf_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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The three-dimensional structure of a 30-residue synthetic peptide containing the carboxy-terminal "zinc finger" motif of a human enhancer binding protein has been determined by two-dimensional nuclear magnetic resonance (2D NMR) spectroscopy and hybrid distance geometry-dynamical simulated annealing calculations. The structure determination is based on 487 approximate interproton distance and 63 torsion angle (phi, psi, and chi 1) restraints. A total of 40 simulated annealing structures were calculated, and the atomic rms distribution about the mean coordinate positions (excluding residues 29 and 30 which are ill-defined) is 0.4 A for the backbone atoms, 0.8 A for all atoms, and 0.41 A for all atoms excluding the lysine and arginine side chains, which are disordered. The solution structure of the zinc finger consists of two irregular antiparallel beta-strands connected by an atypical turn (residues 3-12) and a classical alpha-helix (residues 14-24). The zinc is tetrahedrally coordinated to the sulfur atoms of two cysteines (Cys-5 and Cys-8) and to the N epsilon 2 atoms of two histidines (His-21 and His-27). The two cysteine residues are located in the turn connecting the two beta-strands (residues 5-8); one of the histidine ligands (His-21) is in the alpha-helix, while the second histidine (His-27) is at the end of a looplike structure (formed by the end of the alpha-helix and a turn). The general architecture is qualitatively similar to two previously determined low-resolution Cys2-His2 zinc finger structures, although distinct differences can be observed in the beta-strands and turn and in the region around the two histidines coordinated to zinc. Comparison of the overall polypeptide fold of the enhancer binding protein zinc finger with known structures in the crystallographic data base reveals a striking similarity to one region (residues 23-44) of the X-ray structure of proteinase inhibitor domain III of Japanese quail ovomucoid [Papamokos, E., Weber, E., Bode, W., Huber, R., Empie, M. W., Kato, I., & Laskowski, M. (1982) J. Mol. Biol. 158, 515-537], which could be superimposed with a backbone atomic rms difference of 0.95 A on residues 3-25 (excluding residue 6) of the zinc finger from the enhancer binding protein. The presence of structural homology between two proteins of very different function may indicate that the so-called zinc finger motif is not unique for a class of DNA binding proteins but may represent a general folding motif found in a variety of proteins irrespective of their function.

-	<!--	+	High-resolution three-dimensional structure of a single zinc finger from a human enhancer binding protein in solution.,Omichinski JG, Clore GM, Appella E, Sakaguchi K, Gronenborn AM Biochemistry. 1990 Oct 9;29(40):9324-34. PMID:2248949<ref>PMID:2248949</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_4znf"~~, ~~creates the "Structure Box" on the page~~.	+
-	~~You may change the PDB parameter~~ (~~which sets the PDB file loaded into the applet~~)	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~	+
-	~~or leave the SCENE parameter empty for the default display.~~	+
-	-->	+
-	~~{{STRUCTURE_4znf\| PDB=4znf \| SCENE= }}~~	+

-	~~===HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_2248949}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 2248949 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_2248949}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~4ZNF is a 1 chain structure of sequence from [http:~~/~~/en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:2248949<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Clore, G M.]]		[[Category: Clore, G M.]]
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	[[Category: Omichinski, J G.]]		[[Category: Omichinski, J G.]]
	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:46:51 2009''

OCA at 19:46, 16 February 2009

2009-02-16T19:46:52Z

←Older revision		Revision as of 19:46, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	4ZNF is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA].	+	4ZNF is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA].

	==Reference==		==Reference==
-	High-resolution three-dimensional structure of a single zinc finger from a human enhancer binding protein in solution., Omichinski JG, Clore GM, Appella E, Sakaguchi K, Gronenborn AM, Biochemistry. 1990 Oct 9;29(40):9324-34. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/2248949 2248949]~~	+	<ref group="xtra">PMID:2248949</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Clore, G M.]]		[[Category: Clore, G M.]]
	[[Category: Gronenborn, A M.]]		[[Category: Gronenborn, A M.]]
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	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 13~~:55:~~16 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:46:51 2009''

OCA at 10:55, 3 July 2008

2008-07-03T10:55:16Z

←Older revision		Revision as of 10:55, 3 July 2008
Line 1:		Line 1:
-	[[Image:4znf.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:4znf.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_4znf\| PDB=4znf \| SCENE= }}		{{STRUCTURE_4znf\| PDB=4znf \| SCENE= }}

-	~~'''~~HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION~~'''~~	+	===HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION===


-	~~==Overview==~~	+	<!--
-	~~The three~~-~~dimensional structure of a 30~~-residue synthetic peptide containing the carboxy-terminal "zinc finger" motif of a human enhancer binding protein has been determined by two-dimensional nuclear magnetic resonance (2D NMR) spectroscopy and hybrid distance geometry-dynamical simulated annealing calculations. The ~~structure determination is based on 487 approximate interproton distance and 63 torsion angle (phi~~, ~~psi~~, ~~and chi 1) restraints. A total of 40 simulated annealing structures were calculated, and~~ the ~~atomic rms distribution about~~ the ~~mean coordinate positions~~ (~~excluding residues 29 and 30 which are ill-defined) is 0~~.~~4 A for the backbone atoms, 0~~.8 A for all atoms, and 0.41 A for all atoms excluding the lysine and arginine side chains, which are disordered. The solution structure of the zinc finger consists of two irregular antiparallel beta-strands connected by an atypical turn (residues 3-12) and a classical alpha-helix (residues 14-24). The zinc is tetrahedrally coordinated to the sulfur atoms of two cysteines (Cys-5 and Cys-8) and to the N epsilon 2 atoms of two histidines (His-21 and His-27). The two cysteine residues are located in the turn connecting the two beta-strands (residues 5-8); one of the histidine ligands (His-21) is in the alpha-helix, ~~while the second histidine (His-27)~~ is at the ~~end of a looplike structure (formed by the end of the alpha-helix and a turn)~~. ~~The general architecture is qualitatively similar to two previously determined low~~-~~resolution Cys2~~-His2 zinc finger structures, although distinct differences can be observed in the beta-strands and turn and in the region around the two histidines coordinated to zinc. Comparison of the overall polypeptide fold of the enhancer binding protein zinc finger with known structures in the crystallographic data base reveals a striking similarity to one region (residues 23-44) of the X-ray structure of proteinase inhibitor domain III of Japanese quail ovomucoid [Papamokos, E., Weber, E., Bode, W., Huber, R., Empie, M. W., Kato, I., & Laskowski, M. (1982) J. Mol. Biol. 158, 515-537], which could be superimposed with a backbone atomic rms difference of 0.95 A on residues 3-25 (excluding residue 6) of the zinc finger from the enhancer binding protein. The presence of structural homology between two proteins of very different function may indicate that the so-called zinc finger motif is not unique for a class of DNA binding proteins but may represent a general folding motif found in a variety of proteins irrespective of their function.	+	The line below this paragraph, {{ABSTRACT_PUBMED_2248949}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 2248949 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_2248949}}

	==About this Structure==		==About this Structure==
-	4ZNF is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA].	+	4ZNF is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZNF OCA].

	==Reference==		==Reference==
Line 26:		Line 30:
	[[Category: Omichinski, J G.]]		[[Category: Omichinski, J G.]]
	[[Category: Zinc finger dna binding domain]]		[[Category: Zinc finger dna binding domain]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:31:28 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 13:55:16 2008''

OCA at 19:31, 4 May 2008

2008-05-04T19:31:30Z

←Older revision		Revision as of 19:31, 4 May 2008
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	[[Image:4znf.gif\|left\|200px]]		[[Image:4znf.gif\|left\|200px]]

-	{{Structure	+	<!--
-	\|PDB~~= 4znf \|SIZE=350\|CAPTION= <~~scene ~~name='initialview01'>4znf</scene>~~	+	The line below this paragraph, containing "STRUCTURE_4znf", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene~~>	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	\|~~ACTIVITY~~=	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	~~\|DOMAIN=~~	+	{{STRUCTURE_4znf\| PDB=4znf \| SCENE= }}
-	~~\|RELATEDENTRY=[[3znf\|3ZNF]]~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4znf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4znf OCA], [http://www.ebi.ac.uk/pdbsum/4znf PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=4znf RCSB]</span>	+
-	}}	+

	'''HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION'''		'''HIGH-RESOLUTION THREE-DIMENSIONAL STRUCTURE OF A SINGLE ZINC FINGER FROM A HUMAN ENHANCER BINDING PROTEIN IN SOLUTION'''
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	[[Category: Gronenborn, A M.]]		[[Category: Gronenborn, A M.]]
	[[Category: Omichinski, J G.]]		[[Category: Omichinski, J G.]]
-	[[Category: ~~zinc~~ finger dna binding domain]]	+	[[Category: Zinc finger dna binding domain]]
-		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:31:28 2008''
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:40:40 2008''	+