2hxm - Revision history

OCA at 10:03, 30 August 2023

OCA — Wed, 30 Aug 2023 10:03:08 GMT

←Older revision		Revision as of 10:03, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2hxm' size='340' side='right'caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='2hxm' size='340' side='right'caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HXM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HXM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hxm]] is a 1 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HXM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene>~~</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.3Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [https://pdbe.org/2hxm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [https://www.ebi.ac.uk/pdbsum/2hxm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hxm 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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [https://pdbe.org/2hxm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [https://www.ebi.ac.uk/pdbsum/2hxm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hxm ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[https://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>	+	[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[https://omim.org/entry/608106 608106]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.	+	[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Amzel~~, L M~~]]	+	[[Category: Amzel LM]]
-	[[Category: Bianchet~~, M A~~]]	+	[[Category: Bianchet MA]]
-	[[Category: Ghung, S]]	+	[[Category: Ghung S]]
-	[[Category: Krosky~~, D J~~]]	+	[[Category: Krosky DJ]]
-	[[Category: Seiple, L]]	+	[[Category: Seiple L]]
-	[[Category: Stivers~~, J T]]~~	+	[[Category: Stivers JT]]
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Uracil]]~~	+
-	~~[[Category: Uracil dna glycosylase~~]]	+

OCA at 07:23, 24 March 2021

OCA — Wed, 24 Mar 2021 07:23:52 GMT

←Older revision		Revision as of 07:23, 24 March 2021
Line 1:		Line 1:

	==Complex of UNG2 and a small Molecule synthetic Inhibitor==		==Complex of UNG2 and a small Molecule synthetic Inhibitor==
-	<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>	+	<StructureSection load='2hxm' size='340' side='right'caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hxm]] is a 1 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2HXM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HXM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HXM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([https://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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [~~http~~://pdbe.org/2hxm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2hxm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2hxm 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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [https://pdbe.org/2hxm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [https://www.ebi.ac.uk/pdbsum/2hxm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hxm ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[~~http~~://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[~~http~~://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>	+	[[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[https://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.	+	[[https://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[DNA glycosylase\|DNA glycosylase]]	+	*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]
	[[Category: Bianchet, M A]]		[[Category: Bianchet, M A]]

OCA at 10:26, 30 January 2019

OCA — Wed, 30 Jan 2019 10:26:55 GMT

←Older revision		Revision as of 10:26, 30 January 2019
Line 1:		Line 1:
		+
	==Complex of UNG2 and a small Molecule synthetic Inhibitor==		==Complex of UNG2 and a small Molecule synthetic Inhibitor==
	<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://pdbe.org/2hxm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm 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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://pdbe.org/2hxm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2hxm ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hx/2hxm_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hx/2hxm_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>
	</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=2hxm ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 33:		Line 34:
	==See Also==		==See Also==
	*[[DNA glycosylase\|DNA glycosylase]]		*[[DNA glycosylase\|DNA glycosylase]]
-	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]
	== References ==		== References ==
	<references/>		<references/>
Line 44:		Line 44:
	[[Category: Krosky, D J]]		[[Category: Krosky, D J]]
	[[Category: Seiple, L]]		[[Category: Seiple, L]]
-	[[Category: Stivers,J T]]	+	[[Category: Stivers, J T]]
	[[Category: Dna repair]]		[[Category: Dna repair]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Uracil]]		[[Category: Uracil]]
	[[Category: Uracil dna glycosylase]]		[[Category: Uracil dna glycosylase]]

OCA at 14:54, 11 September 2015

OCA — Fri, 11 Sep 2015 14:54:36 GMT

←Older revision		Revision as of 14:54, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HXM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hxm]] is a 1 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HXM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm 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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://pdbe.org/2hxm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm PDBsum]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 29:		Line 29:
	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 2hxm" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]
	[[Category: Bianchet, M A]]		[[Category: Bianchet, M A]]

OCA at 09:30, 16 January 2015

OCA — Fri, 16 Jan 2015 09:30:16 GMT

←Older revision		Revision as of 09:30, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HXM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HXM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm 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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Disease ==		== Disease ==
	[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[http://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>		[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[http://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Amzel, L M.]]	+	[[Category: Amzel, L M]]
-	[[Category: Bianchet, M A.]]	+	[[Category: Bianchet, M A]]
-	[[Category: Ghung, S.]]	+	[[Category: Ghung, S]]
-	[[Category: Krosky, D J.]]	+	[[Category: Krosky, D J]]
-	[[Category: Seiple, L.]]	+	[[Category: Seiple, L]]
-	[[Category: Stivers,J T.]]	+	[[Category: Stivers,J T]]
	[[Category: Dna repair]]		[[Category: Dna repair]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Uracil]]		[[Category: Uracil]]
	[[Category: Uracil dna glycosylase]]		[[Category: Uracil dna glycosylase]]

OCA at 10:59, 3 October 2014

OCA — Fri, 03 Oct 2014 10:59:33 GMT

←Older revision		Revision as of 10:59, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_2hxm~~\| ~~PDB~~=2hxm \| ~~SCENE~~= }}	+	==Complex of UNG2 and a small Molecule synthetic Inhibitor==
-	===~~Complex~~ of ~~UNG2~~ and a ~~small Molecule synthetic Inhibitor~~===	+	<StructureSection load='2hxm' size='340' side='right' caption='[[2hxm]], [[Resolution\|resolution]] 1.30Å' scene=''>
-	~~{{ABSTRACT_PUBMED_17062624}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2hxm]] is a 1 chain structure with 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=2HXM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HXM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=302:4-[(1E,7E)-8-(2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDIN-4-YL)-3,6-DIOXA-2,7-DIAZAOCTA-1,7-DIEN-1-YL]BENZOIC+ACID'>302</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UNG, DGU, UNG15 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2hxm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hxm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hxm RCSB], [http://www.ebi.ac.uk/pdbsum/2hxm PDBsum]</span></td></tr>
		+	<table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[http://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref> <ref>PMID:15967827</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.
		+	== 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/hx/2hxm_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 ==
		+	Human nuclear uracil DNA glycosylase (UNG2) is a cellular DNA repair enzyme that is essential for a number of diverse biological phenomena ranging from antibody diversification to B-cell lymphomas and type-1 human immunodeficiency virus infectivity. During each of these processes, UNG2 recognizes uracilated DNA and excises the uracil base by flipping it into the enzyme active site. We have taken advantage of the extrahelical uracil recognition mechanism to build large small-molecule libraries in which uracil is tethered via flexible alkane linkers to a collection of secondary binding elements. This high-throughput synthesis and screening approach produced two novel uracil-tethered inhibitors of UNG2, the best of which was crystallized with the enzyme. Remarkably, this inhibitor mimics the crucial hydrogen bonding and electrostatic interactions previously observed in UNG2 complexes with damaged uracilated DNA. Thus, the environment of the binding site selects for library ligands that share these DNA features. This is a general approach to rapid discovery of inhibitors of enzymes that recognize extrahelical damaged bases.

-	~~==Disease==~~	+	Mimicking damaged DNA with a small molecule inhibitor of human UNG2.,Krosky DJ, Bianchet MA, Seiple L, Chung S, Amzel LM, Stivers JT Nucleic Acids Res. 2006;34(20):5872-9. Epub 2006 Oct 24. PMID:17062624<ref>PMID:17062624</ref>
-	~~[[http://www~~.~~uniprot~~.~~org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5~~ (~~HIGM5~~) ~~[MIM~~:~~[http://omim~~.~~org/entry/608106 608106]]~~. ~~A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>~~PMID:~~12958596</ref>~~<ref>PMID:~~15967827~~</ref>	+

-	~~==Function==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[http:~~/~~/www~~.~~uniprot~~.~~org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result~~ of ~~misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine~~.	+	</div>
-		+
-	~~==About this Structure==~~	+
-	~~[[2hxm]] is a 1 chain structure with 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=2HXM OCA].~~	+

	==See Also==		==See Also==
-	*[[DNA ~~glycosylate~~\|DNA ~~glycosylate~~]]	+	*[[DNA glycosylase\|DNA glycosylase]]
-		+	*[[Uracil-DNA glycosylase\|Uracil-DNA glycosylase]]
-	==~~Reference~~==	+	== References ==
-	~~<ref group="xtra">PMID:017062624</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Amzel, L M.]]		[[Category: Amzel, L M.]]

OCA at 20:18, 24 March 2013

OCA — Sun, 24 Mar 2013 20:18:52 GMT

←Older revision		Revision as of 20:18, 24 March 2013
Line 1:		Line 1:
-	[[Image:2hxm.png\|left\|200px]]
-
	{{STRUCTURE_2hxm\| PDB=2hxm \| SCENE= }}		{{STRUCTURE_2hxm\| PDB=2hxm \| SCENE= }}
-
	===Complex of UNG2 and a small Molecule synthetic Inhibitor===		===Complex of UNG2 and a small Molecule synthetic Inhibitor===
		+	{{ABSTRACT_PUBMED_17062624}}

-	~~{{ABSTRACT_PUBMED_17062624}}~~	+	==Disease==
		+	[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Defects in UNG are a cause of immunodeficiency with hyper-IgM type 5 (HIGM5) [MIM:[http://omim.org/entry/608106 608106]]. A rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.<ref>PMID:12958596</ref><ref>PMID:15967827</ref>
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/UNG_HUMAN UNG_HUMAN]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine.

	==About this Structure==		==About this Structure==
Line 14:		Line 16:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:017062624</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017062624</ref><references group="xtra"/><references/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Amzel, L M.]]		[[Category: Amzel, L M.]]

OCA at 19:44, 20 October 2012

OCA — Sat, 20 Oct 2012 19:44:00 GMT

←Older revision		Revision as of 19:44, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2hxm]] is a 1 chain structure ~~of [[DNA glycosylate]]~~ with 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=2HXM OCA].	+	[[2hxm]] is a 1 chain structure with 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=2HXM OCA].

	==See Also==		==See Also==

OCA: Protected "2hxm" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 08:18:07 GMT

Protected "2hxm" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:18, 27 July 2012

OCA at 08:18, 27 July 2012

OCA — Fri, 27 Jul 2012 08:18:05 GMT

←Older revision		Revision as of 08:18, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2hxm.png\|left\|200px]]		[[Image:2hxm.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2hxm", 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_2hxm\| PDB=2hxm \| SCENE= }}		{{STRUCTURE_2hxm\| PDB=2hxm \| SCENE= }}

	===Complex of UNG2 and a small Molecule synthetic Inhibitor===		===Complex of UNG2 and a small Molecule synthetic Inhibitor===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17062624}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17062624 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17062624}}		{{ABSTRACT_PUBMED_17062624}}

	==About this Structure==		==About this Structure==
-	~~2HXM~~ is a 1 chain 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=2HXM OCA].	+	[[2hxm]] is a 1 chain structure of [[DNA glycosylate]] with 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=2HXM OCA].
		+
		+	==See Also==
		+	*[[DNA glycosylate\|DNA glycosylate]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17062624~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017062624</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Amzel, L M.]]		[[Category: Amzel, L M.]]
Line 32:		Line 23:
	[[Category: Stivers,J T.]]		[[Category: Stivers,J T.]]
	[[Category: Dna repair]]		[[Category: Dna repair]]
		+	[[Category: Hydrolase]]
	[[Category: Uracil]]		[[Category: Uracil]]
	[[Category: Uracil dna glycosylase]]		[[Category: Uracil dna glycosylase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 00:55:06 2009''