3qe9 - Revision history

OCA at 10:47, 21 February 2024

OCA — Wed, 21 Feb 2024 10:47:13 GMT

←Older revision		Revision as of 10:47, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3qe9' size='340' side='right'caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='3qe9' size='340' side='right'caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 2.51Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[3qea\|3qea]], [[3qeb\|3qeb]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">EXO1, EXOI, HEX1 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [https://pdbe.org/3qe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [https://www.ebi.ac.uk/pdbsum/3qe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qe9 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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [https://pdbe.org/3qe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [https://www.ebi.ac.uk/pdbsum/3qe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/EXO1_HUMAN EXO1_HUMAN]] 5'->3' double-stranded DNA exonuclease which may also possess a cryptic 3'->5' double-stranded DNA exonuclease activity. Functions in DNA mismatch repair (MMR) to excise mismatch-containing DNA tracts directed by strand breaks located either 5' or 3' to the mismatch. Also exhibits endonuclease activity against 5'-overhanging flap structures similar to those generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Required for somatic hypermutation (SHM) and class switch recombination (CSR) of immunoglobulin genes. Essential for male and female meiosis.<ref>PMID:10364235</ref> <ref>PMID:10608837</ref> <ref>PMID:11809771</ref> <ref>PMID:11842105</ref> <ref>PMID:12414623</ref> <ref>PMID:12704184</ref> <ref>PMID:14636568</ref> <ref>PMID:14676842</ref> <ref>PMID:15225546</ref> <ref>PMID:15886194</ref> <ref>PMID:16143102</ref> <ref>PMID:9685493</ref>	+	[https://www.uniprot.org/uniprot/EXO1_HUMAN EXO1_HUMAN] 5'->3' double-stranded DNA exonuclease which may also possess a cryptic 3'->5' double-stranded DNA exonuclease activity. Functions in DNA mismatch repair (MMR) to excise mismatch-containing DNA tracts directed by strand breaks located either 5' or 3' to the mismatch. Also exhibits endonuclease activity against 5'-overhanging flap structures similar to those generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Required for somatic hypermutation (SHM) and class switch recombination (CSR) of immunoglobulin genes. Essential for male and female meiosis.<ref>PMID:10364235</ref> <ref>PMID:10608837</ref> <ref>PMID:11809771</ref> <ref>PMID:11842105</ref> <ref>PMID:12414623</ref> <ref>PMID:12704184</ref> <ref>PMID:14636568</ref> <ref>PMID:14676842</ref> <ref>PMID:15225546</ref> <ref>PMID:15886194</ref> <ref>PMID:16143102</ref> <ref>PMID:9685493</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Human exonuclease 1 (hExo1) plays important roles in DNA repair and recombination processes that maintain genomic integrity. It is a member of the 5' structure-specific nuclease family of exonucleases and endonucleases that includes FEN-1, XPG, and GEN1. We present structures of hExo1 in complex with a DNA substrate, followed by mutagenesis studies, and propose a common mechanism by which this nuclease family recognizes and processes diverse DNA structures. hExo1 induces a sharp bend in the DNA at nicks or gaps. Frayed 5' ends of nicked duplexes resemble flap junctions, unifying the mechanisms of endo- and exonucleolytic processing. Conformational control of a mobile region in the catalytic site suggests a mechanism for allosteric regulation by binding to protein partners. The relative arrangement of substrate binding sites in these enzymes provides an elegant solution to a complex geometrical puzzle of substrate recognition and processing.	+
-		+
-	Structures of human exonuclease 1 DNA complexes suggest a unified mechanism for nuclease family.,Orans J, McSweeney EA, Iyer RR, Hast MA, Hellinga HW, Modrich P, Beese LS Cell. 2011 Apr 15;145(2):212-23. PMID:21496642<ref>PMID:21496642</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3qe9" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==
Line 27:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Beese~~, L S~~]]	+	[[Category: Beese LS]]
-	[[Category: Hast~~, M A~~]]	+	[[Category: Hast MA]]
-	[[Category: Hellinga~~, H W~~]]	+	[[Category: Hellinga HW]]
-	[[Category: Iyer~~, R R~~]]	+	[[Category: Iyer RR]]
-	[[Category: McSweeney~~, E A~~]]	+	[[Category: McSweeney EA]]
-	[[Category: Modrich, P]]	+	[[Category: Modrich P]]
-	[[Category: Orans, J]]	+	[[Category: Orans J]]
-	~~[[Category: Exonuclease]]~~	+
-	~~[[Category: Hydrolase-dna complex~~]]	+

OCA at 06:04, 8 June 2022

OCA — Wed, 08 Jun 2022 06:04:49 GMT

←Older revision		Revision as of 06:04, 8 June 2022
Line 1:		Line 1:

	==Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)==		==Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)==
-	<StructureSection load='3qe9' size='340' side='right' caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>	+	<StructureSection load='3qe9' size='340' side='right'caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qea\|3qea]], [[3qeb\|3qeb]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3qea\|3qea]], [[3qeb\|3qeb]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">EXO1, EXOI, HEX1 ([~~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">EXO1, EXOI, HEX1 ([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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [~~http~~://pdbe.org/3qe9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3qe9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3qe9 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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [https://pdbe.org/3qe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [https://www.ebi.ac.uk/pdbsum/3qe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/EXO1_HUMAN EXO1_HUMAN]] 5'->3' double-stranded DNA exonuclease which may also possess a cryptic 3'->5' double-stranded DNA exonuclease activity. Functions in DNA mismatch repair (MMR) to excise mismatch-containing DNA tracts directed by strand breaks located either 5' or 3' to the mismatch. Also exhibits endonuclease activity against 5'-overhanging flap structures similar to those generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Required for somatic hypermutation (SHM) and class switch recombination (CSR) of immunoglobulin genes. Essential for male and female meiosis.<ref>PMID:10364235</ref> <ref>PMID:10608837</ref> <ref>PMID:11809771</ref> <ref>PMID:11842105</ref> <ref>PMID:12414623</ref> <ref>PMID:12704184</ref> <ref>PMID:14636568</ref> <ref>PMID:14676842</ref> <ref>PMID:15225546</ref> <ref>PMID:15886194</ref> <ref>PMID:16143102</ref> <ref>PMID:9685493</ref>	+	[[https://www.uniprot.org/uniprot/EXO1_HUMAN EXO1_HUMAN]] 5'->3' double-stranded DNA exonuclease which may also possess a cryptic 3'->5' double-stranded DNA exonuclease activity. Functions in DNA mismatch repair (MMR) to excise mismatch-containing DNA tracts directed by strand breaks located either 5' or 3' to the mismatch. Also exhibits endonuclease activity against 5'-overhanging flap structures similar to those generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Required for somatic hypermutation (SHM) and class switch recombination (CSR) of immunoglobulin genes. Essential for male and female meiosis.<ref>PMID:10364235</ref> <ref>PMID:10608837</ref> <ref>PMID:11809771</ref> <ref>PMID:11842105</ref> <ref>PMID:12414623</ref> <ref>PMID:12704184</ref> <ref>PMID:14636568</ref> <ref>PMID:14676842</ref> <ref>PMID:15225546</ref> <ref>PMID:15886194</ref> <ref>PMID:16143102</ref> <ref>PMID:9685493</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:

	==See Also==		==See Also==
-	*[[Exonuclease\|Exonuclease]]	+	*[[Exonuclease 3D structures\|Exonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 28:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Beese, L S]]		[[Category: Beese, L S]]
	[[Category: Hast, M A]]		[[Category: Hast, M A]]

OCA at 10:12, 4 August 2016

OCA — Thu, 04 Aug 2016 10:12:47 GMT

←Older revision		Revision as of 10:12, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)==		==Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)==
	<StructureSection load='3qe9' size='340' side='right' caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='3qe9' size='340' side='right' caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qea\|3qea]], [[3qeb\|3qeb]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qea\|3qea]], [[3qeb\|3qeb]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">EXO1, EXOI, HEX1 ([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">EXO1, EXOI, HEX1 ([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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [http://www.ebi.ac.uk/pdbsum/3qe9 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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [http://pdbe.org/3qe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [http://www.ebi.ac.uk/pdbsum/3qe9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3qe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3qe9" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Beese, L S]]		[[Category: Beese, L S]]
	[[Category: Hast, M A]]		[[Category: Hast, M A]]

OCA at 08:46, 24 December 2014

OCA — Wed, 24 Dec 2014 08:46:09 GMT

←Older revision		Revision as of 08:46, 24 December 2014
Line 8:		Line 8:
	<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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [http://www.ebi.ac.uk/pdbsum/3qe9 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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [http://www.ebi.ac.uk/pdbsum/3qe9 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/EXO1_HUMAN EXO1_HUMAN]] 5'->3' double-stranded DNA exonuclease which may also possess a cryptic 3'->5' double-stranded DNA exonuclease activity. Functions in DNA mismatch repair (MMR) to excise mismatch-containing DNA tracts directed by strand breaks located either 5' or 3' to the mismatch. Also exhibits endonuclease activity against 5'-overhanging flap structures similar to those generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Required for somatic hypermutation (SHM) and class switch recombination (CSR) of immunoglobulin genes. Essential for male and female meiosis.<ref>PMID:10364235</ref> <ref>PMID:10608837</ref> <ref>PMID:11809771</ref> <ref>PMID:11842105</ref> <ref>PMID:12414623</ref> <ref>PMID:12704184</ref> <ref>PMID:14636568</ref> <ref>PMID:14676842</ref> <ref>PMID:15225546</ref> <ref>PMID:15886194</ref> <ref>PMID:16143102</ref> <ref>PMID:9685493</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 11:28, 9 December 2014

OCA — Tue, 09 Dec 2014 11:28:05 GMT

←Older revision		Revision as of 11:28, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3qe9.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)==
		+	<StructureSection load='3qe9' size='340' side='right' caption='[[3qe9]], [[Resolution\|resolution]] 2.51Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3qe9]] is a 6 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=3QE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QE9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3qea\|3qea]], [[3qeb\|3qeb]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">EXO1, EXOI, HEX1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=3qe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qe9 RCSB], [http://www.ebi.ac.uk/pdbsum/3qe9 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human exonuclease 1 (hExo1) plays important roles in DNA repair and recombination processes that maintain genomic integrity. It is a member of the 5' structure-specific nuclease family of exonucleases and endonucleases that includes FEN-1, XPG, and GEN1. We present structures of hExo1 in complex with a DNA substrate, followed by mutagenesis studies, and propose a common mechanism by which this nuclease family recognizes and processes diverse DNA structures. hExo1 induces a sharp bend in the DNA at nicks or gaps. Frayed 5' ends of nicked duplexes resemble flap junctions, unifying the mechanisms of endo- and exonucleolytic processing. Conformational control of a mobile region in the catalytic site suggests a mechanism for allosteric regulation by binding to protein partners. The relative arrangement of substrate binding sites in these enzymes provides an elegant solution to a complex geometrical puzzle of substrate recognition and processing.

-	~~{{STRUCTURE_3qe9\| PDB=3qe9 \| SCENE= }}~~	+	Structures of human exonuclease 1 DNA complexes suggest a unified mechanism for nuclease family.,Orans J, McSweeney EA, Iyer RR, Hast MA, Hellinga HW, Modrich P, Beese LS Cell. 2011 Apr 15;145(2):212-23. PMID:21496642<ref>PMID:21496642</ref>

-	~~===Crystal structure~~ of ~~human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21496642}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3qe9]] is a 6 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=3QE9 OCA].~~	+

	==See Also==		==See Also==
	*[[Exonuclease\|Exonuclease]]		*[[Exonuclease\|Exonuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021496642<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Beese, L S.]]	+	[[Category: Beese, L S]]
-	[[Category: Hast, M A.]]	+	[[Category: Hast, M A]]
-	[[Category: Hellinga, H W.]]	+	[[Category: Hellinga, H W]]
-	[[Category: Iyer, R R.]]	+	[[Category: Iyer, R R]]
-	[[Category: McSweeney, E A.]]	+	[[Category: McSweeney, E A]]
-	[[Category: Modrich, P.]]	+	[[Category: Modrich, P]]
-	[[Category: Orans, J.]]	+	[[Category: Orans, J]]
	[[Category: Exonuclease]]		[[Category: Exonuclease]]
	[[Category: Hydrolase-dna complex]]		[[Category: Hydrolase-dna complex]]

OCA at 05:54, 20 October 2012

OCA — Sat, 20 Oct 2012 05:54:39 GMT

←Older revision		Revision as of 05:54, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3qe9]] is a 6 chain structure ~~of [[Exonuclease]]~~ 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=3QE9 OCA].	+	[[3qe9]] is a 6 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=3QE9 OCA].

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

OCA at 11:30, 25 July 2012

OCA — Wed, 25 Jul 2012 11:30:51 GMT

←Older revision		Revision as of 11:30, 25 July 2012
Line 1:		Line 1:
	[[Image:3qe9.png\|left\|200px]]		[[Image:3qe9.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3qe9", 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_3qe9\| PDB=3qe9 \| SCENE= }}		{{STRUCTURE_3qe9\| PDB=3qe9 \| SCENE= }}

	===Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===		===Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21496642}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21496642 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21496642}}		{{ABSTRACT_PUBMED_21496642}}

	==About this Structure==		==About this Structure==
-	[[3qe9]] is a 6 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=3QE9 OCA].	+	[[3qe9]] is a 6 chain structure of [[Exonuclease]] 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=3QE9 OCA].
		+
		+	==See Also==
		+	*[[Exonuclease\|Exonuclease]]

	==Reference==		==Reference==
Line 31:		Line 23:
	[[Category: Modrich, P.]]		[[Category: Modrich, P.]]
	[[Category: Orans, J.]]		[[Category: Orans, J.]]
		+	[[Category: Exonuclease]]
		+	[[Category: Hydrolase-dna complex]]

OCA at 06:13, 4 May 2011

OCA — Wed, 04 May 2011 06:13:01 GMT

←Older revision		Revision as of 06:13, 4 May 2011
Line 1:		Line 1:
-	[[Image:3qe9.~~jpg~~\|left\|200px]]	+	[[Image:3qe9.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===		===Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21496642}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21496642 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21496642}}

	==About this Structure==		==About this Structure==
	[[3qe9]] is a 6 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=3QE9 OCA].		[[3qe9]] is a 6 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=3QE9 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021496642</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Beese, L S.]]		[[Category: Beese, L S.]]

OCA at 10:51, 21 April 2011

OCA — Thu, 21 Apr 2011 10:51:40 GMT

←Older revision		Revision as of 10:51, 21 April 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3qe9.jpg\|left\|200px]]

-	The ~~entry 3qe9~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3qe9", 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_3qe9\| PDB=3qe9 \| SCENE= }}

-	~~Authors: Orans, J., McSweeney, E.A., Iyer, R.R., Hast, M.A., Hellinga, H.W., Modrich, P., Beese, L.S.~~	+	===Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)===

-	~~Description: Crystal~~ structure ~~of human exonuclease 1 Exo1 (D173A) in complex~~ with ~~DNA (complex I)~~	+
		+	==About this Structure==
		+	[[3qe9]] is a 6 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=3QE9 OCA].
		+	[[Category: Homo sapiens]]
		+	[[Category: Beese, L S.]]
		+	[[Category: Hast, M A.]]
		+	[[Category: Hellinga, H W.]]
		+	[[Category: Iyer, R R.]]
		+	[[Category: McSweeney, E A.]]
		+	[[Category: Modrich, P.]]
		+	[[Category: Orans, J.]]

OCA at 08:35, 6 April 2011

OCA — Wed, 06 Apr 2011 08:35:20 GMT

←Older revision		Revision as of 08:35, 6 April 2011
Line 3:		Line 3:
	The entry 3qe9 is ON HOLD until Paper Publication		The entry 3qe9 is ON HOLD until Paper Publication

-	Authors: Orans, J., McSweeney, E.A., Hast, M.A., Beese, L.S.	+	Authors: Orans, J., McSweeney, E.A., Iyer, R.R., Hast, M.A., Hellinga, H.W., Modrich, P., Beese, L.S.

-	Description: ~~Human~~ exonuclease 1 D173A ~~mutant~~ with DNA	+	Description: Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)