4yfu - Revision history

OCA at 12:51, 17 January 2024

OCA — Wed, 17 Jan 2024 12:51:11 GMT

←Older revision		Revision as of 12:51, 17 January 2024
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	<StructureSection load='4yfu' size='340' side='right'caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4yfu' size='340' side='right'caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_12980 Atcc 12980~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YFU FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GLC:ALPHA~~-~~D-GLUCOSE'>GLC</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TTP:THYMIDINE-~~5~~-TRIPHOSPHATE'>TTP</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</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]] 1.5Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>
-	<~~tr id~~='~~activity~~'><~~td class="sblockLbl"~~><~~b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"~~><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/DNA~~-~~directed_DNA_polymerase DNA~~-~~directed DNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7]~~ </~~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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [https://pdbe.org/4yfu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [https://www.ebi.ac.uk/pdbsum/4yfu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yfu 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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [https://pdbe.org/4yfu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [https://www.ebi.ac.uk/pdbsum/4yfu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yfu ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/E1C9K5_GEOSE E1C9K5_GEOSE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 12980]]~~	+	[[Category: Geobacillus stearothermophilus]]
-	~~[[Category: DNA-directed DNA polymerase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Wu, E Y~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Protein-dna complex]]~~	+	[[Category: Wu EY]]
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 10:09, 13 April 2022

OCA — Wed, 13 Apr 2022 10:09:35 GMT

←Older revision		Revision as of 10:09, 13 April 2022
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	<StructureSection load='4yfu' size='340' side='right'caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4yfu' size='340' side='right'caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4YFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YFU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~2DT~~:3-~~DEOXYTHYMIDINE~~-~~5-MONOPHOSPHATE~~'>~~2DT~~</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=~~SUC~~:~~SUCROSE~~'>~~SUC~~</scene>, <scene name='pdbligand=~~TTP~~:~~THYMIDINE-5-TRIPHOSPHATE~~'>~~TTP~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene></td></tr>
-	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [~~http~~://pdbe.org/4yfu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4yfu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4yfu 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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [https://pdbe.org/4yfu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [https://www.ebi.ac.uk/pdbsum/4yfu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yfu ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:37, 4 March 2020

OCA — Wed, 04 Mar 2020 07:37:33 GMT

←Older revision		Revision as of 07:37, 4 March 2020
Line 1:		Line 1:

	==Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP==		==Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP==
-	<StructureSection load='4yfu' size='340' side='right' caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='4yfu' size='340' side='right'caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YFU FirstGlance]. <br>		<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YFU FirstGlance]. <br>
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4yfu" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	[[Category: Atcc 12980]]		[[Category: Atcc 12980]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Wu, E Y]]		[[Category: Wu, E Y]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]

OCA at 17:52, 16 November 2017

OCA — Thu, 16 Nov 2017 17:52:22 GMT

←Older revision		Revision as of 17:52, 16 November 2017
Line 1:		Line 1:
		+
	==Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP==		==Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP==
	<StructureSection load='4yfu' size='340' side='right' caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4yfu' size='340' side='right' caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YFU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SUC:SUCROSE'>SUC</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SUC:SUCROSE'>SUC</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://pdbe.org/4yfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu 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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://pdbe.org/4yfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yfu ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 12980]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Wu, E Y]]		[[Category: Wu, E Y]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]

OCA at 06:34, 30 September 2015

OCA — Wed, 30 Sep 2015 06:34:43 GMT

←Older revision		Revision as of 06:34, 30 September 2015
Line 6:		Line 6:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu 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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://pdbe.org/4yfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 16:
	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 4yfu" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:52, 12 August 2015

OCA — Wed, 12 Aug 2015 08:52:57 GMT

←Older revision		Revision as of 08:52, 12 August 2015
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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu 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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	DNA polymerases must quickly and accurately distinguish between similar nucleic acids to form Watson-Crick base pairs and avoid DNA replication errors. Deoxynucleoside triphosphate (dNTP) binding to the DNA polymerase active site induces a large conformational change that is difficult to characterize experimentally on an atomic level. Here, we report an X-ray crystal structure of DNA polymerase I bound to DNA in the open conformation with a dNTP present in the active site. We use this structure to computationally simulate the open to closed transition of DNA polymerase in the presence of a Watson-Crick base pair. Our microsecond simulations allowed us to characterize the key steps involved in active site assembly, and propose the sequence of events involved in the prechemistry steps of DNA polymerase catalysis. They also reveal new features of the polymerase mechanism, such as a conserved histidine as a potential proton acceptor from the primer 3'-hydroxyl.
		+
		+	The Closing Mechanism of DNA Polymerase I at Atomic Resolution.,Miller BR 3rd, Beese LS, Parish CA, Wu EY Structure. 2015 Jul 21. pii: S0969-2126(15)00269-5. doi:, 10.1016/j.str.2015.06.016. PMID:26211612<ref>PMID:26211612</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:17, 22 July 2015

OCA — Wed, 22 Jul 2015 14:17:59 GMT

←Older revision		Revision as of 14:17, 22 July 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP==
-		+	<StructureSection load='4yfu' size='340' side='right' caption='[[4yfu]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~The entry~~ 4yfu is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4yfu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YFU FirstGlance]. <br>
-	~~Authors~~: ~~Wu, E~~.Y.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SUC:SUCROSE'>SUC</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>
-		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
-	~~Description~~: ~~Crystal structure of open Bacillus fragment~~ DNA ~~polymerase bound to~~ DNA ~~and dTTP~~	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=4yfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4yfu RCSB], [http://www.ebi.ac.uk/pdbsum/4yfu PDBsum]</span></td></tr>
-	[[Category: Wu, E.Y]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Wu, E Y]]
		+	[[Category: Protein-dna complex]]
		+	[[Category: Transferase-dna complex]]

OCA at 10:40, 18 March 2015

OCA — Wed, 18 Mar 2015 10:40:47 GMT

←Older revision		Revision as of 10:40, 18 March 2015
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4yfu is ON HOLD	+	The entry 4yfu is ON HOLD until Paper Publication

	Authors: Wu, E.Y.		Authors: Wu, E.Y.

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

OCA — Wed, 04 Mar 2015 10:26:01 GMT

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

←Older revision

Revision as of 10:26, 4 March 2015

OCA: New page: '''Unreleased structure''' The entry 4yfu is ON HOLD Authors: Wu, E.Y. Description: Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP [[Category: Unrelea...

OCA — Wed, 04 Mar 2015 10:26:00 GMT

New page: '''Unreleased structure''' The entry 4yfu is ON HOLD Authors: Wu, E.Y. Description: Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP [[Category: Unrelea...

New page

'''Unreleased structure'''

The entry 4yfu is ON HOLD

Authors: Wu, E.Y.

Description: Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP
[[Category: Unreleased Structures]]
[[Category: Wu, E.Y]]