3pr4 - Revision history

OCA at 09:59, 6 September 2023

2023-09-06T09:59:35Z

← Older revision		Revision as of 09:59, 6 September 2023
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	<StructureSection load='3pr4' size='340' side='right'caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='3pr4' size='340' side='right'caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_35091 Atcc 35091~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus Saccharolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ATP:ADENOSINE-5~~-~~TRIPHOSPHATE'>ATP</scene>~~, ~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.65Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>dbh, dpo4, SSO2448 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~2287 ATCC 35091])</td~~><~~/tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [https://pdbe.org/3pr4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [https://www.ebi.ac.uk/pdbsum/3pr4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pr4 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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [https://pdbe.org/3pr4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [https://www.ebi.ac.uk/pdbsum/3pr4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pr4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~DPO4_SULSO DPO4_SULSO]~~] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.~~[HAMAP-Rule:MF_01113]~~		[https://www.uniprot.org/uniprot/DPO4_SACS2 DPO4_SACS2] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.
	<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 3pr4" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pr4" 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 35091]]~~
	~~[[Category: DNA-directed DNA polymerase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Kirouac, K N~~]]		[[Category: Saccharolobus solfataricus]]
	[[Category: ~~Ling, H~~]]		[[Category: Kirouac KN]]
	[[Category: ~~Suo, Z~~]]		[[Category: Ling H]]
	[[Category: ~~Dna polymerase]]~~		[[Category: Suo Z]]
	~~[[Category: Transferase-dna complex~~]]

OCA at 08:51, 25 May 2022

2022-05-25T08:51:30Z

← Older revision		Revision as of 08:51, 25 May 2022
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	==Dpo4 Y12A mutant incorporating dADP opposite template dT==		==Dpo4 Y12A mutant incorporating dADP opposite template dT==
	<StructureSection load='3pr4' size='340' side='right' caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='3pr4' size='340' side='right'caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_35091 Atcc 35091]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_35091 Atcc 35091]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dbh, dpo4, SSO2448 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 ATCC 35091])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dbh, dpo4, SSO2448 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 ATCC 35091])</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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [~~http~~://pdbe.org/3pr4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pr4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pr4 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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [https://pdbe.org/3pr4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [https://www.ebi.ac.uk/pdbsum/3pr4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pr4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/DPO4_SULSO DPO4_SULSO]] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.[HAMAP-Rule:MF_01113]		[[https://www.uniprot.org/uniprot/DPO4_SULSO DPO4_SULSO]] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.[HAMAP-Rule:MF_01113]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3pr4" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pr4" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[DNA polymerase\|DNA polymerase]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 26:
	[[Category: Atcc 35091]]		[[Category: Atcc 35091]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
			[[Category: Large Structures]]
	[[Category: Kirouac, K N]]		[[Category: Kirouac, K N]]
	[[Category: Ling, H]]		[[Category: Ling, H]]

OCA at 11:23, 4 August 2016

2016-08-04T11:23:42Z

← Older revision		Revision as of 11:23, 4 August 2016
Line 1:		Line 1:

	==Dpo4 Y12A mutant incorporating dADP opposite template dT==		==Dpo4 Y12A mutant incorporating dADP opposite template dT==
	<StructureSection load='3pr4' size='340' side='right' caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='3pr4' size='340' side='right' caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sulfolobus_solfataricus Sulfolobus solfataricus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_35091 Atcc 35091]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dbh, dpo4, SSO2448 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 ~~Sulfolobus solfataricus~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dbh, dpo4, SSO2448 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 ATCC 35091])</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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [http://www.ebi.ac.uk/pdbsum/3pr4 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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [http://pdbe.org/3pr4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [http://www.ebi.ac.uk/pdbsum/3pr4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pr4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/~~DPO42_SULSO DPO42_SULSO~~]] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.[HAMAP-Rule:MF_01113]		[[http://www.uniprot.org/uniprot/DPO4_SULSO DPO4_SULSO]] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.[HAMAP-Rule:MF_01113]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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 3pr4" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Atcc 35091]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	~~[[Category: Sulfolobus solfataricus]]~~
	[[Category: Kirouac, K N]]		[[Category: Kirouac, K N]]
	[[Category: Ling, H]]		[[Category: Ling, H]]

OCA at 13:50, 24 December 2014

2014-12-24T13:50:43Z

← Older revision		Revision as of 13:50, 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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [http://www.ebi.ac.uk/pdbsum/3pr4 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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [http://www.ebi.ac.uk/pdbsum/3pr4 PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/DPO42_SULSO DPO42_SULSO]] Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. It is involved in translesional synthesis.[HAMAP-Rule:MF_01113]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 13:04, 9 December 2014

2014-12-09T13:04:19Z

← Older revision		Revision as of 13:04, 9 December 2014
Line 1:		Line 1:
	[[~~Image~~:~~3pr4~~.~~png~~\|~~left~~\|~~200px~~]]		==Dpo4 Y12A mutant incorporating dADP opposite template dT==
			<StructureSection load='3pr4' size='340' side='right' caption='[[3pr4]], [[Resolution\|resolution]] 2.65Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3pr4]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PR4 FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dbh, dpo4, SSO2448 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 Sulfolobus solfataricus])</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=3pr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pr4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pr4 RCSB], [http://www.ebi.ac.uk/pdbsum/3pr4 PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The ability of DNA polymerases to differentiate between ribonucleotides and deoxribonucleotides is fundamental to the accurate replication and maintenance of an organism's genome. The active sites of Y-family DNA polymerases are highly solvent accessible, yet these enzymes still maintain a high selectivity towards deoxyribonucleotides. Here, we biochemically demonstrate that a single active-site mutation (Y12A) in Dpo4, a model Y-family DNA polymerase, causes both a dramatic loss of ribonucleotide discrimination and a decrease in nucleotide incorporation efficiency. We also determined two ternary crystal structures of the Dpo4 Y12A mutant incorporating either dATP or ATP nucleotides opposite a template dT base. Interestingly, both dATP and ATP were hydrolyzed to dADP and ADP, respectively. In addition, the dADP and ADP molecules adopt a similar conformation and position at the polymerase active site to a ddADP molecule in the ternary crystal structure of wild-type Dpo4. The Y12A mutant loses stacking interactions with the deoxyribose of dNTP, which destabilizes the binding of incoming nucleotides. The mutation also opens a space to accommodate the 2'-OH group of the ribose of NTP in the polymerase active site. The structural change leads to the reduction in deoxynucleotide incorporation efficiency and allows ribonucleotide incorporation.

	~~{{STRUCTURE_3pr4\| PDB=3pr4 \| SCENE= }}~~		Structural Mechanism of Ribonucleotide Discrimination by a Y-Family DNA Polymerase.,Kirouac KN, Suo Z, Ling H J Mol Biol. 2011 Feb 3. PMID:21295588<ref>PMID:21295588</ref>

	~~===Dpo4 Y12A mutant incorporating dADP opposite template dT===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_21295588}}~~

	~~==About this Structure==~~
	~~[[3pr4]] is~~ a ~~3 chain structure with sequence from [http://en.wikipedia~~.~~org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann.ac.il/oca-bin~~/~~ocashort?id=3PR4 OCA].~~

	==See Also==		==See Also==
	*[[DNA polymerase\|DNA polymerase]]		*[[DNA polymerase\|DNA polymerase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:021295588<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Sulfolobus solfataricus]]		[[Category: Sulfolobus solfataricus]]
	[[Category: Kirouac, K N.]]		[[Category: Kirouac, K N]]
	[[Category: Ling, H.]]		[[Category: Ling, H]]
	[[Category: Suo, Z.]]		[[Category: Suo, Z]]
	[[Category: Dna polymerase]]		[[Category: Dna polymerase]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]

OCA at 06:10, 20 October 2012

2012-10-20T06:10:55Z

← Older revision		Revision as of 06:10, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[3pr4]] is a 3 chain structure ~~of [[DNA polymerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA].		[[3pr4]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA].

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

OCA at 12:22, 25 July 2012

2012-07-25T12:22:25Z

← Older revision		Revision as of 12:22, 25 July 2012
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	[[Image:3pr4.png\|left\|200px]]		[[Image:3pr4.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3pr4", 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_3pr4\| PDB=3pr4 \| SCENE= }}		{{STRUCTURE_3pr4\| PDB=3pr4 \| SCENE= }}

	===Dpo4 Y12A mutant incorporating dADP opposite template dT===		===Dpo4 Y12A mutant incorporating dADP opposite template dT===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_21295588}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 21295588 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_21295588}}		{{ABSTRACT_PUBMED_21295588}}

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	==See Also==		==See Also==
	*[[DNA polymerase]]		*[[DNA polymerase\|DNA polymerase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~21295588~~</ref><references group="xtra"/>		<ref group="xtra">PMID:021295588</ref><references group="xtra"/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Sulfolobus solfataricus]]		[[Category: Sulfolobus solfataricus]]
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	[[Category: Ling, H.]]		[[Category: Ling, H.]]
	[[Category: Suo, Z.]]		[[Category: Suo, Z.]]
			[[Category: Dna polymerase]]
			[[Category: Transferase-dna complex]]

OCA at 06:26, 23 March 2011

2011-03-23T06:26:13Z

← Older revision		Revision as of 06:26, 23 March 2011
Line 1:		Line 1:
	[[Image:3pr4.~~jpg~~\|left\|200px]]		[[Image:3pr4.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Dpo4 Y12A mutant incorporating dADP opposite template dT===		===Dpo4 Y12A mutant incorporating dADP opposite template dT===


			<!--
			The line below this paragraph, {{ABSTRACT_PUBMED_21295588}}, adds the Publication Abstract to the page
			(as it appears on PubMed at http://www.pubmed.gov), where 21295588 is the PubMed ID number.
			-->
			{{ABSTRACT_PUBMED_21295588}}

	==About this Structure==		==About this Structure==
	[[3pr4]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA].		[[3pr4]] is a 3 chain structure of [[DNA polymerase]] with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PR4 OCA].

			==See Also==
			*[[DNA polymerase]]

	==Reference==		==Reference==

OCA at 09:51, 23 February 2011

2011-02-23T09:51:45Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:3pr4.jpg|left|200px]]
-The entry 3pr4 is ON HOLD  until Paper Publication
+<!--
-Authors: Kirouac, K.N., Suo, Z., Ling, H.
+===Dpo4 Y12A mutant incorporating dADP opposite template dT===
-Description: Dpo4 Y12A mutant incorporating dADP opposite template dT

OCA: Protected "3pr4" [edit=sysop:move=sysop]

2010-12-29T18:15:04Z

Protected "3pr4" [edit=sysop:move=sysop]

← Older revision	Revision as of 18:15, 29 December 2010
(No difference)