3nhg - Revision history

OCA at 09:15, 6 September 2023

OCA — Wed, 06 Sep 2023 09:15:19 GMT

←Older revision		Revision as of 09:15, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3nhg' size='340' side='right'caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3nhg' size='340' side='right'caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bpr69 Bpr69~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NHG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_RB69 Escherichia phage RB69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NHG 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=TTP:THYMIDINE-~~5~~-TRIPHOSPHATE'>TTP</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]] 2.5Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene><~~/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=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</div></td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5~~&id=12353 BPR69])</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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [https://pdbe.org/3nhg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [https://www.ebi.ac.uk/pdbsum/3nhg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nhg 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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [https://pdbe.org/3nhg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [https://www.ebi.ac.uk/pdbsum/3nhg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nhg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.	+	[https://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 3nhg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3nhg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpr69]]~~	+	[[Category: Escherichia phage RB69]]
-	~~[[Category: DNA-directed DNA polymerase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Konigsberg~~, W H~~]]	+	[[Category: Konigsberg WH]]
-	[[Category: Wang, J]]	+	[[Category: Wang J]]
-	[[Category: Wang, M]]	+	[[Category: Wang M]]
-	~~[[Category: Fidelity]]~~	+
-	~~[[Category: Kinetic]]~~	+
-	~~[[Category: Mutation frequency]]~~	+
-	~~[[Category: Rb69 dna polymerase]]~~	+
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 07:02, 12 May 2022

OCA — Thu, 12 May 2022 07:02:12 GMT

←Older revision		Revision as of 07:02, 12 May 2022
Line 1:		Line 1:

	==RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG==		==RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG==
-	<StructureSection load='3nhg' size='340' side='right' caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3nhg' size='340' side='right'caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bpr69 Bpr69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3NHG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bpr69 Bpr69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NHG 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=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=CA:CALCIUM+ION'>CA</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=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 BPR69])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 BPR69])</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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [~~http~~://pdbe.org/3nhg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3nhg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3nhg 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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [https://pdbe.org/3nhg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [https://www.ebi.ac.uk/pdbsum/3nhg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nhg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.	+	[[https://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	</div>		</div>
	<div class="pdbe-citations 3nhg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3nhg" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[DNA polymerase\|DNA polymerase]]
	== References ==		== References ==
	<references/>		<references/>
Line 31:		Line 28:
	[[Category: Bpr69]]		[[Category: Bpr69]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Konigsberg, W H]]		[[Category: Konigsberg, W H]]
	[[Category: Wang, J]]		[[Category: Wang, J]]

OCA at 01:47, 5 August 2016

OCA — Fri, 05 Aug 2016 01:47:58 GMT

←Older revision		Revision as of 01:47, 5 August 2016
Line 1:		Line 1:
		+
	==RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG==		==RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG==
	<StructureSection load='3nhg' size='340' side='right' caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3nhg' size='340' side='right' caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_rb69 Enterobacteria phage rb69~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NHG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpr69 Bpr69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NHG 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=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=CA:CALCIUM+ION'>CA</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=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 ~~Enterobacteria phage RB69~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 BPR69])</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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [http://www.ebi.ac.uk/pdbsum/3nhg 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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [http://pdbe.org/3nhg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [http://www.ebi.ac.uk/pdbsum/3nhg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nhg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 21:
	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 3nhg" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 27:		Line 29:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bpr69]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
-	[[Category: Enterobacteria phage rb69]]
	[[Category: Konigsberg, W H]]		[[Category: Konigsberg, W H]]
	[[Category: Wang, J]]		[[Category: Wang, J]]

OCA at 21:44, 24 December 2014

OCA — Wed, 24 Dec 2014 21:44:13 GMT

←Older revision		Revision as of 21:44, 24 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3nhg.~~png~~\|~~left~~\|~~200px~~]]	+	==RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG==
		+	<StructureSection load='3nhg' size='340' side='right' caption='[[3nhg]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NHG 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=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=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ig9\|1ig9]], [[3nci\|3nci]], [[3lzj\|3lzj]], [[3ngi\|3ngi]], [[3ndk\|3ndk]], [[3ne6\|3ne6]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">43, gp43 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 Enterobacteria phage RB69])</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=3nhg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nhg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3nhg RCSB], [http://www.ebi.ac.uk/pdbsum/3nhg PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We have previously observed that stepwise replacement of amino acid residues in the nascent base-pair binding pocket of RB69 DNA polymerase (RB69pol) with Ala or Gly expanded the space in this pocket, resulting in a progressive increase in misincorporation. However, in vivo results with similar RB69pol nascent base-pair binding pocket mutants showed that mutation rates, as determined by the T4 phage rI forward assay and rII reversion assay, were significantly lower for the RB69pol S565G/Y567A double mutant than for the Y567A single mutant, the opposite of what we would have predicted. To investigate the reasons for this unexpected result, we have determined the pre-steady-state kinetic parameters and crystal structures of relevant ternary complexes. We found that the S565G/Y567A mutant generally had greater base selectivity than the Y567A mutant and that the kinetic parameters for dNMP insertion, excision of the 3'-terminal nucleotide residue, and primer extension beyond a mispair differed not only between these two mutants but also between the two highly mutable sequences in the T4 rI complementary strand. Comparison of the crystal structures of these two mutants with correct and incorrect incoming dNTPs provides insight into the unexpected increase in the fidelity of the S565G/Y567A double mutant. Taken together, the kinetic and structural results provide a basis for integrating and interpreting in vivo and in vitro observations.

-	~~{{STRUCTURE_3nhg\| PDB=3nhg \| SCENE= }}~~	+	Variation in Mutation Rates Caused by RB69pol Fidelity Mutants Can Be Rationalized on the Basis of Their Kinetic Behavior and Crystal Structures.,Xia S, Wang M, Lee HR, Sinha A, Blaha G, Christian T, Wang J, Konigsberg W J Mol Biol. 2011 Jan 7. PMID:21216248<ref>PMID:21216248</ref>

-	~~===RB69 DNA Polymerase (S565G~~/~~Y567A) Ternary Complex with dTTP Opposite dG===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21216248}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3nhg]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].~~	+

	==See Also==		==See Also==
	*[[DNA polymerase\|DNA polymerase]]		*[[DNA polymerase\|DNA polymerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021216248<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Enterobacteria phage rb69]]		[[Category: Enterobacteria phage rb69]]
-	[[Category: Konigsberg, W H.]]	+	[[Category: Konigsberg, W H]]
-	[[Category: Wang, J.]]	+	[[Category: Wang, J]]
-	[[Category: Wang, M.]]	+	[[Category: Wang, M]]
	[[Category: Fidelity]]		[[Category: Fidelity]]
	[[Category: Kinetic]]		[[Category: Kinetic]]

OCA at 09:26, 20 October 2012

OCA — Sat, 20 Oct 2012 09:26:23 GMT

←Older revision		Revision as of 09:26, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3nhg]] is a 3 chain structure ~~of [[DNA polymerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].	+	[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].

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

OCA at 22:51, 25 July 2012

OCA — Wed, 25 Jul 2012 22:51:07 GMT

←Older revision		Revision as of 22:51, 25 July 2012
Line 1:		Line 1:
	[[Image:3nhg.png\|left\|200px]]		[[Image:3nhg.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3nhg", 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_3nhg\| PDB=3nhg \| SCENE= }}		{{STRUCTURE_3nhg\| PDB=3nhg \| SCENE= }}

	===RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG===		===RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21216248}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21216248 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21216248}}		{{ABSTRACT_PUBMED_21216248}}

	==About this Structure==		==About this Structure==
-	[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].	+	[[3nhg]] is a 3 chain structure of [[DNA polymerase]] with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].
		+
		+	==See Also==
		+	*[[DNA polymerase\|DNA polymerase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21216248~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021216248</ref><references group="xtra"/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Enterobacteria phage rb69]]		[[Category: Enterobacteria phage rb69]]
Line 28:		Line 20:
	[[Category: Wang, J.]]		[[Category: Wang, J.]]
	[[Category: Wang, M.]]		[[Category: Wang, M.]]
		+	[[Category: Fidelity]]
		+	[[Category: Kinetic]]
		+	[[Category: Mutation frequency]]
		+	[[Category: Rb69 dna polymerase]]
		+	[[Category: Transferase-dna complex]]

OCA at 06:18, 2 March 2011

OCA — Wed, 02 Mar 2011 06:18:49 GMT

←Older revision		Revision as of 06:18, 2 March 2011
Line 1:		Line 1:
-	[[Image:3nhg.~~jpg~~\|left\|200px]]	+	[[Image:3nhg.png\|left\|200px]]

	<!--		<!--

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

OCA — Wed, 26 Jan 2011 13:03:46 GMT

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

←Older revision

Revision as of 13:03, 26 January 2011

OCA at 13:03, 26 January 2011

OCA — Wed, 26 Jan 2011 13:03:44 GMT

←Older revision		Revision as of 13:03, 26 January 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3nhg.jpg\|left\|200px]]

-	The ~~entry 3nhg~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3nhg", 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_3nhg\| PDB=3nhg \| SCENE= }}

-	~~Authors: Wang, M., Wang, J., Konigsberg, W.H.~~	+	===RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG===

-	Description: RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Nov 24 13~~:54:~~16 2010''~~	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21216248}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21216248 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21216248}}
		+
		+	==About this Structure==
		+	[[3nhg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NHG OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21216248</ref><references group="xtra"/>
		+	[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Enterobacteria phage rb69]]
		+	[[Category: Konigsberg, W H.]]
		+	[[Category: Wang, J.]]
		+	[[Category: Wang, M.]]

OCA at 10:42, 24 November 2010

OCA — Wed, 24 Nov 2010 10:42:45 GMT

←Older revision		Revision as of 10:42, 24 November 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3nhg is ON HOLD	+	The entry 3nhg is ON HOLD until Paper Publication

	Authors: Wang, M., Wang, J., Konigsberg, W.H.		Authors: Wang, M., Wang, J., Konigsberg, W.H.
Line 7:		Line 7:
	Description: RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG		Description: RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 23 08~~:43:29 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 24 13:54:16 2010''