6dsw - Revision history

OCA at 06:13, 11 October 2023

OCA — Wed, 11 Oct 2023 06:13:36 GMT

←Older revision		Revision as of 06:13, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6dsw' size='340' side='right'caption='[[6dsw]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='6dsw' size='340' side='right'caption='[[6dsw]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dsw]] is a 3 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=6DSW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dsw]] is a 3 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=6DSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DSW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=MG:MAGNESIUM+ION'~~>~~MG</scene>, <scene name='pdbligand=MPD:(4S)~~-~~2-METHYL-2~~,~~4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.589Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>polA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1422 ATCC 12980])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6dsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsw OCA], [https://pdbe.org/6dsw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dsw RCSB], [https://www.ebi.ac.uk/pdbsum/6dsw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsw ProSAT]</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=6dsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsw OCA], [~~http~~://pdbe.org/6dsw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6dsw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6dsw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsw 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 ==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 12980]]~~	+	[[Category: Geobacillus stearothermophilus]]
-	~~[[Category: DNA-directed DNA polymerase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chaput, J C~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Chim, N~~]]	+	[[Category: Chaput JC]]
-	[[Category: ~~Jackson, L~~ N]]	+	[[Category: Chim N]]
-	[[Category: ~~Dna synthesis]]~~	+	[[Category: Jackson LN]]
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 08:34, 27 November 2019

OCA — Wed, 27 Nov 2019 08:34:49 GMT

←Older revision		Revision as of 08:34, 27 November 2019
Line 1:		Line 1:

	==Bst DNA polymerase I pre-chemistry (n) structure==		==Bst DNA polymerase I pre-chemistry (n) structure==
-	<StructureSection load='6dsw' size='340' side='right' caption='[[6dsw]], [[Resolution\|resolution]] 1.59Å' scene=''>	+	<StructureSection load='6dsw' size='340' side='right'caption='[[6dsw]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dsw]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dsw]] is a 3 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=6DSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DSW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">polA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1422 ATCC 12980])</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=6dsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsw OCA], [http://pdbe.org/6dsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dsw RCSB], [http://www.ebi.ac.uk/pdbsum/6dsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsw ProSAT]</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=6dsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsw OCA], [http://pdbe.org/6dsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dsw RCSB], [http://www.ebi.ac.uk/pdbsum/6dsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsw ProSAT]</span></td></tr>
Line 17:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 6dsw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6dsw" 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: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Chaput, J C]]		[[Category: Chaput, J C]]
	[[Category: Chim, N]]		[[Category: Chim, N]]

OCA at 06:50, 31 October 2018

OCA — Wed, 31 Oct 2018 06:50:57 GMT

←Older revision		Revision as of 06:50, 31 October 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6dsw is ~~ON HOLD until Paper~~ Publication	+	==Bst DNA polymerase I pre-chemistry (n) structure==
		+	<StructureSection load='6dsw' size='340' side='right' caption='[[6dsw]], [[Resolution\|resolution]] 1.59Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6dsw]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DSW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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='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=6dsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsw OCA], [http://pdbe.org/6dsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dsw RCSB], [http://www.ebi.ac.uk/pdbsum/6dsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsw ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	High resolution crystal structures of DNA polymerase intermediates are needed to study the mechanism of DNA synthesis in cells. Here we report five crystal structures of DNA polymerase I that capture new conformations for the polymerase translocation and nucleotide pre-insertion steps in the DNA synthesis pathway. We suggest that these new structures, along with previously solved structures, highlight the dynamic nature of the finger subdomain in the enzyme active site.

-	~~Authors~~:	+	Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.,Chim N, Jackson LN, Trinh AM, Chaput JC Elife. 2018 Oct 19;7. pii: 40444. doi: 10.7554/eLife.40444. PMID:30338759<ref>PMID:30338759</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6dsw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Chaput, J C]]
		+	[[Category: Chim, N]]
		+	[[Category: Jackson, L N]]
		+	[[Category: Dna synthesis]]
		+	[[Category: Transferase-dna complex]]

OCA at 05:22, 18 July 2018

OCA — Wed, 18 Jul 2018 05:22:10 GMT

←Older revision		Revision as of 05:22, 18 July 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6dsw is ON HOLD	+	The entry 6dsw is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6dsw" [edit=sysop:move=sysop]

OCA — Wed, 20 Jun 2018 04:17:04 GMT

Protected "6dsw" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:17, 20 June 2018

OCA: New page: '''Unreleased structure''' The entry 6dsw is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 20 Jun 2018 04:17:03 GMT

New page: '''Unreleased structure''' The entry 6dsw is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6dsw is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]