OCA at 15:18, 18 October 2023

2023-10-18T15:18:07Z

←Older revision		Revision as of 15:18, 18 October 2023
Line 1:		Line 1:

-	====	+	==Bst DNA polymerase I time-resolved structure, 8 min post dATP addition==
-	<StructureSection load='7k5q' size='340' side='right'caption='[[7k5q]]' scene=''>	+	<StructureSection load='7k5q' size='340' side='right'caption='[[7k5q]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7k5q]] 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=7K5Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7K5Q FirstGlance]. <br>
-	</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=7k5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7k5q OCA], [https://pdbe.org/7k5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7k5q RCSB], [https://www.ebi.ac.uk/pdbsum/7k5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7k5q ProSAT]</span></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]] 2Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=7k5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7k5q OCA], [https://pdbe.org/7k5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7k5q RCSB], [https://www.ebi.ac.uk/pdbsum/7k5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7k5q ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/E1C9K5_GEOSE E1C9K5_GEOSE]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The mechanism of DNA synthesis has been inferred from static structures, but the absence of temporal information raises longstanding questions about the order of events in one of life's most central processes. Here we follow the reaction pathway of a replicative DNA polymerase using time-resolved X-ray crystallography to elucidate the order and transition between intermediates. In contrast to the canonical model, the structural changes observed in the time-lapsed images reveal a catalytic cycle in which translocation precedes catalysis. The translocation step appears to follow a push-pull mechanism where the O-O1 loop of the finger subdomain acts as a pawl to facilitate unidirectional movement along the template with conserved tyrosine residues 714 and 719 functioning as tandem gatekeepers of DNA synthesis. The structures capture the precise order of critical events that may be a general feature of enzymatic catalysis among replicative DNA polymerases.
		+
		+	Following replicative DNA synthesis by time-resolved X-ray crystallography.,Chim N, Meza RA, Trinh AM, Yang K, Chaput JC Nat Commun. 2021 May 11;12(1):2641. doi: 10.1038/s41467-021-22937-z. PMID:33976175<ref>PMID:33976175</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7k5q" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Geobacillus stearothermophilus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Synthetic construct]]
		+	[[Category: Chaput JC]]
		+	[[Category: Chim N]]
		+	[[Category: Meza RA]]
		+	[[Category: Trinh AM]]

OCA at 14:46, 3 March 2021

2021-03-03T14:46:10Z

←Older revision		Revision as of 14:46, 3 March 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7k5q ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7k5q' size='340' side='right'caption='[[7k5q]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=7k5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7k5q OCA], [https://pdbe.org/7k5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7k5q RCSB], [https://www.ebi.ac.uk/pdbsum/7k5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7k5q ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 04:43, 7 October 2020

2020-10-07T04:43:52Z

←Older revision		Revision as of 04:43, 7 October 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7k5q is ON HOLD	+	The entry 7k5q is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7k5q" [edit=sysop:move=sysop]

2020-09-23T09:17:56Z

Protected "7k5q" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:17, 23 September 2020

OCA: New page: '''Unreleased structure''' The entry 7k5q is ON HOLD Authors: Description: Category: Unreleased Structures

2020-09-23T09:17:54Z

New page: '''Unreleased structure''' The entry 7k5q is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7k5q is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7k5q - Revision history

OCA at 15:18, 18 October 2023

OCA at 14:46, 3 March 2021

OCA at 04:43, 7 October 2020

OCA: Protected "7k5q" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7k5q is ON HOLD Authors: Description: Category: Unreleased Structures