7rss - Revision history

OCA at 16:37, 18 October 2023

2023-10-18T16:37:46Z

← Older revision		Revision as of 16:37, 18 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7rss]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis] 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=7RSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RSS FirstGlance]. <br>		<table><tr><td colspan='2'>[[7rss]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis] 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=7RSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RSS 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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss 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]] 2.71Å</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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/D0VWU9_THEKO D0VWU9_THEKO]]		[https://www.uniprot.org/uniprot/D0VWU9_THEKO D0VWU9_THEKO]
	<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 7rss" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7rss" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:28, 28 September 2022

2022-09-28T06:28:01Z

← Older revision		Revision as of 06:28, 28 September 2022
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	==Kod-RI incorporating DNA, n+2==		==Kod-RI incorporating DNA, n+2==
	<StructureSection load='7rss' size='340' side='right'caption='[[7rss]]' scene=''>		<StructureSection load='7rss' size='340' side='right'caption='[[7rss]], [[Resolution\|resolution]] 2.71Å' 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=7RSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RSS FirstGlance]. <br>		<table><tr><td colspan='2'>[[7rss]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis] 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=7RSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RSS 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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>		</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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[https://www.uniprot.org/uniprot/D0VWU9_THEKO D0VWU9_THEKO]]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Xeno-nucleic acids (XNAs) are synthetic genetic polymers with backbone structures composed of non-ribose or non-deoxyribose sugars. Phosphonomethylthreosyl nucleic acid (pTNA), a type of XNA that does not base pair with DNA or RNA, has been suggested as a possible genetic material for storing synthetic biology information in cells. A critical step in this process is the synthesis of XNA episomes using laboratory-evolved polymerases to copy DNA information into XNA. Here, we investigate the polymerase recognition of pTNA nucleotides using X-ray crystallography to capture the post-catalytic complex of engineered polymerases following the sequential addition of two pTNA nucleotides onto the 3'-end of a DNA primer. High-resolution crystal structures reveal that the polymerase mediates Watson-Crick base pairing between the extended pTNA adducts and the DNA template. Comparative analysis studies demonstrate that the sugar conformation and backbone position of pTNA are structurally more similar to threose nucleic acid than DNA even though pTNA and DNA share the same six-atom backbone repeat length. Collectively, these findings provide new insight into the structural determinants that guide the enzymatic synthesis of an orthogonal genetic polymer, and may lead to the discovery of new variants that function with enhanced activity.

			Crystallographic analysis of engineered polymerases synthesizing phosphonomethylthreosyl nucleic acid.,Hajjar M, Chim N, Liu C, Herdewijn P, Chaput JC Nucleic Acids Res. 2022 Sep 23;50(17):9663-9674. doi: 10.1093/nar/gkac792. PMID:36124684<ref>PMID:36124684</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7rss" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Synthetic construct]]
			[[Category: Thermococcus kodakarensis]]
	[[Category: Chaput JC]]		[[Category: Chaput JC]]
	[[Category: Chim N]]		[[Category: Chim N]]
	[[Category: Hajjar M]]		[[Category: Hajjar M]]

OCA at 10:05, 31 August 2022

2022-08-31T10:05:27Z

← Older revision		Revision as of 10:05, 31 August 2022
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	====		==Kod-RI incorporating DNA, n+2==
	<StructureSection load='7rss' size='340' side='right'caption='[[7rss]]' scene=''>		<StructureSection load='7rss' size='340' side='right'caption='[[7rss]]' 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'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RSS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RSS 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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>		</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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Z-disk~~]]		[[Category: Chaput JC]]
			[[Category: Chim N]]
			[[Category: Hajjar M]]

OCA at 04:48, 25 August 2022

2022-08-25T04:48:12Z

← Older revision		Revision as of 04:48, 25 August 2022
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7rss is ~~ON HOLD until Paper Publication~~		====
			<StructureSection load='7rss' size='340' side='right'caption='[[7rss]]' 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=7rss FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rss OCA], [https://pdbe.org/7rss PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rss RCSB], [https://www.ebi.ac.uk/pdbsum/7rss PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rss ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Z-disk]]

OCA at 04:11, 6 October 2021

2021-10-06T04:11:10Z

← Older revision		Revision as of 04:11, 6 October 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7rss is ON HOLD		The entry 7rss is ON HOLD until Paper Publication

	Authors:		Authors:

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

2021-08-18T05:11:49Z

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

← Older revision	Revision as of 05:11, 18 August 2021
(No difference)

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

2021-08-18T05:11:48Z

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

New page

'''Unreleased structure'''

The entry 7rss is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]