5i7m - Revision history

OCA at 08:25, 23 August 2023

2023-08-23T08:25:57Z

←Older revision		Revision as of 08:25, 23 August 2023
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	<StructureSection load='5i7m' size='340' side='right'caption='[[5i7m]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='5i7m' size='340' side='right'caption='[[5i7m]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i7m]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5I7M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i7m]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5I7M FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 1.93Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PRIM2, PRIM2A ([http~~://~~www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5i7m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7m OCA], [~~http~~://pdbe.org/5i7m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5i7m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5i7m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7m 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=5i7m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7m OCA], [https://pdbe.org/5i7m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5i7m RCSB], [https://www.ebi.ac.uk/pdbsum/5i7m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7m ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PRI2_HUMAN PRI2_HUMAN]] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.	+	[https://www.uniprot.org/uniprot/PRI2_HUMAN PRI2_HUMAN] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[RNA polymerase\|RNA polymerase]]	+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chazin~~, W J~~]]	+	[[Category: Chazin WJ]]
-	[[Category: Salay~~, L E~~]]	+	[[Category: Salay LE]]
-	[[Category: Thompson~~, M K]]~~	+	[[Category: Thompson MK]]
-	~~[[Category: Dna replication]]~~	+
-	~~[[Category: P58c]]~~	+
-	~~[[Category: Primase]]~~	+
-	~~[[Category: Replication~~]]	+

OCA at 07:36, 27 November 2019

2019-11-27T07:36:58Z

←Older revision		Revision as of 07:36, 27 November 2019
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	==Crystal structure of Y345F mutant of human primase p58 iron-sulfur cluster domain==		==Crystal structure of Y345F mutant of human primase p58 iron-sulfur cluster domain==
-	<StructureSection load='5i7m' size='340' side='right' caption='[[5i7m]], [[Resolution\|resolution]] 1.93Å' scene=''>	+	<StructureSection load='5i7m' size='340' side='right'caption='[[5i7m]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i7m]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i7m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7M FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=SF4:IRON/SULFUR+CLUSTER'>SF4</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">PRIM2, PRIM2A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5i7m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7m OCA], [http://pdbe.org/5i7m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7m RCSB], [http://www.ebi.ac.uk/pdbsum/5i7m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7m 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=5i7m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7m OCA], [http://pdbe.org/5i7m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7m RCSB], [http://www.ebi.ac.uk/pdbsum/5i7m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7m ProSAT]</span></td></tr>
	</table>		</table>
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	</div>		</div>
	<div class="pdbe-citations 5i7m" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5i7m" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[RNA polymerase\|RNA polymerase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Chazin, W J]]		[[Category: Chazin, W J]]
	[[Category: Salay, L E]]		[[Category: Salay, L E]]

OCA at 06:45, 9 March 2017

2017-03-09T06:45:58Z

←Older revision		Revision as of 06:45, 9 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5i7m is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Y345F mutant of human primase p58 iron-sulfur cluster domain==
		+	<StructureSection load='5i7m' size='340' side='right' caption='[[5i7m]], [[Resolution\|resolution]] 1.93Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5i7m]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7M FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5i7m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7m OCA], [http://pdbe.org/5i7m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7m RCSB], [http://www.ebi.ac.uk/pdbsum/5i7m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7m ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PRI2_HUMAN PRI2_HUMAN]] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	DNA charge transport chemistry offers a means of long-range, rapid redox signaling. We demonstrate that the [4Fe4S] cluster in human DNA primase can make use of this chemistry to coordinate the first steps of DNA synthesis. Using DNA electrochemistry, we found that a change in oxidation state of the [4Fe4S] cluster acts as a switch for DNA binding. Single-atom mutations that inhibit this charge transfer hinder primase initiation without affecting primase structure or polymerization. Generating a single base mismatch in the growing primer duplex, which attenuates DNA charge transport, inhibits primer truncation. Thus, redox signaling by [4Fe4S] clusters using DNA charge transport regulates primase binding to DNA and illustrates chemistry that may efficiently drive substrate handoff between polymerases during DNA replication.

-	~~Authors~~:	+	The [4Fe4S] cluster of human DNA primase functions as a redox switch using DNA charge transport.,O'Brien E, Holt ME, Thompson MK, Salay LE, Ehlinger AC, Chazin WJ, Barton JK Science. 2017 Feb 24;355(6327). pii: eaag1789. doi: 10.1126/science.aag1789. PMID:28232525<ref>PMID:28232525</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5i7m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chazin, W J]]
		+	[[Category: Salay, L E]]
		+	[[Category: Thompson, M K]]
		+	[[Category: Dna replication]]
		+	[[Category: P58c]]
		+	[[Category: Primase]]
		+	[[Category: Replication]]

OCA at 14:13, 15 May 2016

2016-05-15T14:13:09Z

←Older revision		Revision as of 14:13, 15 May 2016
Line 3:		Line 3:
	The entry 5i7m is ON HOLD until Paper Publication		The entry 5i7m is ON HOLD until Paper Publication

-	Authors: ~~Salay, L.E., Thompson, M.K., Chazin, W.J.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Thompson, M.K]]
-	[[Category: Chazin, W.J]]
-	[[Category: Salay, L.E]]

OCA: Protected "5i7m" [edit=sysop:move=sysop]

2016-02-26T16:56:28Z

Protected "5i7m" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:56, 26 February 2016

OCA: New page: '''Unreleased structure''' The entry 5i7m is ON HOLD until Paper Publication Authors: Salay, L.E., Thompson, M.K., Chazin, W.J. Description: Category: Unreleased Structures [[Cate...

2016-02-26T16:56:27Z

New page: '''Unreleased structure''' The entry 5i7m is ON HOLD until Paper Publication Authors: Salay, L.E., Thompson, M.K., Chazin, W.J. Description: Category: Unreleased Structures [[Cate...

New page

'''Unreleased structure'''

The entry 5i7m is ON HOLD until Paper Publication

Authors: Salay, L.E., Thompson, M.K., Chazin, W.J.

Description:
[[Category: Unreleased Structures]]
[[Category: Thompson, M.K]]
[[Category: Chazin, W.J]]
[[Category: Salay, L.E]]