5dor - Revision history

OCA at 21:53, 28 June 2023

OCA — Wed, 28 Jun 2023 21:53:15 GMT

←Older revision		Revision as of 21:53, 28 June 2023
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	<StructureSection load='5dor' size='340' side='right'caption='[[5dor]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='5dor' size='340' side='right'caption='[[5dor]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dor]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bpp2 Bpp2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5DOR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dor]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_P2 Escherichia virus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DOR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5c6k\|5c6k]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">int ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10679 BPP2])~~</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=5dor FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dor OCA], [https://pdbe.org/5dor PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dor RCSB], [https://www.ebi.ac.uk/pdbsum/5dor PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dor ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5dor FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dor OCA], [~~http~~://pdbe.org/5dor PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5dor RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5dor PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5dor ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/VINT_BPP2 VINT_BPP2]] Integrase is necessary for integration of the phage into the host genome by site-specific recombination.	+	[https://www.uniprot.org/uniprot/VINT_BPP2 VINT_BPP2] Integrase is necessary for integration of the phage into the host genome by site-specific recombination.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpp2~~]]	+	[[Category: Escherichia virus P2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Claesson, M]]	+	[[Category: Claesson M]]
-	[[Category: Haggard-Ljungquist, E]]	+	[[Category: Haggard-Ljungquist E]]
-	[[Category: Hogbom, M]]	+	[[Category: Hogbom M]]
-	[[Category: Odegrip, R]]	+	[[Category: Odegrip R]]
-	[[Category: Skaar, K]]	+	[[Category: Skaar K]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Integrase]]~~	+
-	~~[[Category: Tyrosine recombinase~~]]	+

OCA at 08:12, 8 April 2020

OCA — Wed, 08 Apr 2020 08:12:47 GMT

←Older revision		Revision as of 08:12, 8 April 2020
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		+
	==P2 Integrase catalytic domain in space group P21==		==P2 Integrase catalytic domain in space group P21==
-	<StructureSection load='5dor' size='340' side='right' caption='[[5dor]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='5dor' size='340' side='right'caption='[[5dor]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dor]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DOR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dor]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpp2 Bpp2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5DOR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5c6k\|5c6k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5c6k\|5c6k]]</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=5dor FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dor OCA], [http://pdbe.org/5dor PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dor RCSB], [http://www.ebi.ac.uk/pdbsum/5dor PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">int ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10679 BPP2])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5dor FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dor OCA], [http://pdbe.org/5dor PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dor RCSB], [http://www.ebi.ac.uk/pdbsum/5dor PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dor ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5dor" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5dor" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Retroviral integrase 3D structures\|Retroviral integrase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bpp2]]
		+	[[Category: Large Structures]]
	[[Category: Claesson, M]]		[[Category: Claesson, M]]
	[[Category: Haggard-Ljungquist, E]]		[[Category: Haggard-Ljungquist, E]]

OCA at 16:11, 2 December 2015

OCA — Wed, 02 Dec 2015 16:11:32 GMT

←Older revision		Revision as of 16:11, 2 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==P2 Integrase catalytic domain in space group P21==
		+	<StructureSection load='5dor' size='340' side='right' caption='[[5dor]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5dor]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOR FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5c6k\|5c6k]]</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=5dor FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dor OCA], [http://pdbe.org/5dor PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dor RCSB], [http://www.ebi.ac.uk/pdbsum/5dor PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VINT_BPP2 VINT_BPP2]] Integrase is necessary for integration of the phage into the host genome by site-specific recombination.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacteriophage P2 is a temperate phage capable of integrating its DNA into the host genome by site-specific recombination upon lysogenization. Integration and excision of the phage genome requires P2 integrase, which performs recognition, cleavage and joining of DNA during these processes. This work presents the high-resolution crystal structure of the catalytic domain of P2 integrase, and analysis of the structure-function relationship of several previously identified non-functional P2 integrase mutants. The DNA binding area is characterized by a large positively charged patch, harboring key residues. The structure reveals potential for large dimer flexibility, likely essential for rearrangement of DNA strands upon integration and excision of the phage DNA.

-	~~The entry 5dor is ON HOLD~~	+	Crystal structure of the bacteriophage P2 integrase catalytic domain.,Skaar K, Claesson M, Odegrip R, Hogbom M, Haggard-Ljungquist E, Stenmark P FEBS Lett. 2015 Oct 8. pii: S0014-5793(15)00875-3. doi:, 10.1016/j.febslet.2015.09.026. PMID:26453836<ref>PMID:26453836</ref>

-	~~Authors: Skaar~~, K.~~, Claesson, M~~.~~, Odegrip, R~~.~~, Haggard~~-~~Ljungquist, E., Hogbom, M.~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~P2 Integrase catalytic domain in space group P21~~	+	<div class="pdbe-citations 5dor" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Claesson, M]]
		+	[[Category: Haggard-Ljungquist, E]]
	[[Category: Hogbom, M]]		[[Category: Hogbom, M]]
-	[[Category: Claesson, M]]
	[[Category: Odegrip, R]]		[[Category: Odegrip, R]]
-	[[Category: Haggard-Ljungquist, E]]
	[[Category: Skaar, K]]		[[Category: Skaar, K]]
		+	[[Category: Hydrolase]]
		+	[[Category: Integrase]]
		+	[[Category: Tyrosine recombinase]]

OCA at 02:03, 1 December 2015

OCA — Tue, 01 Dec 2015 02:03:08 GMT

←Older revision		Revision as of 02:03, 1 December 2015
Line 3:		Line 3:
	The entry 5dor is ON HOLD		The entry 5dor is ON HOLD

-	Authors: ~~Karin~~ Skaar, ~~Magnus~~ Claesson, ~~Richard~~ Odegrip, ~~Elisabeth~~ Haggard-Ljungquist, ~~Martin~~ Hogbom	+	Authors: Skaar, K., Claesson, M., Odegrip, R., Haggard-Ljungquist, E., Hogbom, M.

	Description: P2 Integrase catalytic domain in space group P21		Description: P2 Integrase catalytic domain in space group P21
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Karin Skaar~~, ~~Magnus~~ Claesson, ~~Richard~~ Odegrip, ~~Elisabeth~~ Haggard-Ljungquist, ~~Martin Hogbom~~]]	+	[[Category: Hogbom, M]]
		+	[[Category: Claesson, M]]
		+	[[Category: Odegrip, R]]
		+	[[Category: Haggard-Ljungquist, E]]
		+	[[Category: Skaar, K]]

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

OCA — Wed, 30 Sep 2015 13:17:57 GMT

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

←Older revision

Revision as of 13:17, 30 September 2015

OCA: New page: '''Unreleased structure''' The entry 5dor is ON HOLD Authors: Karin Skaar, Magnus Claesson, Richard Odegrip, Elisabeth Haggard-Ljungquist, Martin Hogbom Description: P2 Integrase catal...

OCA — Wed, 30 Sep 2015 13:17:55 GMT

New page: '''Unreleased structure''' The entry 5dor is ON HOLD Authors: Karin Skaar, Magnus Claesson, Richard Odegrip, Elisabeth Haggard-Ljungquist, Martin Hogbom Description: P2 Integrase catal...

New page

'''Unreleased structure'''

The entry 5dor is ON HOLD

Authors: Karin Skaar, Magnus Claesson, Richard Odegrip, Elisabeth Haggard-Ljungquist, Martin Hogbom

Description: P2 Integrase catalytic domain in space group P21
[[Category: Unreleased Structures]]
[[Category: Karin Skaar, Magnus Claesson, Richard Odegrip, Elisabeth Haggard-Ljungquist, Martin Hogbom]]