1q3u - Revision history

OCA at 09:56, 16 August 2023

OCA — Wed, 16 Aug 2023 09:56:33 GMT

←Older revision		Revision as of 09:56, 16 August 2023
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	<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bpp1 Bpp1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_P1 Escherichia virus P1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.9Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~UMP~~:~~2-DEOXYURIDINE~~+~~5-MONOPHOSPHATE~~'>~~UMP~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td><~~td class~~=~~"sblockDat"><div style~~=~~'overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]~~</~~div~~></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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [https://pdbe.org/1q3u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [https://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u 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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [https://pdbe.org/1q3u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [https://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RECR_BPP1 RECR_BPP1]] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.	+	[https://www.uniprot.org/uniprot/RECR_BPP1 RECR_BPP1] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpp1~~]]	+	[[Category: Escherichia virus P1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Buchholz, F]]	+	[[Category: Buchholz F]]
-	[[Category: Ennifar, E]]	+	[[Category: Ennifar E]]
-	[[Category: Meyer~~, J E.W~~]]	+	[[Category: Meyer JEW]]
-	[[Category: Stewart~~, A F~~]]	+	[[Category: Stewart AF]]
-	[[Category: Suck, D]]	+	[[Category: Suck D]]
-	~~[[Category: Cre]]~~	+
-	~~[[Category: Crystal]]~~	+
-	~~[[Category: Dna-protein complex]]~~	+
-	~~[[Category: Recombinase]]~~	+
-	~~[[Category: Replication-dna complex~~]]	+

OCA at 09:37, 8 September 2021

OCA — Wed, 08 Sep 2021 09:37:51 GMT

←Older revision		Revision as of 09:37, 8 September 2021
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	<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bpp1 Bpp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bpp1 Bpp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</div></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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [~~http~~://pdbe.org/1q3u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u 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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [https://pdbe.org/1q3u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [https://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RECR_BPP1 RECR_BPP1]] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.	+	[[https://www.uniprot.org/uniprot/RECR_BPP1 RECR_BPP1]] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Resolvase\|Resolvase]]	+	*[[Resolvase 3D structures\|Resolvase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:17, 27 November 2019

OCA — Wed, 27 Nov 2019 10:17:56 GMT

←Older revision		Revision as of 10:17, 27 November 2019
Line 1:		Line 1:

	==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==		==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==
-	<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpp1 Bpp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>		<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpp1 Bpp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Resolvase\|Resolvase]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bpp1]]		[[Category: Bpp1]]
		+	[[Category: Large Structures]]
	[[Category: Buchholz, F]]		[[Category: Buchholz, F]]
	[[Category: Ennifar, E]]		[[Category: Ennifar, E]]

OCA at 08:18, 24 February 2018

OCA — Sat, 24 Feb 2018 08:18:13 GMT

←Older revision		Revision as of 08:18, 24 February 2018
Line 1:		Line 1:
		+
	==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==		==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==
	<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://pdbe.org/1q3u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://pdbe.org/1q3u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q3/1q3u_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q3/1q3u_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1q3u ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Resolvase\|Resolvase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:09, 11 September 2015

OCA — Fri, 11 Sep 2015 13:09:53 GMT

←Older revision		Revision as of 13:09, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_p1 Enterobacteria phage p1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpp1 Bpp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://pdbe.org/1q3u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage p1~~]]	+	[[Category: Bpp1]]
	[[Category: Buchholz, F]]		[[Category: Buchholz, F]]
	[[Category: Ennifar, E]]		[[Category: Ennifar, E]]

OCA at 16:52, 25 December 2014

OCA — Thu, 25 Dec 2014 16:52:50 GMT

←Older revision		Revision as of 16:52, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>		<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</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=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RECR_BPP1 RECR_BPP1]] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Enterobacteria phage p1]]		[[Category: Enterobacteria phage p1]]
-	[[Category: Buchholz, F.]]	+	[[Category: Buchholz, F]]
-	[[Category: Ennifar, E.]]	+	[[Category: Ennifar, E]]
-	[[Category: Meyer, J E.W.]]	+	[[Category: Meyer, J E.W]]
-	[[Category: Stewart, A F.]]	+	[[Category: Stewart, A F]]
-	[[Category: Suck, D.]]	+	[[Category: Suck, D]]
	[[Category: Cre]]		[[Category: Cre]]
	[[Category: Crystal]]		[[Category: Crystal]]

OCA at 21:56, 28 September 2014

OCA — Sun, 28 Sep 2014 21:56:05 GMT

←Older revision		Revision as of 21:56, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1q3u.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==
		+	<StructureSection load='1q3u' size='340' side='right' caption='[[1q3u]], [[Resolution\|resolution]] 2.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nzb\|1nzb]], [[1ouq\|1ouq]], [[1q3v\|1q3v]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [http://www.ebi.ac.uk/pdbsum/1q3u PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q3/1q3u_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Escherichia coli phage P1 Cre recombinase catalyzes the site-specific recombination of DNA containing loxP sites. We report here two crystal structures of a wild-type Cre recombinase-loxP synaptic complex corresponding to two distinct reaction states: an initial pre-cleavage complex, trapped using a phosphorothioate modification at the cleavable scissile bond that prevents the recombination reaction, and a 3'-phosphotyrosine protein-DNA intermediate resulting from the first strand cleavage. In contrast to previously determined Cre complexes, both structures contain a full tetrameric complex in the asymmetric unit, unequivocally showing that the anti-parallel arrangement of the loxP sites is an intrinsic property of the Cre-loxP recombination synapse. The conformation of the spacer is different to the one observed for the symmetrized loxS site: a kink next to the scissile phosphate in the top strand of the pre-cleavage complex leads to unstacking of the TpG step and a widening of the minor groove. This side of the spacer is interacting with a 'cleavage-competent' Cre subunit, suggesting that the first cleavage occurs at the ApT step in the top strand. This is further confirmed by the structure of the 3'-phosphotyrosine intermediate, where the DNA is cleaved in the top strands and covalently linked to the 'cleavage-competent' subunits. The cleavage is followed by a movement of the C-terminal part containing the attacking Y324 and the helix N interacting with the 'non-cleaving' subunit. This rearrangement could be responsible for the interconversion of Cre subunits. Our results also suggest that the Cre-induced kink next to the scissile phosphodiester activates the DNA for cleavage at this position and facilitates strand transfer.

-	~~{{STRUCTURE_1q3u\| PDB=1q3u \| SCENE= }}~~	+	Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation.,Ennifar E, Meyer JE, Buchholz F, Stewart AF, Suck D Nucleic Acids Res. 2003 Sep 15;31(18):5449-60. PMID:12954782<ref>PMID:12954782</ref>

-	~~===Crystal structure~~ of ~~a wild-type Cre recombinase-loxP synapse: pre-cleavage complex===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12954782}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1q3u]] is a 8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA].~~	+

	==See Also==		==See Also==
	*[[Resolvase\|Resolvase]]		*[[Resolvase\|Resolvase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:012954782<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Enterobacteria phage p1]]		[[Category: Enterobacteria phage p1]]
	[[Category: Buchholz, F.]]		[[Category: Buchholz, F.]]

OCA at 19:07, 20 October 2012

OCA — Sat, 20 Oct 2012 19:07:55 GMT

←Older revision		Revision as of 19:07, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1q3u]] is a 8 chain structure ~~of [[Resolvase]]~~ with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA].	+	[[1q3u]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA].

	==See Also==		==See Also==

OCA at 06:22, 27 July 2012

OCA — Fri, 27 Jul 2012 06:22:57 GMT

←Older revision		Revision as of 06:22, 27 July 2012
Line 1:		Line 1:
	[[Image:1q3u.png\|left\|200px]]		[[Image:1q3u.png\|left\|200px]]

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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	{{STRUCTURE_1q3u\| PDB=1q3u \| SCENE= }}		{{STRUCTURE_1q3u\| PDB=1q3u \| SCENE= }}

	===Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex===		===Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12954782}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12954782 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_12954782}}		{{ABSTRACT_PUBMED_12954782}}

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	==See Also==		==See Also==
-	*[[Resolvase]]	+	*[[Resolvase\|Resolvase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12954782~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012954782</ref><references group="xtra"/>
	[[Category: Enterobacteria phage p1]]		[[Category: Enterobacteria phage p1]]
	[[Category: Buchholz, F.]]		[[Category: Buchholz, F.]]
Line 36:		Line 25:
	[[Category: Dna-protein complex]]		[[Category: Dna-protein complex]]
	[[Category: Recombinase]]		[[Category: Recombinase]]
-	[[Category: Replication/dna complex]]	+	[[Category: Replication-dna complex]]

OCA: Protected "1q3u" [edit=sysop:move=sysop]

OCA — Sun, 26 Dec 2010 23:04:32 GMT

Protected "1q3u" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:04, 26 December 2010