5iyj - Revision history

OCA at 10:38, 6 September 2023

OCA — Wed, 06 Sep 2023 10:38:46 GMT

←Older revision		Revision as of 10:38, 6 September 2023
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	<StructureSection load='5iyj' size='340' side='right'caption='[[5iyj]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='5iyj' size='340' side='right'caption='[[5iyj]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iyj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IYJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5IYJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iyj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IYJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5IYJ FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5iyg\|5iyg]]~~, [[~~5iye~~\|~~5iye~~]]</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]] 1.701Å</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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [~~http~~://pdbe.org/5iyj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj 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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [https://pdbe.org/5iyj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [https://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Gautham, N~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Karthik, S~~]]	+	[[Category: Gautham N]]
-	[[Category: ~~Mandal, P K~~]]	+	[[Category: Karthik S]]
-	[[Category: ~~Thirugnanasambandam, A~~]]	+	[[Category: Mandal PK]]
-	[[Category: A~~-dna duplex]]~~	+	[[Category: Thirugnanasambandam A]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Tetragonal space group~~]]	+

OCA at 08:27, 4 November 2020

OCA — Wed, 04 Nov 2020 08:27:07 GMT

←Older revision		Revision as of 08:27, 4 November 2020
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	==Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 resolution==		==Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 resolution==
-	<StructureSection load='5iyj' size='340' side='right' caption='[[5iyj]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='5iyj' size='340' side='right'caption='[[5iyj]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iyj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IYJ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5IYJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iyj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IYJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5IYJ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iyg\|5iyg]], [[5iye\|5iye]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iyg\|5iyg]], [[5iye\|5iye]]</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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [http://pdbe.org/5iyj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [http://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj 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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [http://pdbe.org/5iyj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [http://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gautham, N]]		[[Category: Gautham, N]]
	[[Category: Karthik, S]]		[[Category: Karthik, S]]

OCA at 06:23, 19 April 2017

OCA — Wed, 19 Apr 2017 06:23:52 GMT

←Older revision		Revision as of 06:23, 19 April 2017
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	<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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [http://pdbe.org/5iyj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [http://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj 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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [http://pdbe.org/5iyj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [http://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We present here a comparison of three different X-ray crystal structures of DNA tetradecamer sequence d(CCCGGGTACCCGGG)2 all at about 1.7 A resolution. The sequence was designed as an attempt to form a DNA four-way junction with A-type helical arms. However, in the presence of zinc, magnesium, and in the absence of any metal ion, it does not take up the junction structure, but forms an A-type double helix. This allowed us to study possible conformational changes in the double helix due to the presence of metal ions. Upon addition of the zinc ion, there is a change in the space group from P41212 to P41. The overall conformation of the duplex remains the same. There are small changes in the interaction of the metal ions with the DNA. In the zinc-bound structure, there are two zinc ions that show direct interaction with the N7 atoms of terminal G13 bases at either end of the molecule. There are small changes in the interhelical contacts. The consequence of these differences is to break some of the symmetry and change the space group.
		+
		+	Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 A resolution.,Karthik S, Thirugnanasambandam A, Mandal PK, Gautham N Nucleosides Nucleotides Nucleic Acids. 2017 Apr 7:1-12. doi:, 10.1080/15257770.2017.1287378. PMID:28387634<ref>PMID:28387634</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5iyj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 13:45, 29 March 2017

OCA — Wed, 29 Mar 2017 13:45:09 GMT

←Older revision		Revision as of 13:45, 29 March 2017
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-	'''Unreleased structure'''

-	~~The entry 5iyj is ON HOLD until Paper Publication~~	+	==Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 resolution==
-		+	<StructureSection load='5iyj' size='340' side='right' caption='[[5iyj]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5iyj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IYJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IYJ FirstGlance]. <br>
-	~~Description:~~ Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 resolution	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5iyg\|5iyg]], [[5iye\|5iye]]</td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5iyj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iyj OCA], [http://pdbe.org/5iyj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iyj RCSB], [http://www.ebi.ac.uk/pdbsum/5iyj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iyj ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gautham, N]]
	[[Category: Karthik, S]]		[[Category: Karthik, S]]
-	~~[[Category: Gautham, N]]~~	+	[[Category: Mandal, P K]]
-	[[Category: Mandal, P.K]]	+
	[[Category: Thirugnanasambandam, A]]		[[Category: Thirugnanasambandam, A]]
		+	[[Category: A-dna duplex]]
		+	[[Category: Dna]]
		+	[[Category: Tetragonal space group]]

OCA at 09:35, 21 September 2016

OCA — Wed, 21 Sep 2016 09:35:00 GMT

←Older revision		Revision as of 09:35, 21 September 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5iyj is ON HOLD	+	The entry 5iyj is ON HOLD until Paper Publication

	Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.		Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.

OCA at 12:58, 9 September 2016

OCA — Fri, 09 Sep 2016 12:58:59 GMT

←Older revision		Revision as of 12:58, 9 September 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5iyj is ON HOLD ~~until Paper Publication~~	+	The entry 5iyj is ON HOLD

	Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.		Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.

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

OCA — Wed, 11 May 2016 01:10:21 GMT

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

←Older revision

Revision as of 01:10, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5iyj is ON HOLD until Paper Publication Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N. Description: Comparison of X-ray c...

OCA — Wed, 11 May 2016 01:10:19 GMT

New page: '''Unreleased structure''' The entry 5iyj is ON HOLD until Paper Publication Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N. Description: Comparison of X-ray c...

New page

'''Unreleased structure'''

The entry 5iyj is ON HOLD until Paper Publication

Authors: Karthik, S., Thirugnanasambandam, A., Mandal, P.K., Gautham, N.

Description: Comparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 resolution
[[Category: Unreleased Structures]]
[[Category: Karthik, S]]
[[Category: Gautham, N]]
[[Category: Mandal, P.K]]
[[Category: Thirugnanasambandam, A]]