1wd1 - Revision history

OCA at 11:25, 2 August 2023

OCA — Wed, 02 Aug 2023 11:25:16 GMT

←Older revision		Revision as of 11:25, 2 August 2023
Line 3:		Line 3:
	<StructureSection load='1wd1' size='340' side='right'caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1wd1' size='340' side='right'caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_33909 Atcc 33909~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfolobus_acidocaldarius Sulfolobus acidocaldarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~<div style='overflow: auto; max~~-~~height: 3em;'>[[1azp\|1azp]]~~, [[~~1wd0~~\|~~1wd0~~]]~~</div>~~</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]] 2.2Å</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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [https://pdbe.org/1wd1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [https://www.ebi.ac.uk/pdbsum/1wd1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wd1 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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [https://pdbe.org/1wd1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [https://www.ebi.ac.uk/pdbsum/1wd1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wd1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~DN71_SULAC DN71_SULAC~~]~~] Constrain~~ negative DNA supercoils~~; may~~ be involved in maintaining the integrity of ~~their~~ genome at high temperature.	+	[https://www.uniprot.org/uniprot/DN7D_SULAC DN7D_SULAC] Can constrain negative DNA supercoils. May be involved in maintaining the integrity of the genome at high temperature.[UniProtKB:P61990]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 33909]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, C Y]]	+	[[Category: Sulfolobus acidocaldarius]]
-	[[Category: Chou, C C]]	+	[[Category: Chen C-Y]]
-	[[Category: Chu, H M]]	+	[[Category: Chou C-C]]
-	[[Category: Ko, T P]]	+	[[Category: Chu H-M]]
-	[[Category: Wang~~, A H.~~J]]	+	[[Category: Ko T-P]]
-	~~[[Category: Protein-dna complex]]~~	+	[[Category: Wang AH-J]]
-	~~[[Category: Structural protein-dna complex~~]]	+

OCA at 16:18, 27 October 2021

OCA — Wed, 27 Oct 2021 16:18:20 GMT

←Older revision		Revision as of 16:18, 27 October 2021
Line 3:		Line 3:
	<StructureSection load='1wd1' size='340' side='right'caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1wd1' size='340' side='right'caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1azp\|1azp]], [[1wd0\|1wd0]]</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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [~~http~~://pdbe.org/1wd1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1wd1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1wd1 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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [https://pdbe.org/1wd1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [https://www.ebi.ac.uk/pdbsum/1wd1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wd1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DN71_SULAC DN71_SULAC]] Constrain negative DNA supercoils; may be involved in maintaining the integrity of their genome at high temperature.	+	[[https://www.uniprot.org/uniprot/DN71_SULAC DN71_SULAC]] Constrain negative DNA supercoils; may be involved in maintaining the integrity of their genome at high temperature.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 17:59, 22 January 2020

OCA — Wed, 22 Jan 2020 17:59:35 GMT

←Older revision		Revision as of 17:59, 22 January 2020
Line 1:		Line 1:

	==Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers==		==Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers==
-	<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1wd1' size='340' side='right'caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 33909]]		[[Category: Atcc 33909]]
		+	[[Category: Large Structures]]
	[[Category: Chen, C Y]]		[[Category: Chen, C Y]]
	[[Category: Chou, C C]]		[[Category: Chou, C C]]

OCA at 16:40, 11 April 2018

OCA — Wed, 11 Apr 2018 16:40:17 GMT

←Older revision		Revision as of 16:40, 11 April 2018
Line 1:		Line 1:
		+
	==Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers==		==Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers==
	<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://pdbe.org/1wd1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://pdbe.org/1wd1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1wd1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 15:37, 11 September 2015

OCA — Fri, 11 Sep 2015 15:37:43 GMT

←Older revision		Revision as of 15:37, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sulfolobus_acidocaldarius Sulfolobus acidocaldarius~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33909 Atcc 33909]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://pdbe.org/1wd1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 16:
	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 1wd1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Sulfolobus acidocaldarius~~]]	+	[[Category: Atcc 33909]]
	[[Category: Chen, C Y]]		[[Category: Chen, C Y]]
	[[Category: Chou, C C]]		[[Category: Chou, C C]]

OCA at 18:29, 25 December 2014

OCA — Thu, 25 Dec 2014 18:29:32 GMT

←Older revision		Revision as of 18:29, 25 December 2014
Line 6:		Line 6:
	<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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DN71_SULAC DN71_SULAC]] Constrain negative DNA supercoils; may be involved in maintaining the integrity of their genome at high temperature.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Sulfolobus acidocaldarius]]		[[Category: Sulfolobus acidocaldarius]]
-	[[Category: Chen, C Y.]]	+	[[Category: Chen, C Y]]
-	[[Category: Chou, C C.]]	+	[[Category: Chou, C C]]
-	[[Category: Chu, H M.]]	+	[[Category: Chu, H M]]
-	[[Category: Ko, T P.]]	+	[[Category: Ko, T P]]
-	[[Category: Wang, A H.J.]]	+	[[Category: Wang, A H.J]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
	[[Category: Structural protein-dna complex]]		[[Category: Structural protein-dna complex]]

OCA at 08:30, 8 October 2014

OCA — Wed, 08 Oct 2014 08:30:46 GMT

←Older revision		Revision as of 08:30, 8 October 2014
Line 1:		Line 1:
-	[[~~Image:~~1wd1.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers==
		+	<StructureSection load='1wd1' size='340' side='right' caption='[[1wd1]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_acidocaldarius Sulfolobus acidocaldarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WD1 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1azp\|1azp]], [[1wd0\|1wd0]]</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=1wd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wd1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1wd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1wd1 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The protein Sac7d belongs to a class of small chromosomal proteins from the hyperthermophilic archaeon Sulfolobus acidocaldarius. Two new crystal forms of Sac7d in complex with the DNA decamers CCTATATAGG and CCTACGTAGG were obtained and their structures were determined by molecular replacement. The refined models yielded R/Rfree values of 0.221/0.257 and 0.248/0.290 at 1.9 and 2.2 A resolution, respectively. The protein structures are similar to the previously determined structure of Sac7d-GCGATCGC (PDB code 1azp), but the DNA molecules are more bent overall, by 14-20 degrees. The relative positions of the Sac7d protein and the bound DNA also differ by rotations of 6-10 degrees and translations of 1.0-2.4 A. In addition to the water molecules in the central cavity, three additional conserved water molecules are found that mediate the protein-DNA interactions. The decamer DNA fragments form virtual double helices in the crystal, with a unit length of eight base pairs. The molecular packing of the new crystal forms differs from that of 1azp. The terminal nucleotides are opened up and form triple base pairs with other DNA molecules. Through lattice contacts, the Sac7d molecule also makes additional interactions with DNA, whereas only limited protein-protein interactions are seen.

-	~~{{STRUCTURE_1wd1\| PDB=1wd1 \| SCENE= }}~~	+	Structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers.,Ko TP, Chu HM, Chen CY, Chou CC, Wang AH Acta Crystallogr D Biol Crystallogr. 2004 Aug;60(Pt 8):1381-7. Epub 2004, Jul 21. PMID:15272160<ref>PMID:15272160</ref>

-	~~===Crystal structures~~ of the ~~hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15272160}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[1wd1]] is a 3 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Sulfolobus_acidocaldarius Sulfolobus acidocaldarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA].~~	+	</StructureSection>
	[[Category: Sulfolobus acidocaldarius]]		[[Category: Sulfolobus acidocaldarius]]
	[[Category: Chen, C Y.]]		[[Category: Chen, C Y.]]

OCA: Protected "1wd1" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 13:02:19 GMT

Protected "1wd1" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:02, 5 January 2013

OCA at 13:02, 5 January 2013

OCA — Sat, 05 Jan 2013 13:02:15 GMT

←Older revision		Revision as of 13:02, 5 January 2013
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-	{{Seed}}
	[[Image:1wd1.png\|left\|200px]]		[[Image:1wd1.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_1wd1\| PDB=1wd1 \| SCENE= }}		{{STRUCTURE_1wd1\| PDB=1wd1 \| SCENE= }}

	===Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers===		===Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers===

-
-	<!--
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	{{ABSTRACT_PUBMED_15272160}}		{{ABSTRACT_PUBMED_15272160}}

	==About this Structure==		==About this Structure==
-	~~1WD1 is a~~ [[~~Single protein~~]] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_acidocaldarius Sulfolobus acidocaldarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA].	+	[[1wd1]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_acidocaldarius Sulfolobus acidocaldarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WD1 OCA].
-		+
-	~~==Reference==~~	+
-	Structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers., Ko TP, Chu HM, Chen CY, Chou CC, Wang AH, Acta Crystallogr D Biol Crystallogr. 2004 Aug;60(Pt 8):1381-7. Epub 2004, Jul 21. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15272160 15272160]	+
-	~~[[Category: Single protein]]~~	+
	[[Category: Sulfolobus acidocaldarius]]		[[Category: Sulfolobus acidocaldarius]]
	[[Category: Chen, C Y.]]		[[Category: Chen, C Y.]]
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	[[Category: Wang, A H.J.]]		[[Category: Wang, A H.J.]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
-		+	[[Category: Structural protein-dna complex]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Jul 29 09:07:28 2008''~~	+

OCA at 06:07, 29 July 2008

OCA — Tue, 29 Jul 2008 06:07:29 GMT

←Older revision		Revision as of 06:07, 29 July 2008
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-	[[Image:1wd1.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1wd1.png\|left\|200px]]

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	{{STRUCTURE_1wd1\| PDB=1wd1 \| SCENE= }}		{{STRUCTURE_1wd1\| PDB=1wd1 \| SCENE= }}

-	~~'''~~Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers~~'''~~	+	===Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers===


-	~~==Overview==~~	+	<!--
-	The ~~protein Sac7d belongs~~ to ~~a class of small chromosomal proteins from~~ the hyperthermophilic archaeon Sulfolobus acidocaldarius. Two new crystal forms of Sac7d in complex with the DNA decamers CCTATATAGG and CCTACGTAGG were obtained and their structures were determined by molecular replacement. The refined models yielded R/~~Rfree values of 0.221~~/0.~~257 and 0~~.~~248/0.290 at 1.9 and 2.2 A resolution, respectively. The protein structures are similar to the previously determined structure of Sac7d-GCGATCGC (PDB code 1azp~~), ~~but~~ the ~~DNA molecules are more bent overall, by 14-20 degrees~~. ~~The relative positions of the Sac7d protein and the bound DNA also differ by rotations of 6~~-~~10 degrees and translations of 1.0~~-2.4 A. In addition to the water molecules in the central cavity, three additional conserved water molecules are found that mediate the protein-DNA interactions. The decamer DNA fragments form virtual double helices in the crystal, with a unit length of eight base pairs. The molecular packing of the new crystal forms differs from that of 1azp. The terminal nucleotides are opened up and form triple base pairs with other DNA molecules. Through lattice contacts, the Sac7d molecule also makes additional interactions with DNA, whereas only limited protein-protein interactions are seen.	+	The line below this paragraph, {{ABSTRACT_PUBMED_15272160}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15272160 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15272160}}

	==About this Structure==		==About this Structure==
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	[[Category: Wang, A H.J.]]		[[Category: Wang, A H.J.]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 13:~~29:18 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:07:28 2008''