4eog - Revision history

OCA at 08:19, 9 October 2024

2024-10-09T08:19:48Z

← Older revision		Revision as of 08:19, 9 October 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EOG FirstGlance]. <br>		<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EOG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.3Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [https://pdbe.org/4eog PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [https://www.ebi.ac.uk/pdbsum/4eog PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4eog 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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [https://pdbe.org/4eog PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [https://www.ebi.ac.uk/pdbsum/4eog PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4eog ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:20, 28 September 2022

2022-09-28T07:20:40Z

← Older revision		Revision as of 07:20, 28 September 2022
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	==Crystal structure of Csx1 of Pyrococcus furiosus==		==Crystal structure of Csx1 of Pyrococcus furiosus==
	<StructureSection load='4eog' size='340' side='right' caption='[[4eog]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4eog' size='340' side='right'caption='[[4eog]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pyrfu Pyrfu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4EOG FirstGlance]. <br>		<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EOG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~SO4~~:~~SULFATE+ION~~'>~~SO4~~</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=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene>~~</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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [https://pdbe.org/4eog PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [https://www.ebi.ac.uk/pdbsum/4eog PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4eog ProSAT]</span></td></tr>
	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Csx1, PF1127 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])~~</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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [~~http~~://pdbe.org/4eog PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4eog PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4eog 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: ~~Pyrfu~~]]		[[Category: Large Structures]]
	[[Category: ~~Kim, Y K~~]]		[[Category: Pyrococcus furiosus DSM 3638]]
	[[Category: ~~Oh, B H~~]]		[[Category: Kim YK]]
	[[Category: ~~Beta-hairpin]]~~		[[Category: Oh BH]]
	~~[[Category: Dna binding protein]]~~
	~~[[Category: Nucleic acid binding protein]]~~
	~~[[Category: Rna binding~~]]

OCA at 23:14, 4 August 2016

2016-08-04T23:14:48Z

← Older revision		Revision as of 23:14, 4 August 2016
Line 1:		Line 1:

	==Crystal structure of Csx1 of Pyrococcus furiosus==		==Crystal structure of Csx1 of Pyrococcus furiosus==
	<StructureSection load='4eog' size='340' side='right' caption='[[4eog]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4eog' size='340' side='right' caption='[[4eog]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EOG FirstGlance]. <br>		<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EOG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Csx1, PF1127 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 ~~Pyrococcus furiosus DSM 3638~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Csx1, PF1127 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 PYRFU])</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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [http://www.ebi.ac.uk/pdbsum/4eog 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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [http://pdbe.org/4eog PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [http://www.ebi.ac.uk/pdbsum/4eog PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4eog ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4eog" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Pyrococcus furiosus dsm 3638~~]]		[[Category: Pyrfu]]
	[[Category: Kim, Y K]]		[[Category: Kim, Y K]]
	[[Category: Oh, B H]]		[[Category: Oh, B H]]

OCA at 11:17, 21 December 2014

2014-12-21T11:17:14Z

← Older revision		Revision as of 11:17, 21 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_4eog~~\| ~~PDB~~=4eog \| ~~SCENE~~= }}		==Crystal structure of Csx1 of Pyrococcus furiosus==
	===~~Crystal structure of~~ Csx1 of Pyrococcus furiosus===		<StructureSection load='4eog' size='340' side='right' caption='[[4eog]], [[Resolution\|resolution]] 2.30Å' scene=''>
	~~{{ABSTRACT_PUBMED_22987782}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EOG FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
			<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Csx1, PF1127 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=186497 Pyrococcus furiosus DSM 3638])</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=4eog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4eog OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4eog RCSB], [http://www.ebi.ac.uk/pdbsum/4eog PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			In many prokaryotic organisms, chromosomal loci known as clustered regularly interspaced short palindromic repeats (CRISPRs) and CRISPR-associated (CAS) genes comprise an acquired immune defense system against invading phages and plasmids. Although many different Cas protein families have been identified, the exact biochemical functions of most of their constituents remain to be determined. In this study, we report the crystal structure of PF1127, a Cas protein of Pyrococcus furiosus DSM 3638 that is composed of 480 amino acids and belongs to the Csx1 family. The C-terminal domain of PF1127 has a unique beta-hairpin structure that protrudes out of an alpha-helix and contains several positively charged residues. We demonstrate that PF1127 binds double-stranded DNA and RNA and that this activity requires an intact beta-hairpin and involve the homodimerization of the protein. In contrast, another Csx1 protein from Sulfolobus solfataricus P2 that is composed of 377 amino acids does not have the beta-hairpin structure and exhibits no DNA-binding properties under the same experimental conditions. Notably, the C-terminal domain of these two Csx1 proteins is greatly diversified, in contrast to the conserved N-terminal domain, which appears to play a common role in the homodimerization of the protein. Thus, although P. furiosus Csx1 is identified as a nucleic acid-binding protein, other Csx1 proteins are predicted to exhibit different individual biochemical activities. Proteins 2012;. (c) 2012 Wiley Periodicals, Inc.

	~~==About this Structure==~~		Crystal structure and nucleic acid-binding activity of the CRISPR-associated protein Csx1 of Pyrococcus furiosus.,Kim YK, Kim YG, Oh BH Proteins. 2012 Sep 18. doi: 10.1002/prot.24183. PMID:22987782<ref>PMID:22987782</ref>
	~~[[4eog]] is a 1 chain~~ structure ~~with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.~~ac.il/oca-bin~~/~~ocashort?id=4EOG OCA].~~

	==~~Reference~~==		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~<ref group="xtra">PMID:022987782</ref>~~<references ~~group="xtra"~~/><~~references~~/>		</div>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
	[[Category: Pyrococcus furiosus dsm 3638]]		[[Category: Pyrococcus furiosus dsm 3638]]
	[[Category: Kim, Y K.]]		[[Category: Kim, Y K]]
	[[Category: Oh, B H.]]		[[Category: Oh, B H]]
	[[Category: Beta-hairpin]]		[[Category: Beta-hairpin]]
	[[Category: Dna binding protein]]		[[Category: Dna binding protein]]
	[[Category: Nucleic acid binding protein]]		[[Category: Nucleic acid binding protein]]
	[[Category: Rna binding]]		[[Category: Rna binding]]

OCA at 11:48, 24 July 2013

2013-07-24T11:48:00Z

← Older revision		Revision as of 11:48, 24 July 2013
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	~~[[Image:4eog.jpg\|left\|200px]]~~

	{{STRUCTURE_4eog\| PDB=4eog \| SCENE= }}		{{STRUCTURE_4eog\| PDB=4eog \| SCENE= }}

	===Crystal structure of Csx1 of Pyrococcus furiosus===		===Crystal structure of Csx1 of Pyrococcus furiosus===

	{{ABSTRACT_PUBMED_22987782}}		{{ABSTRACT_PUBMED_22987782}}

	==About this Structure==		==About this Structure==
	[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA].		[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA].

			==Reference==
			<ref group="xtra">PMID:022987782</ref><references group="xtra"/><references/>
	[[Category: Pyrococcus furiosus dsm 3638]]		[[Category: Pyrococcus furiosus dsm 3638]]
	[[Category: Kim, Y K.]]		[[Category: Kim, Y K.]]

OCA at 09:30, 2 January 2013

2013-01-02T09:30:20Z

← Older revision		Revision as of 09:30, 2 January 2013
Line 1:		Line 1:
	~~'''Unreleased structure'''~~		[[Image:4eog.jpg\|left\|200px]]

	~~The entry~~ 4eog ~~is ON HOLD~~ ~~until Paper Publication~~		{{STRUCTURE_4eog\| PDB=4eog \| SCENE= }}

	~~Authors: Kim, Y.K., Oh, B.H.~~		===Crystal structure of Csx1 of Pyrococcus furiosus===

	~~Description~~: ~~Crystal structure of Csx1 of~~ Pyrococcus furiosus		{{ABSTRACT_PUBMED_22987782}}

			==About this Structure==
			[[4eog]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus_dsm_3638 Pyrococcus furiosus dsm 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EOG OCA].
			[[Category: Pyrococcus furiosus dsm 3638]]
			[[Category: Kim, Y K.]]
			[[Category: Oh, B H.]]
			[[Category: Beta-hairpin]]
			[[Category: Dna binding protein]]
			[[Category: Nucleic acid binding protein]]
			[[Category: Rna binding]]

OCA at 05:38, 23 May 2012

2012-05-23T05:38:10Z

← Older revision		Revision as of 05:38, 23 May 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4eog is ON HOLD		The entry 4eog is ON HOLD until Paper Publication

	Authors: Kim, Y.K., Oh, B.H.		Authors: Kim, Y.K., Oh, B.H.

	Description: Crystal structure of Csx1 of Pyrococcus furiosus		Description: Crystal structure of Csx1 of Pyrococcus furiosus

OCA: Protected "4eog" [edit=sysop:move=sysop]

2012-04-25T08:55:28Z

Protected "4eog" [edit=sysop:move=sysop]

← Older revision	Revision as of 08:55, 25 April 2012
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4eog is ON HOLD Authors: Kim, Y.K., Oh, B.H. Description: Crystal structure of Csx1 of Pyrococcus furiosus

2012-04-25T08:55:27Z

New page: '''Unreleased structure''' The entry 4eog is ON HOLD Authors: Kim, Y.K., Oh, B.H. Description: Crystal structure of Csx1 of Pyrococcus furiosus

New page

'''Unreleased structure'''

The entry 4eog is ON HOLD

Authors: Kim, Y.K., Oh, B.H.

Description: Crystal structure of Csx1 of Pyrococcus furiosus