4y0n - Revision history

OCA at 15:33, 8 November 2023

2023-11-08T15:33:14Z

←Older revision		Revision as of 15:33, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>		<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [https://pdbe.org/4y0n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [https://www.ebi.ac.uk/pdbsum/4y0n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y0n 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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [https://pdbe.org/4y0n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [https://www.ebi.ac.uk/pdbsum/4y0n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y0n ProSAT]</span></td></tr>
	</table>		</table>

OCA at 18:01, 26 April 2023

2023-04-26T18:01:23Z

←Older revision		Revision as of 18:01, 26 April 2023
Line 3:		Line 3:
	<StructureSection load='4y0n' size='340' side='right'caption='[[4y0n]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4y0n' size='340' side='right'caption='[[4y0n]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Staam Staam~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4y1e\|4y1e]], [[4y1f\|4y1f]], [[4y1g\|4y1g]], [[4y1r\|4y1r]]</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [https://pdbe.org/4y0n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [https://www.ebi.ac.uk/pdbsum/4y0n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y0n ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SAV1875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])~~</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [~~http~~://pdbe.org/4y0n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4y0n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4y0n ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Y1875_STAAM Y1875_STAAM]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Staam~~]]	+	[[Category: Staphylococcus aureus subsp. aureus Mu50]]
-	[[Category: Kim~~, H J~~]]	+	[[Category: Kim HJ]]
-	[[Category: Kwon~~, A R~~]]	+	[[Category: Kwon AR]]
-	[[Category: Lee~~, B J]]~~	+	[[Category: Lee BJ]]
-	~~[[Category: Dj-1/pfpi/thij family]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 23:48, 5 June 2019

2019-06-05T23:48:00Z

←Older revision		Revision as of 23:48, 5 June 2019
Line 1:		Line 1:
		+
	==SAV1875==		==SAV1875==
-	<StructureSection load='4y0n' size='340' side='right' caption='[[4y0n]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='4y0n' size='340' side='right'caption='[[4y0n]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staam Staam]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4y1e\|4y1e]], [[4y1f\|4y1f]], [[4y1g\|4y1g]], [[4y1r\|4y1r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4y1e\|4y1e]], [[4y1f\|4y1f]], [[4y1g\|4y1g]], [[4y1r\|4y1r]]</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [http://pdbe.org/4y0n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [http://www.ebi.ac.uk/pdbsum/4y0n PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SAV1875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [http://pdbe.org/4y0n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [http://www.ebi.ac.uk/pdbsum/4y0n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4y0n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Staam]]
	[[Category: Kim, H J]]		[[Category: Kim, H J]]
	[[Category: Kwon, A R]]		[[Category: Kwon, A R]]

OCA at 11:28, 7 January 2016

2016-01-07T11:28:35Z

←Older revision		Revision as of 11:28, 7 January 2016
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==SAV1875==
		+	<StructureSection load='4y0n' size='340' side='right' caption='[[4y0n]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4y0n]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y0N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y0N FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4y1e\|4y1e]], [[4y1f\|4y1f]], [[4y1g\|4y1g]], [[4y1r\|4y1r]]</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=4y0n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y0n OCA], [http://pdbe.org/4y0n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y0n RCSB], [http://www.ebi.ac.uk/pdbsum/4y0n PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The DJ-1/ThiJ/PfpI superfamily is a group of proteins found in diverse organisms. This superfamily includes versatile proteins, such as proteases, chaperones, heat-shock proteins and human Parkinson's disease protein. Most members of the DJ-1/ThiJ/PfpI superfamily are oligomers and are classified into subfamilies depending on discriminating quaternary structures (DJ-1, YhbO and Hsp types). SAV1875, a conserved protein from Staphylococcus aureus, is a member of the YhbO-type subfamily. However, its structure and function remain unknown. Thus, to understand the function and activity mechanism of this protein, the crystal structure of SAV1875 from S. aureus was determined. The overall fold of SAV1875 is similar to that observed for the DJ-1/ThiJ/PfpI superfamily. The cysteine residue located in the dimeric interface (Cys(105)) forms a catalytic triad with His(106) and Asp(77), and it is spontaneously oxidized to Cys(105)-SO2H in the crystal structure. To study the oxidative propensity of Cys(105) and the corresponding functional differences with changes in cysteine oxidation state, the crystal structures of SAV1875 variants E17N, E17D and C105D, and over-oxidized SAV1875 were determined. We identified SAV1875 as a novel member of the YhbO-type subfamily exhibiting chaperone function. However, if SAV1875 is over-oxidized further with H2O2, its chaperone activity is eliminated. On the basis of our study, we suggest that SAV1875 functions as a chaperone and the redox state of Cys(105) may play an important role.

-	~~The entry 4y0n is ON HOLD until Paper Publication~~	+	Structural and functional insight into the different oxidation states of SAV1875 from Staphylococcus aureus.,Kim HJ, Kwon AR, Lee BJ Biochem J. 2016 Jan 1;473(1):55-66. doi: 10.1042/BJ20150256. Epub 2015 Oct 20. PMID:26487697<ref>PMID:26487697</ref>

-	~~Authors: Kim~~, H.J.~~, Kwon, A.R., Lee, B.J~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~SAV1875~~	+	<div class="pdbe-citations 4y0n" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Lee, B.J]]	+	<references/>
-	[[Category: ~~Kwon, A.R~~]]	+	__TOC__
-	[[Category: ~~Kim, H.J~~]]	+	</StructureSection>
		+	[[Category: Kim, H J]]
		+	[[Category: Kwon, A R]]
		+	[[Category: Lee, B J]]
		+	[[Category: Dj-1/pfpi/thij family]]
		+	[[Category: Hydrolase]]

OCA at 23:23, 30 November 2015

2015-11-30T23:23:42Z

←Older revision		Revision as of 23:23, 30 November 2015
Line 7:		Line 7:
	Description: SAV1875		Description: SAV1875
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kim, H.J]]
	[[Category: Lee, B.J]]		[[Category: Lee, B.J]]
	[[Category: Kwon, A.R]]		[[Category: Kwon, A.R]]
		+	[[Category: Kim, H.J]]

OCA at 09:12, 7 October 2015

2015-10-07T09:12:01Z

←Older revision		Revision as of 09:12, 7 October 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4y0n is ON HOLD	+	The entry 4y0n is ON HOLD until Paper Publication

	Authors: Kim, H.J., Kwon, A.R., Lee, B.J.		Authors: Kim, H.J., Kwon, A.R., Lee, B.J.

OCA at 09:45, 30 September 2015

2015-09-30T09:45:57Z

←Older revision		Revision as of 09:45, 30 September 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4y0n is ON HOLD ~~until Paper Publication~~	+	The entry 4y0n is ON HOLD

	Authors: Kim, H.J., Kwon, A.R., Lee, B.J.		Authors: Kim, H.J., Kwon, A.R., Lee, B.J.

OCA at 12:02, 26 March 2015

2015-03-26T12:02:00Z

←Older revision		Revision as of 12:02, 26 March 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4y0n is ON HOLD	+	The entry 4y0n is ON HOLD until Paper Publication

	Authors: Kim, H.J., Kwon, A.R., Lee, B.J.		Authors: Kim, H.J., Kwon, A.R., Lee, B.J.

OCA: Protected "4y0n" [edit=sysop:move=sysop]

2015-02-12T10:58:12Z

Protected "4y0n" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:58, 12 February 2015

OCA: New page: '''Unreleased structure''' The entry 4y0n is ON HOLD Authors: Kim, H.J., Kwon, A.R., Lee, B.J. Description: SAV1875 Category: Unreleased Structures Category: Kim, H.J [[Categor...

2015-02-12T10:58:11Z

New page: '''Unreleased structure''' The entry 4y0n is ON HOLD Authors: Kim, H.J., Kwon, A.R., Lee, B.J. Description: SAV1875 Category: Unreleased Structures Category: Kim, H.J [[Categor...

New page

'''Unreleased structure'''

The entry 4y0n is ON HOLD

Authors: Kim, H.J., Kwon, A.R., Lee, B.J.

Description: SAV1875
[[Category: Unreleased Structures]]
[[Category: Kim, H.J]]
[[Category: Lee, B.J]]
[[Category: Kwon, A.R]]