4kwj - Revision history

OCA at 16:06, 20 September 2023

OCA — Wed, 20 Sep 2023 16:06:23 GMT

←Older revision		Revision as of 16:06, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kwj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kwj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</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]] 1.75Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [https://pdbe.org/4kwj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [https://www.ebi.ac.uk/pdbsum/4kwj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwj 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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [https://pdbe.org/4kwj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [https://www.ebi.ac.uk/pdbsum/4kwj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwj ProSAT]</span></td></tr>
	</table>		</table>

OCA at 09:19, 7 December 2022

OCA — Wed, 07 Dec 2022 09:19:05 GMT

←Older revision		Revision as of 09:19, 7 December 2022
Line 1:		Line 1:

	==Resting state of rat cysteine dioxygenase==		==Resting state of rat cysteine dioxygenase==
-	<StructureSection load='4kwj' size='340' side='right' caption='[[4kwj]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='4kwj' size='340' side='right'caption='[[4kwj]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kwj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KWJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kwj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KWJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kwk\|4kwk]], [[4kwl\|4kwl]]</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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [https://pdbe.org/4kwj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [https://www.ebi.ac.uk/pdbsum/4kwj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwj ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [~~http~~://pdbe.org/4kwj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kwj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwj ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CDO1_RAT CDO1_RAT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4kwj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4kwj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Buffalo rat~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Cysteine dioxygenase~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Jameson~~, G B~~]]	+	[[Category: Jameson GB]]
-	[[Category: Jameson~~, G N.L~~]]	+	[[Category: Jameson GNL]]
-	[[Category: Souness~~, R J~~]]	+	[[Category: Souness RJ]]
-	[[Category: Wilbanks~~, S M]]~~	+	[[Category: Wilbanks SM]]
-	~~[[Category: Cupin]]~~	+
-	~~[[Category: Cysteine-tyrosine crosslink]]~~	+
-	~~[[Category: Dioxygenase]]~~	+
-	~~[[Category: Mono-iron]]~~	+
-	~~[[Category: Non-heme]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:27, 15 November 2017

OCA — Wed, 15 Nov 2017 09:27:54 GMT

←Older revision		Revision as of 09:27, 15 November 2017
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 4kwj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4kwj" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:33, 11 August 2016

OCA — Thu, 11 Aug 2016 17:33:22 GMT

←Older revision		Revision as of 17:33, 11 August 2016
Line 1:		Line 1:
		+
	==Resting state of rat cysteine dioxygenase==		==Resting state of rat cysteine dioxygenase==
	<StructureSection load='4kwj' size='340' side='right' caption='[[4kwj]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='4kwj' size='340' side='right' caption='[[4kwj]], [[Resolution\|resolution]] 1.75Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [http://www.ebi.ac.uk/pdbsum/4kwj 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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [http://pdbe.org/4kwj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [http://www.ebi.ac.uk/pdbsum/4kwj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kwj ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	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 4kwj" style="background-color:#fffaf0;"></div>

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

OCA at 14:28, 4 January 2015

OCA — Sun, 04 Jan 2015 14:28:37 GMT

←Older revision		Revision as of 14:28, 4 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_4kwj~~\| ~~PDB~~=4kwj \| ~~SCENE~~= }}	+	==Resting state of rat cysteine dioxygenase==
-	===~~Resting state of~~ rat ~~cysteine~~ dioxygenase===	+	<StructureSection load='4kwj' size='340' side='right' caption='[[4kwj]], [[Resolution\|resolution]] 1.75Å' scene=''>
-	{~~{ABSTRACT_PUBMED_24084026}~~}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4kwj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KWJ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kwk\|4kwk]], [[4kwl\|4kwl]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=4kwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kwj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kwj RCSB], [http://www.ebi.ac.uk/pdbsum/4kwj PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Describing the organization of substrates and substrate analogues in the active site of cysteine dioxygenase identifies potential intermediates in this critical yet poorly understood reaction, the oxidation of cysteine to cysteine sulfinic acid. The fortuitous formation of persulfides under crystallization conditions has allowed their binding in the active site of cysteine dioxygenase to be studied. The crystal structures of cysteine persulfide and 3-mercaptopropionic acid persulfide bound to iron(II) in the active site show that binding of the persulfide occurs via the distal sulfide and, in the case of the cysteine persulfide, the amine also binds. Persulfide was detected by mass spectrometry in both the crystal and the drop, suggesting its origin is chemical rather than enzymatic. A mechanism involving the formation of the relevant disulfide from sulfide produced by hydrolysis of dithionite is proposed. In comparison, persulfenate {observed bound to cysteine dioxygenase [Simmons, C. R., et al. (2008) Biochemistry 47, 11390]} is shown through mass spectrometry to occur only in the crystal and not in the surrounding drop, suggesting that in the crystalline state the persulfenate does not lie on the reaction pathway. Stabilization of both the persulfenate and the persulfides does, however, suggest the position in which dioxygen binds during catalysis.

-	~~==About this Structure==~~	+	Mechanistic Implications of Persulfenate and Persulfide Binding in the Active Site of Cysteine Dioxygenase.,Souness RJ, Kleffmann T, Tchesnokov EP, Wilbanks SM, Jameson GB, Jameson GN Biochemistry. 2013 Oct 21. PMID:24084026<ref>PMID:24084026</ref>
-	~~[[4kwj]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Buffalo_rat Buffalo rat]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:024084026</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[Dioxygenase\|Dioxygenase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
-	[[Category: Jameson, G B.]]	+	[[Category: Jameson, G B]]
-	[[Category: Jameson, G N.L.]]	+	[[Category: Jameson, G N.L]]
-	[[Category: Souness, R J.]]	+	[[Category: Souness, R J]]
-	[[Category: Wilbanks, S M.]]	+	[[Category: Wilbanks, S M]]
	[[Category: Cupin]]		[[Category: Cupin]]
	[[Category: Cysteine-tyrosine crosslink]]		[[Category: Cysteine-tyrosine crosslink]]

OCA at 08:49, 25 December 2013

OCA — Wed, 25 Dec 2013 08:49:06 GMT

←Older revision		Revision as of 08:49, 25 December 2013
Line 4:		Line 4:

	==About this Structure==		==About this Structure==
-	[[4kwj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA].	+	[[4kwj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:024084026</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:024084026</ref><references group="xtra"/><references/>
		+	[[Category: Buffalo rat]]
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
-	[[Category: Rattus norvegicus]]
	[[Category: Jameson, G B.]]		[[Category: Jameson, G B.]]
	[[Category: Jameson, G N.L.]]		[[Category: Jameson, G N.L.]]

OCA at 06:44, 23 October 2013

OCA — Wed, 23 Oct 2013 06:44:48 GMT

←Older revision		Revision as of 06:44, 23 October 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4kwj\| PDB=4kwj \| SCENE= }}
		+	===Resting state of rat cysteine dioxygenase===
		+	{{ABSTRACT_PUBMED_24084026}}

-	~~The entry~~ 4kwj is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4kwj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KWJ OCA].

-	~~Authors~~: ~~Souness, R.J., Wilbanks, S.M.,~~ Jameson, G.B., Jameson, G.N.L.	+	==Reference==
-		+	<ref group="xtra">PMID:024084026</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Resting state of rat cysteine dioxygenase~~	+	[[Category: Cysteine dioxygenase]]
		+	[[Category: Rattus norvegicus]]
		+	[[Category: Jameson, G B.]]
		+	[[Category: Jameson, G N.L.]]
		+	[[Category: Souness, R J.]]
		+	[[Category: Wilbanks, S M.]]
		+	[[Category: Cupin]]
		+	[[Category: Cysteine-tyrosine crosslink]]
		+	[[Category: Dioxygenase]]
		+	[[Category: Mono-iron]]
		+	[[Category: Non-heme]]
		+	[[Category: Oxidoreductase]]

OCA at 04:12, 1 August 2013

OCA — Thu, 01 Aug 2013 04:12:36 GMT

←Older revision		Revision as of 04:12, 1 August 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Souness, R.J., Wilbanks, S.M., Jameson, G.B., Jameson, G.N.L.		Authors: Souness, R.J., Wilbanks, S.M., Jameson, G.B., Jameson, G.N.L.

	Description: Resting state of rat cysteine dioxygenase		Description: Resting state of rat cysteine dioxygenase

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

OCA — Wed, 19 Jun 2013 12:08:41 GMT

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

←Older revision

Revision as of 12:08, 19 June 2013

OCA: New page: '''Unreleased structure''' The entry 4kwj is ON HOLD Authors: Souness, R.J., Wilbanks, S.M., Jameson, G.B., Jameson, G.N.L. Description: Resting state of rat cysteine dioxygenase

OCA — Wed, 19 Jun 2013 12:08:39 GMT

New page: '''Unreleased structure''' The entry 4kwj is ON HOLD Authors: Souness, R.J., Wilbanks, S.M., Jameson, G.B., Jameson, G.N.L. Description: Resting state of rat cysteine dioxygenase

New page

'''Unreleased structure'''

The entry 4kwj is ON HOLD

Authors: Souness, R.J., Wilbanks, S.M., Jameson, G.B., Jameson, G.N.L.

Description: Resting state of rat cysteine dioxygenase