5eep - Revision history

OCA at 09:10, 20 March 2024

OCA — Wed, 20 Mar 2024 09:10:51 GMT

←Older revision		Revision as of 09:10, 20 March 2024
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	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/CSDE_ECOLI CSDE_ECOLI] Stimulates the cysteine desulfurase activity of CsdA. Contains a cysteine residue (Cys-61) that acts to accept sulfur liberated via the desulfurase activity of CsdA. May be able to transfer sulfur to TcdA/CsdL. Seems to support the function of TcdA in the generation of cyclic threonylcarbamoyladenosine at position 37 (ct(6)A37) in tRNAs that read codons beginning with adenine. Does not appear to participate in Fe/S biogenesis.<ref>PMID:15901727</ref> <ref>PMID:20054882</ref> <ref>PMID:23242255</ref>		[https://www.uniprot.org/uniprot/CSDE_ECOLI CSDE_ECOLI] Stimulates the cysteine desulfurase activity of CsdA. Contains a cysteine residue (Cys-61) that acts to accept sulfur liberated via the desulfurase activity of CsdA. May be able to transfer sulfur to TcdA/CsdL. Seems to support the function of TcdA in the generation of cyclic threonylcarbamoyladenosine at position 37 (ct(6)A37) in tRNAs that read codons beginning with adenine. Does not appear to participate in Fe/S biogenesis.<ref>PMID:15901727</ref> <ref>PMID:20054882</ref> <ref>PMID:23242255</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Sulfur incorporations both in the biosynthesis of sulfur-containing cofactors and in the sulfur-modifications of certain tRNAs are all mediated by the sulfur initially delivered from the cysteine desulfurases. Sulfur generated as persulfide from cysteine is transferred to the sulfur acceptor protein to further allow delivery to the required steps within an enzymatic process. CsdA which is one of the three cysteine desulfurases identified in Escherichia coli transfers sulfur to the non Fe-S sulfur-acceptor CsdE, however, the consequence of CsdE accepted sulfur is mostly unknown. In this study, we report the 2.4A structure of free CsdE determined using X-ray crystallography, and compare the structure with the CsdE structure determined using NMR and also CsdE within the crystal CsdA-CsdE complex. Further analysis suggests that the positive electrostatic potential surfaces of CsdE may mediate interaction with a yet unidentified protein or possibly tRNA to deliver sulfur.
-
-	The crystal structure of Escherichia coli CsdE.,Kenne AN, Kim S, Park S Int J Biol Macromol. 2016 Jun;87:317-21. doi: 10.1016/j.ijbiomac.2016.02.071., Epub 2016 Mar 2. PMID:26944665<ref>PMID:26944665</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5eep" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:23, 5 July 2023

OCA — Wed, 05 Jul 2023 06:23:24 GMT

←Older revision		Revision as of 06:23, 5 July 2023
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	<StructureSection load='5eep' size='340' side='right'caption='[[5eep]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5eep' size='340' side='right'caption='[[5eep]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5eep]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EEP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5eep]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EEP FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~ECONIH1_16050~~, ~~SK78_01951 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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]] 2.4Å</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=5eep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eep OCA], [~~http~~://pdbe.org/5eep PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5eep RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5eep PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5eep 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=5eep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eep OCA], [https://pdbe.org/5eep PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5eep RCSB], [https://www.ebi.ac.uk/pdbsum/5eep PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5eep ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CSDE_ECOLI CSDE_ECOLI] Stimulates the cysteine desulfurase activity of CsdA. Contains a cysteine residue (Cys-61) that acts to accept sulfur liberated via the desulfurase activity of CsdA. May be able to transfer sulfur to TcdA/CsdL. Seems to support the function of TcdA in the generation of cyclic threonylcarbamoyladenosine at position 37 (ct(6)A37) in tRNAs that read codons beginning with adenine. Does not appear to participate in Fe/S biogenesis.<ref>PMID:15901727</ref> <ref>PMID:20054882</ref> <ref>PMID:23242255</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Park~~, S Y]]~~	+	[[Category: Park SY]]
-	~~[[Category: Csda interaction]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Sufe superfamily]]~~	+
-	~~[[Category: Sulfur utilization]]~~	+
-	~~[[Category: Sulfur-accepting protein~~]]	+

OCA at 06:55, 22 April 2020

OCA — Wed, 22 Apr 2020 06:55:34 GMT

←Older revision		Revision as of 06:55, 22 April 2020
Line 1:		Line 1:

	==Crystal structure of E. coli CsdE==		==Crystal structure of E. coli CsdE==
-	<StructureSection load='5eep' size='340' side='right' caption='[[5eep]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='5eep' size='340' side='right'caption='[[5eep]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5eep]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EEP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5eep]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EEP FirstGlance]. <br>
-	</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=5eep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eep OCA], [http://pdbe.org/5eep PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eep RCSB], [http://www.ebi.ac.uk/pdbsum/5eep PDBsum]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ECONIH1_16050, SK78_01951 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=5eep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eep OCA], [http://pdbe.org/5eep PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eep RCSB], [http://www.ebi.ac.uk/pdbsum/5eep PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5eep ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Park, S Y]]		[[Category: Park, S Y]]
	[[Category: Csda interaction]]		[[Category: Csda interaction]]

OCA at 15:22, 20 June 2016

OCA — Mon, 20 Jun 2016 15:22:02 GMT

←Older revision		Revision as of 15:22, 20 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5eep is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of E. coli CsdE==
		+	<StructureSection load='5eep' size='340' side='right' caption='[[5eep]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5eep]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EEP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EEP FirstGlance]. <br>
		+	</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=5eep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eep OCA], [http://pdbe.org/5eep PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eep RCSB], [http://www.ebi.ac.uk/pdbsum/5eep PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sulfur incorporations both in the biosynthesis of sulfur-containing cofactors and in the sulfur-modifications of certain tRNAs are all mediated by the sulfur initially delivered from the cysteine desulfurases. Sulfur generated as persulfide from cysteine is transferred to the sulfur acceptor protein to further allow delivery to the required steps within an enzymatic process. CsdA which is one of the three cysteine desulfurases identified in Escherichia coli transfers sulfur to the non Fe-S sulfur-acceptor CsdE, however, the consequence of CsdE accepted sulfur is mostly unknown. In this study, we report the 2.4A structure of free CsdE determined using X-ray crystallography, and compare the structure with the CsdE structure determined using NMR and also CsdE within the crystal CsdA-CsdE complex. Further analysis suggests that the positive electrostatic potential surfaces of CsdE may mediate interaction with a yet unidentified protein or possibly tRNA to deliver sulfur.

-	~~Authors: Park~~, S.Y.	+	The crystal structure of Escherichia coli CsdE.,Kenne AN, Kim S, Park S Int J Biol Macromol. 2016 Jun;87:317-21. doi: 10.1016/j.ijbiomac.2016.02.071., Epub 2016 Mar 2. PMID:26944665<ref>PMID:26944665</ref>

-	~~Description: Crystal structure~~ of E. ~~coli CsdE~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Park, S.Y~~]]	+	<div class="pdbe-citations 5eep" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Park, S Y]]
		+	[[Category: Csda interaction]]
		+	[[Category: Ligase]]
		+	[[Category: Sufe superfamily]]
		+	[[Category: Sulfur utilization]]
		+	[[Category: Sulfur-accepting protein]]

OCA at 10:40, 1 June 2016

OCA — Wed, 01 Jun 2016 10:40:40 GMT

←Older revision		Revision as of 10:40, 1 June 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Park, S.Y.		Authors: Park, S.Y.

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

OCA — Tue, 01 Dec 2015 02:44:28 GMT

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

←Older revision

Revision as of 02:44, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5eep is ON HOLD Authors: Park, S.Y. Description: Crystal structure of E. coli CsdE Category: Unreleased Structures Category: Park, S.Y

OCA — Tue, 01 Dec 2015 02:44:27 GMT

New page: '''Unreleased structure''' The entry 5eep is ON HOLD Authors: Park, S.Y. Description: Crystal structure of E. coli CsdE Category: Unreleased Structures Category: Park, S.Y

New page

'''Unreleased structure'''

The entry 5eep is ON HOLD

Authors: Park, S.Y.

Description: Crystal structure of E. coli CsdE
[[Category: Unreleased Structures]]
[[Category: Park, S.Y]]