6k1n - Revision history

OCA at 10:25, 22 November 2023

OCA — Wed, 22 Nov 2023 10:25:37 GMT

←Older revision		Revision as of 10:25, 22 November 2023
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	<StructureSection load='6k1n' size='340' side='right'caption='[[6k1n]], [[Resolution\|resolution]] 2.26Å' scene=''>		<StructureSection load='6k1n' size='340' side='right'caption='[[6k1n]], [[Resolution\|resolution]] 2.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k1n]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Strm5 Strm5~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K1N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k1n]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Stenotrophomonas_maltophilia_R551-3 Stenotrophomonas maltophilia R551-3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K1N FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PLP:PYRIDOXAL~~-~~5-PHOSPHATE'>PLP</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]] 2.26Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Smal_0489 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=391008 STRM5])</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Cystathionine_gamma~~-~~lyase Cystathionine gamma~~-~~lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.4.1.1 4.4.1.1]~~ </~~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=6k1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1n OCA], [https://pdbe.org/6k1n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k1n RCSB], [https://www.ebi.ac.uk/pdbsum/6k1n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1n 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=6k1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1n OCA], [https://pdbe.org/6k1n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k1n RCSB], [https://www.ebi.ac.uk/pdbsum/6k1n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1n ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B4SII9_STRM5 B4SII9_STRM5]
	<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: Cystathionine gamma-lyase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strm5~~]]	+	[[Category: Stenotrophomonas maltophilia R551-3]]
-	[[Category: Chen, S]]	+	[[Category: Chen S]]
-	[[Category: Wang, Y]]	+	[[Category: Wang Y]]
-	~~[[Category: Biomineralization]]~~	+
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Cd]]~~	+
-	~~[[Category: Cgl]]~~	+
-	~~[[Category: Cse]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Quantum dot~~]]	+

OCA at 14:42, 2 June 2021

OCA — Wed, 02 Jun 2021 14:42:32 GMT

←Older revision		Revision as of 14:42, 2 June 2021
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	==PLP-bound form of a putative cystathionine gamma-lyase==		==PLP-bound form of a putative cystathionine gamma-lyase==
-	<StructureSection load='6k1n' size='340' side='right'caption='[[6k1n]]' scene=''>	+	<StructureSection load='6k1n' size='340' side='right'caption='[[6k1n]], [[Resolution\|resolution]] 2.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6K1N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k1n]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Strm5 Strm5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K1N FirstGlance]. <br>
-	</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=6k1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1n OCA], [~~http~~://pdbe.org/6k1n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6k1n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6k1n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1n ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Smal_0489 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=391008 STRM5])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cystathionine_gamma-lyase Cystathionine gamma-lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.4.1.1 4.4.1.1] </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=6k1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1n OCA], [https://pdbe.org/6k1n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k1n RCSB], [https://www.ebi.ac.uk/pdbsum/6k1n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1n ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The development and utilization of inorganic material biosynthesis have evolved into single macromolecular systems. A putative cystathionine gamma-lyase of bacteria Stenotrophomonas maltophilia (smCSE) is a newly identified biomolecule that enables the synthesis of nanomaterials. Due to the lack of structural information, the mechanism of smCSE biosynthesis remains unclear. Herein, we obtain two atomic-resolution smCSE-form X-ray structures and confirm that the conformational changes of Tyr108 and Lys206 within the enzyme active sites are critical for the protein-driven synthesis of metal sulfide quantum dots (QDs). The structural stability of tetramer and the specificity of surface amino acids are the basis for smCSE to synthesize quantum dots. The size of QD products can be regulated by predesigned amino acids and the morphology can be controlled through proteolytic treatments. The growth rate is enhanced by the stabilization of a flexible loop in the active site, as shown by the X-ray structure of the engineered protein which fused with a dodecapeptide. We further prove that the smCSE-driven route can be applied to the general synthesis of other metal sulfide nanoparticles. These results provide a better understanding of the mechanism of QD biosynthesis and a new perspective on the control of this biosynthesis by protein modification.
		+
		+	Structural characterization of cystathionine gamma-lyase smCSE enables aqueous metal quantum dot biosynthesis.,Wang Y, Chen H, Huang Z, Yang M, Yu H, Peng M, Yang Z, Chen S Int J Biol Macromol. 2021 Mar 31;174:42-51. doi: 10.1016/j.ijbiomac.2021.01.141. , Epub 2021 Jan 23. PMID:33497694<ref>PMID:33497694</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6k1n" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cystathionine gamma-lyase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen S]]	+	[[Category: Strm5]]
-	[[Category: Wang Y]]	+	[[Category: Chen, S]]
		+	[[Category: Wang, Y]]
		+	[[Category: Biomineralization]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Cd]]
		+	[[Category: Cgl]]
		+	[[Category: Cse]]
		+	[[Category: Lyase]]
		+	[[Category: Quantum dot]]

OCA at 05:24, 13 May 2020

OCA — Wed, 13 May 2020 05:24:08 GMT

←Older revision		Revision as of 05:24, 13 May 2020
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-	'''Unreleased structure'''

-	~~The entry 6k1n is ON HOLD until May 10 2021~~	+	==PLP-bound form of a putative cystathionine gamma-lyase==
-		+	<StructureSection load='6k1n' size='340' side='right'caption='[[6k1n]]' scene=''>
-	~~Authors: Chen, S., Wang, Y.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1N OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K1N FirstGlance]. <br>
-	~~Description:~~ PLP-bound form of a putative cystathionine gamma-lyase	+	</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=6k1n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1n OCA], [http://pdbe.org/6k1n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k1n RCSB], [http://www.ebi.ac.uk/pdbsum/6k1n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1n ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Wang~~, Y]]	+	__TOC__
-	[[Category: Chen, S]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chen S]]
		+	[[Category: Wang Y]]

OCA at 07:14, 30 October 2019

OCA — Wed, 30 Oct 2019 07:14:06 GMT

←Older revision		Revision as of 07:14, 30 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6k1n is ON HOLD	+	The entry 6k1n is ON HOLD until May 10 2021

	Authors: Chen, S., Wang, Y.		Authors: Chen, S., Wang, Y.
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	Description: PLP-bound form of a putative cystathionine gamma-lyase		Description: PLP-bound form of a putative cystathionine gamma-lyase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Chen, S]]
	[[Category: Wang, Y]]		[[Category: Wang, Y]]
		+	[[Category: Chen, S]]

OCA: Protected "6k1n" [edit=sysop:move=sysop]

OCA — Tue, 21 May 2019 05:42:30 GMT

Protected "6k1n" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:42, 21 May 2019

OCA: New page: '''Unreleased structure''' The entry 6k1n is ON HOLD Authors: Chen, S., Wang, Y. Description: PLP-bound form of a putative cystathionine gamma-lyase Category: Unreleased Structures...

OCA — Tue, 21 May 2019 05:42:29 GMT

New page: '''Unreleased structure''' The entry 6k1n is ON HOLD Authors: Chen, S., Wang, Y. Description: PLP-bound form of a putative cystathionine gamma-lyase Category: Unreleased Structures...

New page

'''Unreleased structure'''

The entry 6k1n is ON HOLD

Authors: Chen, S., Wang, Y.

Description: PLP-bound form of a putative cystathionine gamma-lyase
[[Category: Unreleased Structures]]
[[Category: Chen, S]]
[[Category: Wang, Y]]