5z54 - Revision history

OCA at 08:45, 22 November 2023

2023-11-22T08:45:36Z

←Older revision		Revision as of 08:45, 22 November 2023
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	==Crystal structure of a cyclase Hpiu5 from Fischerella sp. ATCC 43239 in complex with cyclo-L-Arg-D-Pro==		==Crystal structure of a cyclase Hpiu5 from Fischerella sp. ATCC 43239 in complex with cyclo-L-Arg-D-Pro==
-	<StructureSection load='5z54' size='340' side='right' caption='[[5z54]], [[Resolution\|resolution]] 2.16Å' scene=''>	+	<StructureSection load='5z54' size='340' side='right'caption='[[5z54]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5z54]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Fischerella_utex1903~~ Fischerella ~~utex1903~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z54 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5Z54 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5z54]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Fischerella_ambigua_UTEX_1903 Fischerella ambigua UTEX 1903]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z54 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Z54 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0HZ:AMINO({3-[(3S,8AS)-1,4-DIOXOOCTAHYDROPYRROLO[1,2-A]PYRAZIN-3-YL]PROPYL}AMINO)METHANIMINIUM'>0HZ</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.16Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hpiU5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=230521 Fischerella UTEX1903])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0HZ:AMINO({3-[(3S,8AS)-1,4-DIOXOOCTAHYDROPYRROLO[1,2-A]PYRAZIN-3-YL]PROPYL}AMINO)METHANIMINIUM'>0HZ</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=5z54 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z54 OCA], [~~http~~://pdbe.org/5z54 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5z54 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5z54 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5z54 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=5z54 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z54 OCA], [https://pdbe.org/5z54 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5z54 RCSB], [https://www.ebi.ac.uk/pdbsum/5z54 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5z54 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A076NBW8_9CYAN A0A076NBW8_9CYAN]
	<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: Fischerella ~~utex1903~~]]	+	[[Category: Fischerella ambigua UTEX 1903]]
-	[[Category: ~~Chen, C C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Guo, R T~~]]	+	[[Category: Chen CC]]
-	[[Category: ~~Hu, X Y~~]]	+	[[Category: Guo RT]]
-	[[Category: ~~Liu, W D~~]]	+	[[Category: Hu XY]]
-	[[Category: ~~Prenyltransferase]]~~	+	[[Category: Liu WD]]
-	~~[[Category: Transferase~~]]	+

OCA at 08:32, 26 December 2018

2018-12-26T08:32:08Z

←Older revision		Revision as of 08:32, 26 December 2018
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-	==Crystal structure of a ~~new enzyme~~ in complex with ~~ligand~~==	+	==Crystal structure of a cyclase Hpiu5 from Fischerella sp. ATCC 43239 in complex with cyclo-L-Arg-D-Pro==
	<StructureSection load='5z54' size='340' side='right' caption='[[5z54]], [[Resolution\|resolution]] 2.16Å' scene=''>		<StructureSection load='5z54' size='340' side='right' caption='[[5z54]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5z54]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z54 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z54 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5z54]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Fischerella_utex1903 Fischerella utex1903]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z54 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z54 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0HZ:AMINO({3-[(3S,8AS)-1,4-DIOXOOCTAHYDROPYRROLO[1,2-A]PYRAZIN-3-YL]PROPYL}AMINO)METHANIMINIUM'>0HZ</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0HZ:AMINO({3-[(3S,8AS)-1,4-DIOXOOCTAHYDROPYRROLO[1,2-A]PYRAZIN-3-YL]PROPYL}AMINO)METHANIMINIUM'>0HZ</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hpiU5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=230521 Fischerella UTEX1903])</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=5z54 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z54 OCA], [http://pdbe.org/5z54 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z54 RCSB], [http://www.ebi.ac.uk/pdbsum/5z54 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z54 ProSAT]</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=5z54 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z54 OCA], [http://pdbe.org/5z54 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z54 RCSB], [http://www.ebi.ac.uk/pdbsum/5z54 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z54 ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Fischerella utex1903]]
	[[Category: Chen, C C]]		[[Category: Chen, C C]]
	[[Category: Guo, R T]]		[[Category: Guo, R T]]

OCA at 08:10, 19 December 2018

2018-12-19T08:10:43Z

←Older revision		Revision as of 08:10, 19 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5z54 is ~~ON HOLD until Jan 17 2020~~	+	==Crystal structure of a new enzyme in complex with ligand==
		+	<StructureSection load='5z54' size='340' side='right' caption='[[5z54]], [[Resolution\|resolution]] 2.16Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5z54]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z54 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z54 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0HZ:AMINO({3-[(3S,8AS)-1,4-DIOXOOCTAHYDROPYRROLO[1,2-A]PYRAZIN-3-YL]PROPYL}AMINO)METHANIMINIUM'>0HZ</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=5z54 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z54 OCA], [http://pdbe.org/5z54 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z54 RCSB], [http://www.ebi.ac.uk/pdbsum/5z54 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z54 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Found recently in stignomatales, the Stig cyclases catalyze the Cope rearrangement and intramolecular cyclization to produce complex indole alkaloids. Five crystal structures were solved of subfamily 1 and 2 Stig cyclases, which adopt a beta-sandwich fold like the non-catalytic carbohydrate-binding motif. Several complex structures were also determined of indole-based compounds, which are bound to the hydrophobic terminal cavity, where a conserved Asp residue makes an H-bond to the indole N and triggers the acid-catalyzed Cope rearrangement. Through analyzing the enzyme-ligand interactions and mutagenesis experiments, several aromatic residues were found important in catalysis. Apart from a common substrate binding mode and catalytic mechanism, potential subfamily variations that may attribute to the different product specificity are implicated. These results shall expand our scope of enzymology, in particular for further investigation of the biosynthetic Cope rearrangement.

-	~~Authors:~~ Hu, X.Y., ~~Liu~~, W.D., ~~Chen, C~~.C.~~, Guo, R~~.T.	+	The Crystal Structure of a Class of Cyclases that Catalyze the Cope Rearrangement.,Chen CC, Hu X, Tang X, Yang Y, Ko TP, Gao J, Zheng Y, Huang JW, Yu Z, Li L, Han S, Cai N, Zhang Y, Liu W, Guo RT Angew Chem Int Ed Engl. 2018 Nov 12;57(46):15060-15064. doi:, 10.1002/anie.201808231. Epub 2018 Oct 23. PMID:30222239<ref>PMID:30222239</ref>

-	~~Description: Crystal structure of~~ a ~~new enzyme in complex with ligand~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Hu, X.Y]]	+	<div class="pdbe-citations 5z54" style="background-color:#fffaf0;"></div>
-	[[Category: Liu, W.D]]	+	== References ==
-	[[Category: ~~Chen, C.C~~]]	+	<references/>
-	[[Category: ~~Guo, R.T~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, C C]]
		+	[[Category: Guo, R T]]
		+	[[Category: Hu, X Y]]
		+	[[Category: Liu, W D]]
		+	[[Category: Prenyltransferase]]
		+	[[Category: Transferase]]

OCA at 04:58, 7 February 2018

2018-02-07T04:58:40Z

←Older revision		Revision as of 04:58, 7 February 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5z54 is ON HOLD	+	The entry 5z54 is ON HOLD until Jan 17 2020

	Authors: Hu, X.Y., Liu, W.D., Chen, C.C., Guo, R.T.		Authors: Hu, X.Y., Liu, W.D., Chen, C.C., Guo, R.T.

OCA: Protected "5z54" [edit=sysop:move=sysop]

2018-01-24T17:11:54Z

Protected "5z54" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:11, 24 January 2018

OCA: New page: '''Unreleased structure''' The entry 5z54 is ON HOLD Authors: Hu, X.Y., Liu, W.D., Chen, C.C., Guo, R.T. Description: Crystal structure of a new enzyme in complex with ligand [[Categor...

2018-01-24T17:11:53Z

New page: '''Unreleased structure''' The entry 5z54 is ON HOLD Authors: Hu, X.Y., Liu, W.D., Chen, C.C., Guo, R.T. Description: Crystal structure of a new enzyme in complex with ligand [[Categor...

New page

'''Unreleased structure'''

The entry 5z54 is ON HOLD

Authors: Hu, X.Y., Liu, W.D., Chen, C.C., Guo, R.T.

Description: Crystal structure of a new enzyme in complex with ligand
[[Category: Unreleased Structures]]
[[Category: Hu, X.Y]]
[[Category: Liu, W.D]]
[[Category: Chen, C.C]]
[[Category: Guo, R.T]]