5ynt - Revision history

OCA at 10:24, 27 March 2024

OCA — Wed, 27 Mar 2024 10:24:16 GMT

←Older revision		Revision as of 10:24, 27 March 2024
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	<StructureSection load='5ynt' size='340' side='right'caption='[[5ynt]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='5ynt' size='340' side='right'caption='[[5ynt]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ynt]] is a 2 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=5YNT OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5YNT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ynt]] is a 2 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=5YNT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YNT FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=DMA:DIMETHYLALLYL+DIPHOSPHATE'>DMA</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</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]] 1.79Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5ynv\|5ynv]], [[5ynu\|5ynu]], [[5ynw\|5ynw]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMA:DIMETHYLALLYL+DIPHOSPHATE'>DMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">ambP3 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5ynt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ynt OCA], [https://pdbe.org/5ynt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ynt RCSB], [https://www.ebi.ac.uk/pdbsum/5ynt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ynt ProSAT]</span></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=5ynt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ynt OCA], [~~http~~://pdbe.org/5ynt PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ynt RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ynt PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ynt ProSAT]</span></td></tr>	+
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/V5TDY7_FISAU V5TDY7_FISAU]
-	FamD1 is a novel CloQ/NphB-family indole prenyltransferase which involves in hapalindole-type alkaloid biosynthesis. Here the native FamD1 structure and three protein-ligand complexes are analyzed to investigate the molecular basis of substrate binding and catalysis. FamD1 adopts a typical ABBA architecture of aromatic prenyltransferase, in which the substrate-binding chamber is found in the central beta-barrel. The indole-containing acceptor substrate is bound adjacent to the prenyl donor. Based on the complex structures, a catalytic mechanism of FamD1 is proposed. Functional implications on the sister enzyme FamD2 are also discussed.	+
-		+
-	Structural insight into a novel indole prenyltransferase in hapalindole-type alkaloid biosynthesis.,Wang J, Chen CC, Yang Y, Liu W, Ko TP, Shang N, Hu X, Xie Y, Huang JW, Zhang Y, Guo RT Biochem Biophys Res Commun. 2018 Jan 8;495(2):~~1782-1788. doi:, 10.1016~~/~~j.bbrc.2017.12.039. Epub 2017 Dec 8. PMID:29229390<ref>PMID:29229390<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 5ynt" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Fischerella ~~utex1903~~]]	+	[[Category: Fischerella ambigua UTEX 1903]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen~~, C C~~]]	+	[[Category: Chen CC]]
-	[[Category: Guo~~, R T~~]]	+	[[Category: Guo RT]]
-	[[Category: Liu~~, W D~~]]	+	[[Category: Liu WD]]
-	[[Category: Wang, J]]	+	[[Category: Wang J]]
-	~~[[Category: Prenyltransferase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:23, 21 October 2020

OCA — Wed, 21 Oct 2020 09:23:41 GMT

←Older revision		Revision as of 09:23, 21 October 2020
Line 1:		Line 1:

-	==Crystal structure of an aromatic prenyltransferase ~~in apo form~~==	+	==Crystal structure of an aromatic prenyltransferase FAMD1 from Fischerella ambigua UTEX 1903==
-	<StructureSection load='5ynt' size='340' side='right' caption='[[5ynt]], [[Resolution\|resolution]] 1.79Å' scene=''>	+	<StructureSection load='5ynt' size='340' side='right'caption='[[5ynt]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ynt]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YNT OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YNT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ynt]] is a 2 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=5YNT OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YNT FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMA:DIMETHYLALLYL+DIPHOSPHATE'>DMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMA:DIMETHYLALLYL+DIPHOSPHATE'>DMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ynv\|5ynv]], [[5ynu\|5ynu]], [[5ynw\|5ynw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ynv\|5ynv]], [[5ynu\|5ynu]], [[5ynw\|5ynw]]</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=5ynt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ynt OCA], [http://pdbe.org/5ynt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ynt RCSB], [http://www.ebi.ac.uk/pdbsum/5ynt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ynt ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ambP3 ([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://proteopedia.org/fgij/fg.htm?mol=5ynt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ynt OCA], [http://pdbe.org/5ynt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ynt RCSB], [http://www.ebi.ac.uk/pdbsum/5ynt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ynt ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Fischerella utex1903]]
		+	[[Category: Large Structures]]
	[[Category: Chen, C C]]		[[Category: Chen, C C]]
	[[Category: Guo, R T]]		[[Category: Guo, R T]]

OCA at 07:18, 29 August 2018

OCA — Wed, 29 Aug 2018 07:18:43 GMT

←Older revision		Revision as of 07:18, 29 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ynt is ~~ON HOLD until Oct 25 2019~~	+	==Crystal structure of an aromatic prenyltransferase in apo form==
		+	<StructureSection load='5ynt' size='340' side='right' caption='[[5ynt]], [[Resolution\|resolution]] 1.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ynt]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YNT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YNT FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMA:DIMETHYLALLYL+DIPHOSPHATE'>DMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ynv\|5ynv]], [[5ynu\|5ynu]], [[5ynw\|5ynw]]</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=5ynt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ynt OCA], [http://pdbe.org/5ynt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ynt RCSB], [http://www.ebi.ac.uk/pdbsum/5ynt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ynt ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	FamD1 is a novel CloQ/NphB-family indole prenyltransferase which involves in hapalindole-type alkaloid biosynthesis. Here the native FamD1 structure and three protein-ligand complexes are analyzed to investigate the molecular basis of substrate binding and catalysis. FamD1 adopts a typical ABBA architecture of aromatic prenyltransferase, in which the substrate-binding chamber is found in the central beta-barrel. The indole-containing acceptor substrate is bound adjacent to the prenyl donor. Based on the complex structures, a catalytic mechanism of FamD1 is proposed. Functional implications on the sister enzyme FamD2 are also discussed.

-	~~Authors: Wang~~, J., ~~Liu~~, W~~.D.~~, ~~Chen~~, C.C., ~~Guo, R~~.T.	+	Structural insight into a novel indole prenyltransferase in hapalindole-type alkaloid biosynthesis.,Wang J, Chen CC, Yang Y, Liu W, Ko TP, Shang N, Hu X, Xie Y, Huang JW, Zhang Y, Guo RT Biochem Biophys Res Commun. 2018 Jan 8;495(2):1782-1788. doi:, 10.1016/j.bbrc.2017.12.039. Epub 2017 Dec 8. PMID:29229390<ref>PMID:29229390</ref>

-	~~Description: Crystal structure~~ of ~~an aromatic prenyltransferase in apo form~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Liu~~, ~~W.D~~]]	+	<div class="pdbe-citations 5ynt" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Chen~~, ~~C.C~~]]	+	== References ==
-	[[Category: ~~Guo~~, ~~R.T~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, C C]]
		+	[[Category: Guo, R T]]
		+	[[Category: Liu, W D]]
	[[Category: Wang, J]]		[[Category: Wang, J]]
		+	[[Category: Prenyltransferase]]
		+	[[Category: Transferase]]

OCA at 05:55, 6 December 2017

OCA — Wed, 06 Dec 2017 05:55:29 GMT

←Older revision		Revision as of 05:55, 6 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ynt is ON HOLD	+	The entry 5ynt is ON HOLD until Oct 25 2019

	Authors: Wang, J., Liu, W.D., Chen, C.C., Guo, R.T.		Authors: Wang, J., Liu, W.D., Chen, C.C., Guo, R.T.

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

OCA — Wed, 01 Nov 2017 04:48:30 GMT

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

←Older revision

Revision as of 04:48, 1 November 2017

OCA: New page: '''Unreleased structure''' The entry 5ynt is ON HOLD Authors: Wang, J., Liu, W.D., Chen, C.C., Guo, R.T. Description: Crystal structure of an aromatic prenyltransferase in apo form [[C...

OCA — Wed, 01 Nov 2017 04:48:29 GMT

New page: '''Unreleased structure''' The entry 5ynt is ON HOLD Authors: Wang, J., Liu, W.D., Chen, C.C., Guo, R.T. Description: Crystal structure of an aromatic prenyltransferase in apo form [[C...

New page

'''Unreleased structure'''

The entry 5ynt is ON HOLD

Authors: Wang, J., Liu, W.D., Chen, C.C., Guo, R.T.

Description: Crystal structure of an aromatic prenyltransferase in apo form
[[Category: Unreleased Structures]]
[[Category: Liu, W.D]]
[[Category: Chen, C.C]]
[[Category: Guo, R.T]]
[[Category: Wang, J]]