6n5v - Revision history

OCA at 06:45, 11 October 2023

OCA — Wed, 11 Oct 2023 06:45:49 GMT

←Older revision		Revision as of 06:45, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6n5v' size='340' side='right'caption='[[6n5v]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='6n5v' size='340' side='right'caption='[[6n5v]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6n5v]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N5V OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6N5V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6n5v]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rauvolfia_serpentina Rauvolfia serpentina]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6N5V FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=KDY:~~2~~-(1H-indol-4-yl)ethan-1-amine'>KDY</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]] 2.549Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[2v91\|2v91]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KDY:2-(1H-indol-4-yl)ethan-1-amine'>KDY</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[http~~:~~//en.wikipedia.org/wiki/Strictosidine_synthase Strictosidine synthase], with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=~~4~~.3.3.2 4.3.3.2]~~ </~~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=6n5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n5v OCA], [https://pdbe.org/6n5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6n5v RCSB], [https://www.ebi.ac.uk/pdbsum/6n5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6n5v 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=6n5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n5v OCA], [~~http~~://pdbe.org/6n5v PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6n5v RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6n5v PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6n5v ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/STSY_RAUSE STSY_RAUSE]] Catalyzes the stereospecific condensation of tryptamine with secologanin to form strictosidine, the key intermediate of indole alkaloid biosynthesis.	+	[https://www.uniprot.org/uniprot/STSY_RAUSE STSY_RAUSE] Catalyzes the stereospecific condensation of tryptamine with secologanin to form strictosidine, the key intermediate of indole alkaloid biosynthesis.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The enzyme strictosidine synthase (STR1) from the Indian medicinal plant Rauvolfia serpentina is of primary importance for the biosynthetic pathway of the indole alkaloid ajmaline. Moreover, STR1 initiates all biosynthetic pathways leading to the entire monoterpenoid indole alkaloid family representing an enormous structural variety of approximately 2000 compounds in higher plants. The crystal structures of STR1 in complex with its natural substrates tryptamine and secologanin provide structural understanding of the observed substrate preference and identify residues lining the active site surface that contact the substrates. STR1 catalyzes a Pictet-Spengler-type reaction and represents a novel six-bladed beta-propeller fold in plant proteins. Structure-based sequence alignment revealed a common repetitive sequence motif (three hydrophobic residues are followed by a small residue and a hydrophilic residue), indicating a possible evolutionary relationship between STR1 and several sequence-unrelated six-bladed beta-propeller structures. Structural analysis and site-directed mutagenesis experiments demonstrate the essential role of Glu-309 in catalysis. The data will aid in deciphering the details of the reaction mechanism of STR1 as well as other members of this enzyme family.	+

-	The structure of Rauvolfia serpentina strictosidine synthase is a novel six-bladed beta-propeller fold in plant proteins.,Ma X, Panjikar S, Koepke J, Loris E, Stockigt J Plant Cell. 2006 Apr;18(4):907-20. Epub 2006 Mar 10. PMID:16531499<ref>PMID:16531499</ref>	+	==See Also==
-		+	*[[Strictosidine Synthase\|Strictosidine Synthase]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6n5v" style="background-color:#fffaf0;"></div>~~	+
-	== ~~References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strictosidine synthase~~]]	+	[[Category: Rauvolfia serpentina]]
-	[[Category: Cai, Y]]	+	[[Category: Cai Y]]
-	[[Category: Futamura, Y]]	+	[[Category: Futamura Y]]
-	[[Category: Liu, H]]	+	[[Category: Liu H]]
-	[[Category: Osada, H]]	+	[[Category: Osada H]]
-	[[Category: Panjikar, S]]	+	[[Category: Panjikar S]]
-	[[Category: Shao, N]]	+	[[Category: Shao N]]
-	[[Category: Xie, H]]	+	[[Category: Xie H]]
-	[[Category: Zhu, H]]	+	[[Category: Zhu H]]
-	[[Category: Zou, H]]	+	[[Category: Zou H]]
-	~~[[Category: Alkaloid metabolism]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Six bladed beta propeller fold]]~~	+
-	~~[[Category: Str1]]~~	+
-	~~[[Category: Synthase]]~~	+
-	~~[[Category: Vacuole~~]]	+

OCA at 06:50, 27 November 2019

OCA — Wed, 27 Nov 2019 06:50:26 GMT

←Older revision		Revision as of 06:50, 27 November 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6n5v is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of Strictosidine in complex with 1H-indole-4-ethanamine==
		+	<StructureSection load='6n5v' size='340' side='right'caption='[[6n5v]], [[Resolution\|resolution]] 2.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6n5v]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N5V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6N5V FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDY:2-(1H-indol-4-yl)ethan-1-amine'>KDY</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2v91\|2v91]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Strictosidine_synthase Strictosidine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.3.2 4.3.3.2] </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=6n5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n5v OCA], [http://pdbe.org/6n5v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6n5v RCSB], [http://www.ebi.ac.uk/pdbsum/6n5v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6n5v ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/STSY_RAUSE STSY_RAUSE]] Catalyzes the stereospecific condensation of tryptamine with secologanin to form strictosidine, the key intermediate of indole alkaloid biosynthesis.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The enzyme strictosidine synthase (STR1) from the Indian medicinal plant Rauvolfia serpentina is of primary importance for the biosynthetic pathway of the indole alkaloid ajmaline. Moreover, STR1 initiates all biosynthetic pathways leading to the entire monoterpenoid indole alkaloid family representing an enormous structural variety of approximately 2000 compounds in higher plants. The crystal structures of STR1 in complex with its natural substrates tryptamine and secologanin provide structural understanding of the observed substrate preference and identify residues lining the active site surface that contact the substrates. STR1 catalyzes a Pictet-Spengler-type reaction and represents a novel six-bladed beta-propeller fold in plant proteins. Structure-based sequence alignment revealed a common repetitive sequence motif (three hydrophobic residues are followed by a small residue and a hydrophilic residue), indicating a possible evolutionary relationship between STR1 and several sequence-unrelated six-bladed beta-propeller structures. Structural analysis and site-directed mutagenesis experiments demonstrate the essential role of Glu-309 in catalysis. The data will aid in deciphering the details of the reaction mechanism of STR1 as well as other members of this enzyme family.

-	~~Authors: Cai, Y~~., ~~Shao, N., Xie, H., Futamura, Y.~~, Panjikar, S., ~~Liu~~, ~~H., Zhu~~, H.~~, Osada, H~~.~~, Zou, H~~.	+	The structure of Rauvolfia serpentina strictosidine synthase is a novel six-bladed beta-propeller fold in plant proteins.,Ma X, Panjikar S, Koepke J, Loris E, Stockigt J Plant Cell. 2006 Apr;18(4):907-20. Epub 2006 Mar 10. PMID:16531499<ref>PMID:16531499</ref>

-	~~Description: Crystal Structure~~ of ~~Strictosidine in complex with 1H~~-~~indole~~-~~4-ethanamine~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Panjikar, S]]~~	+	<div class="pdbe-citations 6n5v" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Zou, H~~]]	+	== References ==
-	[[Category: ~~Zhu, H~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Strictosidine synthase]]
	[[Category: Cai, Y]]		[[Category: Cai, Y]]
-	[[Category: Shao, N]]
-	[[Category: Liu, H]]
-	[[Category: Xie, H]]
	[[Category: Futamura, Y]]		[[Category: Futamura, Y]]
		+	[[Category: Liu, H]]
	[[Category: Osada, H]]		[[Category: Osada, H]]
		+	[[Category: Panjikar, S]]
		+	[[Category: Shao, N]]
		+	[[Category: Xie, H]]
		+	[[Category: Zhu, H]]
		+	[[Category: Zou, H]]
		+	[[Category: Alkaloid metabolism]]
		+	[[Category: Glycoprotein]]
		+	[[Category: Lyase]]
		+	[[Category: Six bladed beta propeller fold]]
		+	[[Category: Str1]]
		+	[[Category: Synthase]]
		+	[[Category: Vacuole]]

OCA at 06:26, 30 January 2019

OCA — Wed, 30 Jan 2019 06:26:00 GMT

←Older revision		Revision as of 06:26, 30 January 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6n5v is ON HOLD	+	The entry 6n5v is ON HOLD until Paper Publication

	Authors: Cai, Y., Shao, N., Xie, H., Futamura, Y., Panjikar, S., Liu, H., Zhu, H., Osada, H., Zou, H.		Authors: Cai, Y., Shao, N., Xie, H., Futamura, Y., Panjikar, S., Liu, H., Zhu, H., Osada, H., Zou, H.

OCA: Protected "6n5v" [edit=sysop:move=sysop]

OCA — Sun, 02 Dec 2018 19:19:36 GMT

Protected "6n5v" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:19, 2 December 2018

OCA: New page: '''Unreleased structure''' The entry 6n5v is ON HOLD Authors: Cai, Y., Shao, N., Xie, H., Futamura, Y., Panjikar, S., Liu, H., Zhu, H., Osada, H., Zou, H. Description: Crystal Structur...

OCA — Sun, 02 Dec 2018 19:19:35 GMT

New page: '''Unreleased structure''' The entry 6n5v is ON HOLD Authors: Cai, Y., Shao, N., Xie, H., Futamura, Y., Panjikar, S., Liu, H., Zhu, H., Osada, H., Zou, H. Description: Crystal Structur...

New page

'''Unreleased structure'''

The entry 6n5v is ON HOLD

Authors: Cai, Y., Shao, N., Xie, H., Futamura, Y., Panjikar, S., Liu, H., Zhu, H., Osada, H., Zou, H.

Description: Crystal Structure of Strictosidine in complex with 1H-indole-4-ethanamine
[[Category: Unreleased Structures]]
[[Category: Panjikar, S]]
[[Category: Zou, H]]
[[Category: Zhu, H]]
[[Category: Cai, Y]]
[[Category: Shao, N]]
[[Category: Liu, H]]
[[Category: Xie, H]]
[[Category: Futamura, Y]]
[[Category: Osada, H]]