6k16 - Revision history

OCA at 10:25, 22 November 2023

OCA — Wed, 22 Nov 2023 10:25:03 GMT

←Older revision		Revision as of 10:25, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6k16' size='340' side='right'caption='[[6k16]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6k16' size='340' side='right'caption='[[6k16]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k16]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sanal Sanal~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K16 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6K16 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k16]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Santalum_album Santalum album]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K16 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K16 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.2Å</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=6k16 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k16 OCA], [~~http~~://pdbe.org/6k16 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6k16 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6k16 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6k16 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=6k16 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k16 OCA], [https://pdbe.org/6k16 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k16 RCSB], [https://www.ebi.ac.uk/pdbsum/6k16 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k16 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0A0RDR2_SANAL A0A0A0RDR2_SANAL]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sesquiterpene synthases catalyse cyclisation of farnesyl pyrophosphate to produce diverse sesquiterpenes. Despite utilising the same substrate and exhibiting significant sequence and structural homology, these enzymes form different products. Previous efforts were based on identifying the effect of divergent residues present at the catalytic binding pocket on the product specificity of these enzymes. However, the rationales deduced for the product specificity from these studies were not generic enough to be applicable to other phylogenetically distant members of this family. To address this problem, we have developed a novel approach combining sequence, structural and dynamical information of plant sesquiterpene synthases (SSQs) to predict product modulating residues (PMRs). We tested this approach on the SSQs with known PMRs and also on sesquisabinene synthase 1 (SaSQS1), a SSQ from Indian sandalwood. Our results show that the dynamical sectors of SSQs obtained from molecular dynamics simulation and their hydrophobicity and vicinity indices together provide leads for the identification of PMRs. The efficacy of the technique was tested on SaSQS1 using mutagenesis. To the best of our knowledge, this is a first technique of this kind which provides cues on PMRs of SSQs, with divergent phylogenetic relationship.
		+
		+	Dynamic coupling analysis on plant sesquiterpene synthases provides leads for the identification of product specificity determinants.,Singh S, Thulasiram HV, Sengupta D, Kulkarni K Biochem Biophys Res Commun. 2021 Jan 15;536:107-114. doi: , 10.1016/j.bbrc.2020.12.041. Epub 2020 Dec 30. PMID:33387748<ref>PMID:33387748</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6k16" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Sanal]]
-	[[Category: Kulkarni, K A]]
-	[[Category: Singh, S]]
-	[[Category: Thulasiram, H V]]
-	[[Category: Farnesyl pyrophosphate]]
-	[[Category: Lyase]]
-	[[Category: Sandalwood oil]]
	[[Category: Santalum album]]		[[Category: Santalum album]]
-	[[Category: ~~Terpene synthase~~]]	+	[[Category: Kulkarni KA]]
		+	[[Category: Singh S]]
		+	[[Category: Thulasiram HV]]

OCA at 05:58, 20 January 2021

OCA — Wed, 20 Jan 2021 05:58:19 GMT

←Older revision		Revision as of 05:58, 20 January 2021
Line 3:		Line 3:
	<StructureSection load='6k16' size='340' side='right'caption='[[6k16]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6k16' size='340' side='right'caption='[[6k16]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k16]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K16 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6K16 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k16]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Sanal Sanal]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K16 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K16 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=6k16 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k16 OCA], [http://pdbe.org/6k16 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k16 RCSB], [http://www.ebi.ac.uk/pdbsum/6k16 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k16 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=6k16 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k16 OCA], [http://pdbe.org/6k16 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k16 RCSB], [http://www.ebi.ac.uk/pdbsum/6k16 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k16 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Sanal]]
	[[Category: Kulkarni, K A]]		[[Category: Kulkarni, K A]]
	[[Category: Singh, S]]		[[Category: Singh, S]]

OCA at 05:37, 12 June 2019

OCA — Wed, 12 Jun 2019 05:37:39 GMT

←Older revision		Revision as of 05:37, 12 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6k16 is ~~ON HOLD~~	+	==Crystal Structure of Sesquisabinene B Synthase 1 from Santalum album==
-		+	<StructureSection load='6k16' size='340' side='right'caption='[[6k16]], [[Resolution\|resolution]] 2.20Å' scene=''>
-	~~Authors~~: ~~Singh~~, S., ~~Thulasiram~~, H.V., ~~Kulkarni~~, K.A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6k16]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K16 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6K16 FirstGlance]. <br>
-	~~Description: Crystal Structure of Sesquisabinene B Synthase 1 from Santalum album~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6k16 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k16 OCA], [http://pdbe.org/6k16 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k16 RCSB], [http://www.ebi.ac.uk/pdbsum/6k16 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k16 ProSAT]</span></td></tr>
-	[[Category: Kulkarni, K.A]]	+	</table>
-	~~[[Category: Thulasiram, H.V~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Kulkarni, K A]]
	[[Category: Singh, S]]		[[Category: Singh, S]]
		+	[[Category: Thulasiram, H V]]
		+	[[Category: Farnesyl pyrophosphate]]
		+	[[Category: Lyase]]
		+	[[Category: Sandalwood oil]]
		+	[[Category: Santalum album]]
		+	[[Category: Terpene synthase]]

OCA: Protected "6k16" [edit=sysop:move=sysop]

OCA — Tue, 21 May 2019 05:41:16 GMT

Protected "6k16" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:41, 21 May 2019

OCA: New page: '''Unreleased structure''' The entry 6k16 is ON HOLD Authors: Singh, S., Thulasiram, H.V., Kulkarni, K.A. Description: Crystal Structure of Sesquisabinene B Synthase 1 from Santalum al...

OCA — Tue, 21 May 2019 05:41:14 GMT

New page: '''Unreleased structure''' The entry 6k16 is ON HOLD Authors: Singh, S., Thulasiram, H.V., Kulkarni, K.A. Description: Crystal Structure of Sesquisabinene B Synthase 1 from Santalum al...

New page

'''Unreleased structure'''

The entry 6k16 is ON HOLD

Authors: Singh, S., Thulasiram, H.V., Kulkarni, K.A.

Description: Crystal Structure of Sesquisabinene B Synthase 1 from Santalum album
[[Category: Unreleased Structures]]
[[Category: Kulkarni, K.A]]
[[Category: Thulasiram, H.V]]
[[Category: Singh, S]]