6bms - Revision history

OCA at 14:22, 13 March 2024

2024-03-13T14:22:39Z

←Older revision		Revision as of 14:22, 13 March 2024
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	<StructureSection load='6bms' size='340' side='right'caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>		<StructureSection load='6bms' size='340' side='right'caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Brachidanio_rerio Brachidanio~~ rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6BMS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BMS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.441Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">zdhhc15b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_S-acyltransferase Protein S-acyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.1.225 2.3.1.225] </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=6bms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bms OCA], [https://pdbe.org/6bms PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6bms RCSB], [https://www.ebi.ac.uk/pdbsum/6bms PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6bms 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=6bms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bms OCA], [~~http~~://pdbe.org/6bms PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6bms RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6bms PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6bms ProSAT]</span></td></tr>	+
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/ZH15B_DANRE ZH15B_DANRE] Palmitoyltransferase that catalyzes the addition of palmitate onto various protein substrates (PubMed:29326245). Has no stringent fatty acid selectivity and in addition to palmitate can also transfer onto target proteins myristate from tetradecanoyl-CoA and stearate from octadecanoyl-CoA (By similarity). May thereby regulate target proteins association and localization to membranes (By similarity). In the nervous system, probably catalyzes the palmitoylation of synaptic proteins and is involved in the differentiation of dopaminergic neurons and the development of the diencephalon (PubMed:26095893).[UniProtKB:Q8BGJ0][UniProtKB:Q96MV8]<ref>PMID:26095893</ref> <ref>PMID:29326245</ref>
-	~~DHHC~~ (~~Asp~~-~~His~~-His-Cys) palmitoyltransferases are eukaryotic integral membrane enzymes that catalyze protein palmitoylation, which is important in a range of physiological processes, including small guanosine triphosphatase (~~GTPase~~) ~~signaling, cell adhesion, and neuronal receptor scaffolding~~. ~~We present crystal structures of two DHHC palmitoyltransferases~~ and ~~a covalent intermediate mimic~~. ~~The active site resides at~~ the ~~membrane-cytosol interface~~, ~~which allows~~ the ~~enzyme to catalyze thioester-exchange chemistry by using fatty acyl-coenzyme A~~ and ~~explains why membrane-proximal cysteines are candidates for palmitoylation. The acyl chain binds~~ in ~~a cavity formed by~~ the ~~transmembrane domain. We propose a mechanism for acyl chain-length selectivity in DHHC enzymes on~~ the ~~basis~~ of ~~cavity mutants with preferences for shorter and longer acyl chains.~~	+
-		+
-	~~Fatty acyl recognition and transfer by an integral membrane S-acyltransferase.,Rana MS, Kumar P, Lee CJ, Verardi R, Rajashankar KR, Banerjee A Science. 2018 Jan 12;359~~(~~6372~~). ~~pii~~: ~~359/6372/eaao6326. doi~~:~~, 10.1126/science.aao6326. PMID:29326245~~<ref>PMID:~~29326245~~</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.~~<br>	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6bms" style="background-color~~:~~#fffaf0;">~~</~~div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Brachidanio~~ rerio]]	+	[[Category: Danio rerio]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Protein S-acyltransferase]]~~	+	[[Category: Kumar P]]
-	[[Category: Kumar, P]]	+	[[Category: Rajashankar K]]
-	[[Category: Rajashankar, K]]	+
-	~~[[Category: Membrane bound enzyme]]~~	+
-	~~[[Category: Membrane protein~~]]	+

OCA at 17:48, 11 December 2019

2019-12-11T17:48:44Z

←Older revision		Revision as of 17:48, 11 December 2019
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	==Palmitoyltransferase structure==		==Palmitoyltransferase structure==
-	<StructureSection load='6bms' size='340' side='right' caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>	+	<StructureSection load='6bms' size='340' side='right'caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMS FirstGlance]. <br>		<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMS FirstGlance]. <br>
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Brachidanio rerio]]		[[Category: Brachidanio rerio]]
		+	[[Category: Large Structures]]
	[[Category: Protein S-acyltransferase]]		[[Category: Protein S-acyltransferase]]
	[[Category: Kumar, P]]		[[Category: Kumar, P]]

OCA at 20:56, 24 January 2018

2018-01-24T20:56:03Z

←Older revision		Revision as of 20:56, 24 January 2018
Line 3:		Line 3:
	<StructureSection load='6bms' size='340' side='right' caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>		<StructureSection load='6bms' size='340' side='right' caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">zdhhc15b ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_S-acyltransferase Protein S-acyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.1.225 2.3.1.225] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_S-acyltransferase Protein S-acyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.1.225 2.3.1.225] </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=6bms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bms OCA], [http://pdbe.org/6bms PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bms RCSB], [http://www.ebi.ac.uk/pdbsum/6bms PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bms 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=6bms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bms OCA], [http://pdbe.org/6bms PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bms RCSB], [http://www.ebi.ac.uk/pdbsum/6bms PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bms ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	DHHC (Asp-His-His-Cys) palmitoyltransferases are eukaryotic integral membrane enzymes that catalyze protein palmitoylation, which is important in a range of physiological processes, including small guanosine triphosphatase (GTPase) signaling, cell adhesion, and neuronal receptor scaffolding. We present crystal structures of two DHHC palmitoyltransferases and a covalent intermediate mimic. The active site resides at the membrane-cytosol interface, which allows the enzyme to catalyze thioester-exchange chemistry by using fatty acyl-coenzyme A and explains why membrane-proximal cysteines are candidates for palmitoylation. The acyl chain binds in a cavity formed by the transmembrane domain. We propose a mechanism for acyl chain-length selectivity in DHHC enzymes on the basis of cavity mutants with preferences for shorter and longer acyl chains.
		+
		+	Fatty acyl recognition and transfer by an integral membrane S-acyltransferase.,Rana MS, Kumar P, Lee CJ, Verardi R, Rajashankar KR, Banerjee A Science. 2018 Jan 12;359(6372). pii: 359/6372/eaao6326. doi:, 10.1126/science.aao6326. PMID:29326245<ref>PMID:29326245</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6bms" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Brachidanio rerio]]
	[[Category: Protein S-acyltransferase]]		[[Category: Protein S-acyltransferase]]
	[[Category: Kumar, P]]		[[Category: Kumar, P]]

OCA at 08:31, 10 January 2018

2018-01-10T08:31:56Z

←Older revision		Revision as of 08:31, 10 January 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6bms is ~~ON HOLD until Paper Publication~~	+	==Palmitoyltransferase structure==
-		+	<StructureSection load='6bms' size='340' side='right' caption='[[6bms]], [[Resolution\|resolution]] 2.44Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6bms]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMS FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_S-acyltransferase Protein S-acyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.1.225 2.3.1.225] </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=6bms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bms OCA], [http://pdbe.org/6bms PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bms RCSB], [http://www.ebi.ac.uk/pdbsum/6bms PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bms ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Protein S-acyltransferase]]
		+	[[Category: Kumar, P]]
		+	[[Category: Rajashankar, K]]
		+	[[Category: Membrane bound enzyme]]
		+	[[Category: Membrane protein]]

OCA at 04:58, 20 December 2017

2017-12-20T04:58:13Z

←Older revision		Revision as of 04:58, 20 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

2017-11-22T06:37:36Z

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

←Older revision

Revision as of 06:37, 22 November 2017

OCA: New page: '''Unreleased structure''' The entry 6bms is ON HOLD Authors: Description: Category: Unreleased Structures

2017-11-22T06:37:35Z

New page: '''Unreleased structure''' The entry 6bms is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6bms is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]