6pjq - Revision history

OCA at 07:30, 11 October 2023

OCA — Wed, 11 Oct 2023 07:30:55 GMT

←Older revision		Revision as of 07:30, 11 October 2023
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	<StructureSection load='6pjq' size='340' side='right'caption='[[6pjq]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='6pjq' size='340' side='right'caption='[[6pjq]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pjq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PJQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PJQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pjq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PJQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PJQ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>glpG, APT88_21985, SK83_00858 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~562~~ "~~Bacillus coli~~" ~~Migula 1895])</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]] 2.5Å</td></tr>
-	~~<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'~~>[~~http://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease~~]~~, with EC number [http://www~~.~~brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.105 3.4.21.105] </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=6pjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pjq OCA], [https://pdbe.org/6pjq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pjq RCSB], [https://www.ebi.ac.uk/pdbsum/6pjq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pjq 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=6pjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pjq OCA], [~~http~~://pdbe.org/6pjq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6pjq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6pjq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6pjq ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~A0A0J2E248_ECOLX A0A0J2E248_ECOLX]~~] Rhomboid-type serine protease that catalyzes intramembrane proteolysis.~~[HAMAP-Rule~~:~~MF_01594]~~	+	[https://www.uniprot.org/uniprot/GLPG_ECOLI GLPG_ECOLI] Rhomboid-type serine protease that catalyzes intramembrane proteolysis.<ref>PMID:17099694</ref> <ref>PMID:16216077</ref>
	<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: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Drosophila melanogaster]]
		+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Rhomboid protease]]~~	+	[[Category: Cho S]]
-	[[Category: Cho, S]]	+	[[Category: Urban S]]
-	[[Category: Urban, S]]	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Substrate complex~~]]	+

OCA at 12:27, 18 December 2019

OCA — Wed, 18 Dec 2019 12:27:41 GMT

←Older revision		Revision as of 12:27, 18 December 2019
Line 3:		Line 3:
	<StructureSection load='6pjq' size='340' side='right'caption='[[6pjq]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='6pjq' size='340' side='right'caption='[[6pjq]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pjq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PJQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pjq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PJQ FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.105 3.4.21.105] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, APT88_21985, SK83_00858 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.105 3.4.21.105] </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=6pjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pjq OCA], [http://pdbe.org/6pjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pjq RCSB], [http://www.ebi.ac.uk/pdbsum/6pjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pjq 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=6pjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pjq OCA], [http://pdbe.org/6pjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pjq RCSB], [http://www.ebi.ac.uk/pdbsum/6pjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pjq ProSAT]</span></td></tr>
	</table>		</table>
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	</div>		</div>
	<div class="pdbe-citations 6pjq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6pjq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Rhomboid protease\|Rhomboid protease]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]

OCA at 06:52, 27 November 2019

OCA — Wed, 27 Nov 2019 06:52:37 GMT

←Older revision		Revision as of 06:52, 27 November 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6pjq is ~~ON HOLD~~	+	==Time-resolved structural snapshot of proteolysis by GlpG inside the membrane==
		+	<StructureSection load='6pjq' size='340' side='right'caption='[[6pjq]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6pjq]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PJQ FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.105 3.4.21.105] </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=6pjq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pjq OCA], [http://pdbe.org/6pjq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pjq RCSB], [http://www.ebi.ac.uk/pdbsum/6pjq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pjq ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A0J2E248_ECOLX A0A0J2E248_ECOLX]] Rhomboid-type serine protease that catalyzes intramembrane proteolysis.[HAMAP-Rule:MF_01594]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein cleavage inside the cell membrane triggers various pathophysiological signaling pathways, but the mechanism of catalysis is poorly understood. We solved ten structures of the Escherichia coli rhomboid protease in a bicelle membrane undergoing time-resolved steps that encompass the entire proteolytic reaction on a transmembrane substrate and an aldehyde inhibitor. Extensive gate opening accompanied substrate, but not inhibitor, binding, revealing that substrates and inhibitors take different paths to the active site. Catalysis unexpectedly commenced with, and was guided through subsequent catalytic steps by, motions of an extracellular loop, with local contributions from active site residues. We even captured the elusive tetrahedral intermediate that is uncleaved but covalently attached to the catalytic serine, about which the substrate was forced to bend dramatically. This unexpectedly stable intermediate indicates rhomboid catalysis uses an unprecedented reaction coordinate that may involve mechanically stressing the peptide bond, and could be selectively targeted by inhibitors.

-	~~Authors: Urban, S~~., Cho, S.	+	Ten catalytic snapshots of rhomboid intramembrane proteolysis from gate opening to peptide release.,Cho S, Baker RP, Ji M, Urban S Nat Struct Mol Biol. 2019 Sep 30. pii: 10.1038/s41594-019-0296-9. doi:, 10.1038/s41594-019-0296-9. PMID:31570873<ref>PMID:31570873</ref>

-	~~Description: Time-resolved structural snapshot~~ of ~~proteolysis by GlpG inside~~ the ~~membrane~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6pjq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Rhomboid protease]]
	[[Category: Cho, S]]		[[Category: Cho, S]]
	[[Category: Urban, S]]		[[Category: Urban, S]]
		+	[[Category: Membrane protein]]
		+	[[Category: Substrate complex]]

OCA at 04:14, 7 August 2019

OCA — Wed, 07 Aug 2019 04:14:55 GMT

←Older revision		Revision as of 04:14, 7 August 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6pjq is ON HOLD ~~until sometime in the future~~	+	The entry 6pjq is ON HOLD

	Authors: Urban, S., Cho, S.		Authors: Urban, S., Cho, S.

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

OCA — Wed, 10 Jul 2019 04:09:22 GMT

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

←Older revision

Revision as of 04:09, 10 July 2019

OCA: New page: '''Unreleased structure''' The entry 6pjq is ON HOLD until sometime in the future Authors: Urban, S., Cho, S. Description: Time-resolved structural snapshot of proteolysis by GlpG insi...

OCA — Wed, 10 Jul 2019 04:09:20 GMT

New page: '''Unreleased structure''' The entry 6pjq is ON HOLD until sometime in the future Authors: Urban, S., Cho, S. Description: Time-resolved structural snapshot of proteolysis by GlpG insi...

New page

'''Unreleased structure'''

The entry 6pjq is ON HOLD until sometime in the future

Authors: Urban, S., Cho, S.

Description: Time-resolved structural snapshot of proteolysis by GlpG inside the membrane
[[Category: Unreleased Structures]]
[[Category: Cho, S]]
[[Category: Urban, S]]