3odj - Revision history

OCA at 10:34, 21 February 2024

OCA — Wed, 21 Feb 2024 10:34:00 GMT

←Older revision		Revision as of 10:34, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3odj' size='340' side='right'caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>		<StructureSection load='3odj' size='340' side='right'caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium~~ influenzae~~" lehmann and neumann 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[2nr9\|2nr9]], [[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</div></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]] 2.84Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">glpG, HI_0618 ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease], with EC number [https://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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [https://pdbe.org/3odj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [https://www.ebi.ac.uk/pdbsum/3odj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3odj ProSAT]</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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [https://pdbe.org/3odj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [https://www.ebi.ac.uk/pdbsum/3odj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3odj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/GLPG_HAEIN GLPG_HAEIN]] Rhomboid-type serine protease that catalyzes intramembrane proteolysis (By similarity).	+	[https://www.uniprot.org/uniprot/GLPG_HAEIN GLPG_HAEIN] Rhomboid-type serine protease that catalyzes intramembrane proteolysis (By similarity).
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Rhomboids are a remarkable class of serine proteases that are embedded in lipid membranes. These membrane-bound enzymes play key roles in cellular signaling events, and disruptions in these events can result in numerous disease pathologies, including hereditary blindness, type 2 diabetes, Parkinson's disease, and epithelial cancers. Recent crystal structures of rhomboids from Escherichia coli have focused on how membrane-bound substrates gain access to a buried active site. In E. coli, it has been shown that movements of loop 5, with smaller movements in helix 5 and loop 4, act as substrate gate, facilitating inhibitor access to rhomboid catalytic residues. Herein we present a new structure of the Haemophilus influenzae rhomboid hiGlpG, which reveals disorder in loop 5, helix 5, and loop 4, indicating that, together, they represent mobile elements of the substrate gate. Substrate cleavage assays by hiGlpG with amino acid substitutions in these mobile regions demonstrate that the flexibilities of both loop 5 and helix 5 are important for access of the substrates to the catalytic residues. Mutagenesis indicates that less mobility by loop 4 is required for substrate cleavage. A reexamination of the reaction mechanism of rhomboid substrates, whereby cleavage of the scissile bond occurs on the si-face of the peptide bond, is discussed.	+
-		+
-	~~Insights into Substrate Gating in H. influenzae Rhomboid.,Brooks CL, Lazareno-Saez C, Lamoureux JS, Mak MW, Lemieux MJ J Mol Biol. 2011 Feb 3. PMID:21295583<ref>PMID:21295583</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Rhomboid protease\|Rhomboid protease]]		*[[Rhomboid protease\|Rhomboid protease]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacterium~~ influenzae ~~lehmann and neumann 1896~~]]	+	[[Category: Haemophilus influenzae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Rhomboid protease]]~~	+	[[Category: Brooks CL]]
-	[[Category: Brooks~~, C L~~]]	+	[[Category: Lamoureux JS]]
-	[[Category: Lamoureux~~, J S~~]]	+	[[Category: Lazareno-Saez C]]
-	[[Category: Lazareno-Saez, C]]	+	[[Category: Lemieux MJ]]
-	[[Category: Lemieux~~, M J~~]]	+	[[Category: Mak MW]]
-	[[Category: Mak~~, M W]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Rhomboid peptidase~~]]	+

OCA at 10:40, 18 May 2022

OCA — Wed, 18 May 2022 10:40:28 GMT

←Older revision		Revision as of 10:40, 18 May 2022
Line 1:		Line 1:

	==Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5==		==Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5==
-	<StructureSection load='3odj' size='340' side='right' caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>	+	<StructureSection load='3odj' size='340' side='right'caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nr9\|2nr9]], [[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2nr9\|2nr9]], [[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Rhomboid_protease Rhomboid protease], with EC number [https://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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [~~http~~://pdbe.org/3odj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3odj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3odj ProSAT]</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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [https://pdbe.org/3odj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [https://www.ebi.ac.uk/pdbsum/3odj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3odj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/GLPG_HAEIN GLPG_HAEIN]] Rhomboid-type serine protease that catalyzes intramembrane proteolysis (By similarity).	+	[[https://www.uniprot.org/uniprot/GLPG_HAEIN GLPG_HAEIN]] Rhomboid-type serine protease that catalyzes intramembrane proteolysis (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Rhomboid protease\|Rhomboid protease]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Bacterium influenzae lehmann and neumann 1896]]		[[Category: Bacterium influenzae lehmann and neumann 1896]]
		+	[[Category: Large Structures]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]
	[[Category: Brooks, C L]]		[[Category: Brooks, C L]]

OCA at 07:52, 22 November 2017

OCA — Wed, 22 Nov 2017 07:52:14 GMT

←Older revision		Revision as of 07:52, 22 November 2017
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nr9\|2nr9]], [[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</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='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>

OCA at 08:43, 8 November 2017

OCA — Wed, 08 Nov 2017 08:43:40 GMT

←Older revision		Revision as of 08:43, 8 November 2017
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Rhomboid protease\|Rhomboid protease]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:49, 5 August 2016

OCA — Fri, 05 Aug 2016 21:49:50 GMT

←Older revision		Revision as of 21:49, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5==		==Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5==
	<StructureSection load='3odj' size='340' side='right' caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>		<StructureSection load='3odj' size='340' side='right' caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_influenzae Haemophilus~~ influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 ~~Haemophilus~~ influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</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='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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [http://www.ebi.ac.uk/pdbsum/3odj PDBsum]</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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [http://pdbe.org/3odj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [http://www.ebi.ac.uk/pdbsum/3odj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3odj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3odj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haemophilus~~ influenzae]]	+	[[Category: Bacterium influenzae lehmann and neumann 1896]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]
	[[Category: Brooks, C L]]		[[Category: Brooks, C L]]

OCA at 06:07, 25 December 2014

OCA — Thu, 25 Dec 2014 06:07:37 GMT

←Older revision		Revision as of 06:07, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
-	<tr><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='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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [http://www.ebi.ac.uk/pdbsum/3odj PDBsum]</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=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [http://www.ebi.ac.uk/pdbsum/3odj PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GLPG_HAEIN GLPG_HAEIN]] Rhomboid-type serine protease that catalyzes intramembrane proteolysis (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 16:
	Insights into Substrate Gating in H. influenzae Rhomboid.,Brooks CL, Lazareno-Saez C, Lamoureux JS, Mak MW, Lemieux MJ J Mol Biol. 2011 Feb 3. PMID:21295583<ref>PMID:21295583</ref>		Insights into Substrate Gating in H. influenzae Rhomboid.,Brooks CL, Lazareno-Saez C, Lamoureux JS, Mak MW, Lemieux MJ J Mol Biol. 2011 Feb 3. PMID:21295583<ref>PMID:21295583</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, a database of the U.S. National Library of Medicine.<br>	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+
		+	==See Also==
		+	*[[Rhomboid protease\|Rhomboid protease]]
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 27:
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]
-	[[Category: Brooks, C L.]]	+	[[Category: Brooks, C L]]
-	[[Category: Lamoureux, J S.]]	+	[[Category: Lamoureux, J S]]
-	[[Category: Lazareno-Saez, C.]]	+	[[Category: Lazareno-Saez, C]]
-	[[Category: Lemieux, M J.]]	+	[[Category: Lemieux, M J]]
-	[[Category: Mak, M W.]]	+	[[Category: Mak, M W]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Rhomboid peptidase]]		[[Category: Rhomboid peptidase]]

OCA at 10:29, 28 May 2014

OCA — Wed, 28 May 2014 10:29:52 GMT

←Older revision		Revision as of 10:29, 28 May 2014
Line 1:		Line 1:
-	[[~~Image:~~3odj.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5==
		+	<StructureSection load='3odj' size='340' side='right' caption='[[3odj]], [[Resolution\|resolution]] 2.84Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ODJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b44\|3b44]], [[3b45\|3b45]], [[2o7l\|2o7l]], [[2nrf\|2nrf]], [[2irv\|2irv]], [[2ic8\|2ic8]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">glpG, HI_0618 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
		+	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3odj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3odj RCSB], [http://www.ebi.ac.uk/pdbsum/3odj PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rhomboids are a remarkable class of serine proteases that are embedded in lipid membranes. These membrane-bound enzymes play key roles in cellular signaling events, and disruptions in these events can result in numerous disease pathologies, including hereditary blindness, type 2 diabetes, Parkinson's disease, and epithelial cancers. Recent crystal structures of rhomboids from Escherichia coli have focused on how membrane-bound substrates gain access to a buried active site. In E. coli, it has been shown that movements of loop 5, with smaller movements in helix 5 and loop 4, act as substrate gate, facilitating inhibitor access to rhomboid catalytic residues. Herein we present a new structure of the Haemophilus influenzae rhomboid hiGlpG, which reveals disorder in loop 5, helix 5, and loop 4, indicating that, together, they represent mobile elements of the substrate gate. Substrate cleavage assays by hiGlpG with amino acid substitutions in these mobile regions demonstrate that the flexibilities of both loop 5 and helix 5 are important for access of the substrates to the catalytic residues. Mutagenesis indicates that less mobility by loop 4 is required for substrate cleavage. A reexamination of the reaction mechanism of rhomboid substrates, whereby cleavage of the scissile bond occurs on the si-face of the peptide bond, is discussed.

-	<!--	+	Insights into Substrate Gating in H. influenzae Rhomboid.,Brooks CL, Lazareno-Saez C, Lamoureux JS, Mak MW, Lemieux MJ J Mol Biol. 2011 Feb 3. PMID:21295583<ref>PMID:21295583</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3odj"~~, ~~creates the "Structure Box" on the page.~~	+
-	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded)~~,	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_3odj\| PDB=3odj \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21295583}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21295583 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21295583}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3odj]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:21295583<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]
Line 30:		Line 27:
	[[Category: Lemieux, M J.]]		[[Category: Lemieux, M J.]]
	[[Category: Mak, M W.]]		[[Category: Mak, M W.]]
		+	[[Category: Hydrolase]]
		+	[[Category: Membrane protein]]
		+	[[Category: Rhomboid peptidase]]

OCA at 07:28, 30 March 2011

OCA — Wed, 30 Mar 2011 07:28:55 GMT

←Older revision		Revision as of 07:28, 30 March 2011
Line 1:		Line 1:
-	[[Image:3odj.~~jpg~~\|left\|200px]]	+	[[Image:3odj.png\|left\|200px]]

	<!--		<!--
Line 19:		Line 19:

	==About this Structure==		==About this Structure==
-	[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermomicrobium_roseum Thermomicrobium roseum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA].	+	[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:21295583</ref><references group="xtra"/>		<ref group="xtra">PMID:21295583</ref><references group="xtra"/>
		+	[[Category: Haemophilus influenzae]]
	[[Category: Rhomboid protease]]		[[Category: Rhomboid protease]]
-	[[Category: Thermomicrobium roseum]]
	[[Category: Brooks, C L.]]		[[Category: Brooks, C L.]]
	[[Category: Lamoureux, J S.]]		[[Category: Lamoureux, J S.]]

OCA at 09:51, 23 February 2011

OCA — Wed, 23 Feb 2011 09:51:37 GMT

←Older revision		Revision as of 09:51, 23 February 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3odj.jpg\|left\|200px]]

-	The ~~entry 3odj~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3odj", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3odj\| PDB=3odj \| SCENE= }}

-	~~Authors: Brooks, C.L~~., ~~Lazareno-Saez, C., Lamoureux, J.S., Mak, M.W., Lemieux, M.J.~~	+	===Crystal structure of H. influenzae rhomboid GlpG with disordered loop 4, helix 5 and loop 5===

-	~~Description~~: ~~Crystal structure of H~~. ~~influenzae rhomboid GlpG~~ with ~~disordered loop 4~~, ~~helix 5 and loop 5~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21295583}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21295583 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21295583}}
		+
		+	==About this Structure==
		+	[[3odj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermomicrobium_roseum Thermomicrobium roseum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ODJ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21295583</ref><references group="xtra"/>
		+	[[Category: Rhomboid protease]]
		+	[[Category: Thermomicrobium roseum]]
		+	[[Category: Brooks, C L.]]
		+	[[Category: Lamoureux, J S.]]
		+	[[Category: Lazareno-Saez, C.]]
		+	[[Category: Lemieux, M J.]]
		+	[[Category: Mak, M W.]]

OCA: Protected "3odj" [edit=sysop:move=sysop]

OCA — Wed, 29 Dec 2010 18:11:14 GMT

Protected "3odj" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:11, 29 December 2010