4wvj - Revision history

OCA at 07:37, 27 September 2023

OCA — Wed, 27 Sep 2023 07:37:46 GMT

←Older revision		Revision as of 07:37, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12], [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_str._Newman Staphylococcus aureus subsp. aureus str. Newman]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12], [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_str._Newman Staphylococcus aureus subsp. aureus str. Newman]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</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]] 1.95Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [https://pdbe.org/4wvj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [https://www.ebi.ac.uk/pdbsum/4wvj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wvj 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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [https://pdbe.org/4wvj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [https://www.ebi.ac.uk/pdbsum/4wvj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wvj ProSAT]</span></td></tr>
	</table>		</table>

OCA at 20:59, 12 April 2023

OCA — Wed, 12 Apr 2023 20:59:22 GMT

←Older revision		Revision as of 20:59, 12 April 2023
Line 3:		Line 3:
	<StructureSection load='4wvj' size='340' side='right'caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='4wvj' size='340' side='right'caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco57 Eco57~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12], [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_str._Newman Staphylococcus aureus subsp. aureus str. Newman]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MAL~~:~~MALTOSE~~'>~~MAL~~</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wvg\|4wvg]]~~, ~~[[4wvi\|4wvi]], [[4wvh\|4wvh]]~~<~~/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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [https://pdbe.org/4wvj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [https://www.ebi.ac.uk/pdbsum/4wvj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wvj ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">spsB, SACOL0969 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</td></tr>~~	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Signal_peptidase_I Signal peptidase I], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.89 3.4.21.89] </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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [~~http~~://pdbe.org/4wvj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4wvj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4wvj ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~MALE_ECO57 MALE_ECO57~~]] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides ~~(By similarity)~~.	+	[https://www.uniprot.org/uniprot/LEP_STAAC LEP_STAAC] Essential for cell viability.[https://www.uniprot.org/uniprot/MALE_ECOLI MALE_ECOLI] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Eco57~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Signal peptidase I~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Baker, E N~~]]	+	[[Category: Staphylococcus aureus subsp. aureus str. Newman]]
-	[[Category: ~~Ting, Y T~~]]	+	[[Category: Baker EN]]
-	[[Category: ~~Young, P G~~]]	+	[[Category: Ting YT]]
-	[[Category: ~~Hydrolase-hydrolase inhibitor complex]]~~	+	[[Category: Young PG]]
-	~~[[Category: Spsb type-i signal peptidase peptide inhibitor complex cell secretion s. aureus mbp fusion~~]]	+

OCA at 08:44, 1 January 2020

OCA — Wed, 01 Jan 2020 08:44:49 GMT

←Older revision		Revision as of 08:44, 1 January 2020
Line 1:		Line 1:

	==Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in complex with an inhibitor peptide (pep3).==		==Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in complex with an inhibitor peptide (pep3).==
-	<StructureSection load='4wvj' size='340' side='right' caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='4wvj' size='340' side='right'caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Eco57]]		[[Category: Eco57]]
		+	[[Category: Large Structures]]
	[[Category: Signal peptidase I]]		[[Category: Signal peptidase I]]
	[[Category: Baker, E N]]		[[Category: Baker, E N]]

OCA at 05:45, 25 April 2018

OCA — Wed, 25 Apr 2018 05:45:46 GMT

←Older revision		Revision as of 05:45, 25 April 2018
Line 12:		Line 12:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/MALE_ECO57 MALE_ECO57]] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides (By similarity).		[[http://www.uniprot.org/uniprot/MALE_ECO57 MALE_ECO57]] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial type I signal peptidases (SPases) are membrane-anchored serine proteases that process the signal peptides of proteins exported via the Sec and Tat secretion systems. Despite their crucial importance for bacterial virulence and their attractiveness as drug targets, only one such enzyme, LepB from Escherichia coli, has been structurally characterized, and the transient nature of peptide binding has stymied attempts to directly visualize SPase-substrate complexes. Here, the crystal structure of SpsB, the type I signal peptidase from the Gram-positive pathogen Staphylococcus aureus, is reported, and a peptide-tethering strategy that exploits the use of carrier-driven crystallization is described. This enabled the determination of the crystal structures of three SpsB-peptide complexes, both with cleavable substrates and with an inhibitory peptide. SpsB-peptide interactions in these complexes are almost exclusively limited to the canonical signal-peptide motif Ala-X-Ala, for which clear specificity pockets are found. Minimal contacts are made outside this core, with the variable side chains of the peptides accommodated in shallow grooves or exposed faces. These results illustrate how high fidelity is retained despite broad sequence diversity, in a process that is vital for cell survival.
		+
		+	Peptide binding to a bacterial signal peptidase visualized by peptide tethering and carrier-driven crystallization.,Ting YT, Harris PW, Batot G, Brimble MA, Baker EN, Young PG IUCrJ. 2016 Jan 1;3(Pt 1):10-9. doi: 10.1107/S2052252515019971. eCollection 2016 , Jan 1. PMID:26870377<ref>PMID:26870377</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4wvj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 15:16, 16 November 2017

OCA — Thu, 16 Nov 2017 15:16:53 GMT

←Older revision		Revision as of 15:16, 16 November 2017
Line 3:		Line 3:
	<StructureSection load='4wvj' size='340' side='right' caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='4wvj' size='340' side='right' caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAL:MALTOSE'>MAL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAL:MALTOSE'>MAL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wvg\|4wvg]], [[4wvi\|4wvi]], [[4wvh\|4wvh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wvg\|4wvg]], [[4wvi\|4wvi]], [[4wvh\|4wvh]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spsB, SACOL0969 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Signal_peptidase_I Signal peptidase I], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.89 3.4.21.89] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Signal_peptidase_I Signal peptidase I], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.89 3.4.21.89] </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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [http://pdbe.org/4wvj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [http://www.ebi.ac.uk/pdbsum/4wvj 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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [http://pdbe.org/4wvj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [http://www.ebi.ac.uk/pdbsum/4wvj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4wvj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Eco57]]
	[[Category: Signal peptidase I]]		[[Category: Signal peptidase I]]
	[[Category: Baker, E N]]		[[Category: Baker, E N]]

OCA at 18:56, 20 February 2016

OCA — Sat, 20 Feb 2016 18:56:02 GMT

←Older revision		Revision as of 18:56, 20 February 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 4wvj is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in complex with an inhibitor peptide (pep3).==
-		+	<StructureSection load='4wvj' size='340' side='right' caption='[[4wvj]], [[Resolution\|resolution]] 1.95Å' scene=''>
-	~~Authors~~: ~~Young~~, P.G., ~~Ting~~, Y.T., ~~Baker~~, E.N.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4wvj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WVJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WVJ FirstGlance]. <br>
-	~~Description:~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MAL:MALTOSE'>MAL</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wvg\|4wvg]], [[4wvi\|4wvi]], [[4wvh\|4wvh]]</td></tr>
-	[[Category: ~~Ting, Y.T~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Signal_peptidase_I Signal peptidase I], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.89 3.4.21.89] </span></td></tr>
-	[[Category: Baker, E.N]]	+	<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=4wvj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wvj OCA], [http://pdbe.org/4wvj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wvj RCSB], [http://www.ebi.ac.uk/pdbsum/4wvj PDBsum]</span></td></tr>
-	[[Category: Young, P.G]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MALE_ECO57 MALE_ECO57]] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides (By similarity).
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Signal peptidase I]]
		+	[[Category: Baker, E N]]
		+	[[Category: Ting, Y T]]
		+	[[Category: Young, P G]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
		+	[[Category: Spsb type-i signal peptidase peptide inhibitor complex cell secretion s. aureus mbp fusion]]

OCA at 20:03, 24 December 2014

OCA — Wed, 24 Dec 2014 20:03:46 GMT

←Older revision		Revision as of 20:03, 24 December 2014
Line 5:		Line 5:
	Authors: Young, P.G., Ting, Y.T., Baker, E.N.		Authors: Young, P.G., Ting, Y.T., Baker, E.N.

-	Description:	+	Description:
		+	[[Category: Unreleased Structures]]
		+	[[Category: Ting, Y.T]]
		+	[[Category: Baker, E.N]]
		+	[[Category: Young, P.G]]

OCA: Protected "4wvj" [edit=sysop:move=sysop]

OCA — Wed, 19 Nov 2014 11:59:45 GMT

Protected "4wvj" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:59, 19 November 2014

OCA: New page: '''Unreleased structure''' The entry 4wvj is ON HOLD until Paper Publication Authors: Young, P.G., Ting, Y.T., Baker, E.N. Description:

OCA — Wed, 19 Nov 2014 11:59:43 GMT

New page: '''Unreleased structure''' The entry 4wvj is ON HOLD until Paper Publication Authors: Young, P.G., Ting, Y.T., Baker, E.N. Description:

New page

'''Unreleased structure'''

The entry 4wvj is ON HOLD until Paper Publication

Authors: Young, P.G., Ting, Y.T., Baker, E.N.

Description: