5ewx - Revision history

OCA at 08:30, 12 July 2023

2023-07-12T08:30:37Z

←Older revision		Revision as of 08:30, 12 July 2023
Line 3:		Line 3:
	<StructureSection load='5ewx' size='340' side='right'caption='[[5ewx]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5ewx' size='340' side='right'caption='[[5ewx]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ewx]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus~~ aureus~~" (rosenbach 1884) zopf 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ewx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EWX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=EYC:2,2~~-~~ETHYNE-1~~,~~2-DIYLBIS{5-~~[~~(CHLOROACETYL)AMINO~~]~~BENZENESULFONIC+ACID}'>EYC</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]] 2.6Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>spa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1280~~ "~~Micrococcus aureus~~" ~~(Rosenbach 1884) Zopf 1885])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EYC:2,2-ETHYNE-1,2-DIYLBIS{5-[(CHLOROACETYL)AMINO]BENZENESULFONIC+ACID}'>EYC</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme]~~, ~~with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.2.~~1~~.17 3.~~2~~.1.17~~] </~~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=5ewx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewx OCA], [https://pdbe.org/5ewx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ewx RCSB], [https://www.ebi.ac.uk/pdbsum/5ewx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ewx 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=5ewx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewx OCA], [~~http~~://pdbe.org/5ewx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ewx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ewx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ewx ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4]] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>	+	[https://www.uniprot.org/uniprot/SPA_STAAU SPA_STAAU] [https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia virus T4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lysozyme~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: Jeong~~, W H~~]]	+	[[Category: Jeong WH]]
-	[[Category: Lee, H]]	+	[[Category: Lee H]]
-	[[Category: Lee~~, J O~~]]	+	[[Category: Lee JO]]
-	[[Category: Song~~, D H]]~~	+	[[Category: Song DH]]
-	~~[[Category: Alpha helix]]~~	+
-	~~[[Category: Cross-linker]]~~	+
-	~~[[Category: Ey-cb]]~~	+
-	~~[[Category: Fusion]]~~	+
-	~~[[Category: Protein binding~~]]	+

OCA at 07:48, 29 April 2020

2020-04-29T07:48:14Z

←Older revision		Revision as of 07:48, 29 April 2020
Line 1:		Line 1:

	==Fusion protein of T4 lysozyme and B4 domain of protein A from staphylococcal aureus with chemical cross-linker EY-CBS==		==Fusion protein of T4 lysozyme and B4 domain of protein A from staphylococcal aureus with chemical cross-linker EY-CBS==
-	<StructureSection load='5ewx' size='340' side='right' caption='[[5ewx]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5ewx' size='340' side='right'caption='[[5ewx]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ewx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWX OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ewx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EWX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EYC:2,2-ETHYNE-1,2-DIYLBIS{5-[(CHLOROACETYL)AMINO]BENZENESULFONIC+ACID}'>EYC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EYC:2,2-ETHYNE-1,2-DIYLBIS{5-[(CHLOROACETYL)AMINO]BENZENESULFONIC+ACID}'>EYC</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=5ewx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewx OCA], [http://pdbe.org/5ewx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ewx RCSB], [http://www.ebi.ac.uk/pdbsum/5ewx PDBsum]</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=5ewx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewx OCA], [http://pdbe.org/5ewx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ewx RCSB], [http://www.ebi.ac.uk/pdbsum/5ewx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ewx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Jeong, W H]]		[[Category: Jeong, W H]]

OCA at 20:33, 11 May 2016

2016-05-11T20:33:02Z

←Older revision		Revision as of 20:33, 11 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ewx is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Fusion protein of T4 lysozyme and B4 domain of protein A from staphylococcal aureus with chemical cross-linker EY-CBS==
		+	<StructureSection load='5ewx' size='340' side='right' caption='[[5ewx]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ewx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EWX FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EYC:2,2-ETHYNE-1,2-DIYLBIS{5-[(CHLOROACETYL)AMINO]BENZENESULFONIC+ACID}'>EYC</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=5ewx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewx OCA], [http://pdbe.org/5ewx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ewx RCSB], [http://www.ebi.ac.uk/pdbsum/5ewx PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4]] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Building a sophisticated protein nano-assembly requires a method for linking protein components in a predictable and stable structure. Most of the cross linkers available have flexible spacers. Because of this, the linked hybrids have significant structural flexibility and the relative structure between their two components is largely unpredictable. Here we describe a method of connecting two proteins via a 'fusion alpha helix' formed by joining two pre-existing helices into a single extended helix. Because simple ligation of two helices does not guarantee the formation of a continuous helix, we used EY-CBS, a synthetic cross linker that has been shown to react selectively with cysteines in alpha-helices, to stabilize the connecting helix. Formation and stabilization of the fusion helix was confirmed by determining the crystal structures of the fusion proteins with and without bound EY-CBS. Our method should be widely applicable for linking protein building blocks to generate predictable structures.

-	~~Authors: Jeong, W.H~~., ~~Lee~~, H., Song, ~~D.H.~~, Lee, J.O.	+	Connecting two proteins using a fusion alpha helix stabilized by a chemical cross linker.,Jeong WH, Lee H, Song DH, Eom JH, Kim SC, Lee HS, Lee H, Lee JO Nat Commun. 2016 Mar 16;7:11031. doi: 10.1038/ncomms11031. PMID:26980593<ref>PMID:26980593</ref>

-	~~Description: Fusion protein~~ of ~~T4 lysozyme and B4 domain~~ of ~~protein A from staphylococcal aureus with chemical cross~~-~~linker EY~~-~~CBS~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Song, D.H~~]]	+	<div class="pdbe-citations 5ewx" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Lee~~, ~~J.O~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Lysozyme]]
		+	[[Category: Jeong, W H]]
	[[Category: Lee, H]]		[[Category: Lee, H]]
-	[[Category: ~~Jeong~~, W.H]]	+	[[Category: Lee, J O]]
		+	[[Category: Song, D H]]
		+	[[Category: Alpha helix]]
		+	[[Category: Cross-linker]]
		+	[[Category: Ey-cb]]
		+	[[Category: Fusion]]
		+	[[Category: Protein binding]]

OCA at 12:28, 3 February 2016

2016-02-03T12:28:15Z

←Older revision		Revision as of 12:28, 3 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ewx is ON HOLD	+	The entry 5ewx is ON HOLD until Paper Publication

	Authors: Jeong, W.H., Lee, H., Song, D.H., Lee, J.O.		Authors: Jeong, W.H., Lee, H., Song, D.H., Lee, J.O.

OCA: Protected "5ewx" [edit=sysop:move=sysop]

2015-12-02T15:06:05Z

Protected "5ewx" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:06, 2 December 2015

OCA: New page: '''Unreleased structure''' The entry 5ewx is ON HOLD Authors: Jeong, W.H., Lee, H., Song, D.H., Lee, J.O. Description: Fusion protein of T4 lysozyme and B4 domain of protein A from sta...

2015-12-02T15:06:04Z

New page: '''Unreleased structure''' The entry 5ewx is ON HOLD Authors: Jeong, W.H., Lee, H., Song, D.H., Lee, J.O. Description: Fusion protein of T4 lysozyme and B4 domain of protein A from sta...

New page

'''Unreleased structure'''

The entry 5ewx is ON HOLD

Authors: Jeong, W.H., Lee, H., Song, D.H., Lee, J.O.

Description: Fusion protein of T4 lysozyme and B4 domain of protein A from staphylococcal aureus with chemical cross-linker EY-CBS
[[Category: Unreleased Structures]]
[[Category: Song, D.H]]
[[Category: Lee, J.O]]
[[Category: Lee, H]]
[[Category: Jeong, W.H]]