5jws - Revision history

OCA at 09:49, 27 September 2023

OCA — Wed, 27 Sep 2023 09:49:09 GMT

←Older revision		Revision as of 09:49, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5jws' size='340' side='right'caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='5jws' size='340' side='right'caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Enterobacteria_phage_t4_sensu_lato Enterobacteria~~ phage ~~t4 sensu lato~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JWS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_T4 Escherichia phage T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JWS FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=6OQ:2~~-~~ETHYL-1~~,~~2-DIHYDRO-~~1~~,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.65Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;'>[[5jwt\|5jwt]]~~, ~~[[5jwu\|5jwu]]~~, ~~[[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</div~~></td><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [https://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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [https://pdbe.org/5jws PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [https://www.ebi.ac.uk/pdbsum/5jws PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws 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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [https://pdbe.org/5jws PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [https://www.ebi.ac.uk/pdbsum/5jws PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[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>	+	[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 22:		Line 21:

	==See Also==		==See Also==
-	*[[Lysin\|Lysin]]	+	*[[Lysin 3D structures\|Lysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria~~ phage ~~t4 sensu lato~~]]	+	[[Category: Escherichia phage T4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Fischer M]]
-	[[Category: Fischer, M]]	+	[[Category: Lee H]]
-	[[Category: Lee, H]]	+	[[Category: Liu S-Y]]
-	[[Category: Liu, S Y]]	+	[[Category: Shoichet BK]]
-	[[Category: Shoichet~~, B K]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Phage lysozyme azaborine~~]]	+

OCA at 10:11, 13 April 2022

OCA — Wed, 13 Apr 2022 10:11:26 GMT

←Older revision		Revision as of 10:11, 13 April 2022
Line 3:		Line 3:
	<StructureSection load='5jws' size='340' side='right'caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='5jws' size='340' side='right'caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Enterobacteria_phage_t4_sensu_lato Enterobacteria phage t4 sensu lato]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5JWS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacteria_phage_t4_sensu_lato Enterobacteria phage t4 sensu lato]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JWS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jwt\|5jwt]], [[5jwu\|5jwu]], [[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[5jwt\|5jwt]], [[5jwu\|5jwu]], [[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</div></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'>[https://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [https://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~~://proteopedia.org/fgij/fg.htm?mol=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [~~http~~://pdbe.org/5jws PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jws PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws 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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [https://pdbe.org/5jws PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [https://www.ebi.ac.uk/pdbsum/5jws PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws 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/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 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5jws" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5jws" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lysin\|Lysin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:43, 17 June 2020

OCA — Wed, 17 Jun 2020 11:43:14 GMT

←Older revision		Revision as of 11:43, 17 June 2020
Line 1:		Line 1:

	==T4 Lysozyme L99A with 1-Hydro-2-ethyl-1,2-azaborine Bound==		==T4 Lysozyme L99A with 1-Hydro-2-ethyl-1,2-azaborine Bound==
-	<StructureSection load='5jws' size='340' side='right' caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='5jws' size='340' side='right'caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JWS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4_sensu_lato Enterobacteria phage t4 sensu lato]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JWS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jwt\|5jwt]], [[5jwu\|5jwu]], [[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jwt\|5jwt]], [[5jwu\|5jwu]], [[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [http://pdbe.org/5jws PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [http://www.ebi.ac.uk/pdbsum/5jws PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws 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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [http://pdbe.org/5jws PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [http://www.ebi.ac.uk/pdbsum/5jws PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Enterobacteria phage t4 sensu lato]]
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Fischer, M]]		[[Category: Fischer, M]]

OCA at 13:54, 21 September 2016

OCA — Wed, 21 Sep 2016 13:54:17 GMT

←Older revision		Revision as of 13:54, 21 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jws is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==T4 Lysozyme L99A with 1-Hydro-2-ethyl-1,2-azaborine Bound==
		+	<StructureSection load='5jws' size='340' side='right' caption='[[5jws]], [[Resolution\|resolution]] 1.65Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5jws]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JWS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JWS FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6OQ:2-ETHYL-1,2-DIHYDRO-1,2-AZABORININE'>6OQ</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jwt\|5jwt]], [[5jwu\|5jwu]], [[5jwv\|5jwv]], [[5jww\|5jww]], [[5jwx\|5jwx]]</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=5jws FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jws OCA], [http://pdbe.org/5jws PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jws RCSB], [http://www.ebi.ac.uk/pdbsum/5jws PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jws ProSAT]</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 ==
		+	Protein crystallography and calorimetry were used to characterize the binding of 1,2-azaborines to model cavities in T4 lysozyme in direct comparison to their carbonaceous counterparts. In the apolar L99A cavity, affinity for Ab dropped only slightly versus benzene. In the cavity designed to accommodate a single hydrogen bond (L99A/M102Q), Gln102 horizontal lineO...H-N hydrogen bonding for Ab and BEtAb was observed in the crystallographic complexes. The strength of the hydrogen bonding was estimated as 0.94 and 0.64 kcal/mol for Ab and BEtAb, respectively. This work unambiguously demonstrates that 1,2-azaborines can be readily accommodated in classic aryl recognition pockets and establishes one of 1,2-azaborine's distinguishing features from its carbonaceous isostere benzene: its ability to serve as an NH hydrogen bond donor in a biological setting.

-	~~Authors~~:	+	Hydrogen Bonding of 1,2-Azaborines in the Binding Cavity of T4 Lysozyme Mutants: Structures and Thermodynamics.,Lee H, Fischer M, Shoichet BK, Liu SY J Am Chem Soc. 2016 Sep 12. PMID:27603116<ref>PMID:27603116</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5jws" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Lysozyme]]
		+	[[Category: Fischer, M]]
		+	[[Category: Lee, H]]
		+	[[Category: Liu, S Y]]
		+	[[Category: Shoichet, B K]]
		+	[[Category: Hydrolase]]
		+	[[Category: Phage lysozyme azaborine]]

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

OCA — Wed, 01 Jun 2016 13:58:09 GMT

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

←Older revision

Revision as of 13:58, 1 June 2016

OCA: New page: '''Unreleased structure''' The entry 5jws is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 01 Jun 2016 13:58:07 GMT

New page: '''Unreleased structure''' The entry 5jws is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5jws is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]