6akv - Revision history

OCA at 09:36, 22 November 2023

OCA — Wed, 22 Nov 2023 09:36:23 GMT

←Older revision		Revision as of 09:36, 22 November 2023
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	==Crystal structure of LysB4, the endolysin from Bacillus cereus-targeting bacteriophage B4==		==Crystal structure of LysB4, the endolysin from Bacillus cereus-targeting bacteriophage B4==
-	<StructureSection load='6akv' size='340' side='right' caption='[[6akv]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='6akv' size='340' side='right'caption='[[6akv]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6akv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AKV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6AKV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6akv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_phage_B4 Bacillus phage B4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AKV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AKV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.4Å</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=6akv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6akv OCA], [~~http~~://pdbe.org/6akv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6akv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6akv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6akv ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6akv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6akv OCA], [https://pdbe.org/6akv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6akv RCSB], [https://www.ebi.ac.uk/pdbsum/6akv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6akv ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/H9NAL3_9CAUD H9NAL3_9CAUD]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 16:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6akv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6akv" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lysin 3D structures\|Lysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ha, N C~~]]	+	[[Category: Bacillus phage B4]]
-	[[Category: ~~Hong, S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Endolysin]]~~	+	[[Category: Ha N-C]]
-	~~[[Category: Hydrolase]]~~	+	[[Category: Hong S]]
-	~~[[Category: L~~-~~alanoyl d-glutamate endopeptidase~~]]	+
-	[[Category: ~~Las type enzyme~~]]	+

OCA at 09:25, 13 February 2019

OCA — Wed, 13 Feb 2019 09:25:46 GMT

←Older revision		Revision as of 09:25, 13 February 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6akv is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of LysB4, the endolysin from Bacillus cereus-targeting bacteriophage B4==
		+	<StructureSection load='6akv' size='340' side='right' caption='[[6akv]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6akv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AKV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AKV FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6akv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6akv OCA], [http://pdbe.org/6akv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6akv RCSB], [http://www.ebi.ac.uk/pdbsum/6akv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6akv ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Endolysins are bacteriophage-derived enzymes that hydrolyze the peptidoglycan of host bacteria. Endolysins are considered to be promising tools for the control of pathogenic bacteria. LysB4 is an endolysin produced by Bacillus cereus-infecting bacteriophage B4, and consists of an N-terminal enzymatic active domain (EAD) and a C-terminal cell wall binding domain (CBD). LysB4 was discovered for the first time as an Lalanoyl-D-glutamate endopeptidase with the ability to breakdown the peptidoglycan among B. cereus-infecting phages. To understand the activity of LysB4 at the molecular level, this study determined the X-ray crystal structure of the LysB4 EAD, using the full-length LysB4 endolysin. The LysB4 EAD has an active site that is typical of LAS-type enzymes, where Zn(2+) is tetrahedrally coordinated by three amino acid residues and one water molecule. Mutational studies identified essential residues that are involved in lytic activity. Based on the structural and biochemical information about LysB4, we suggest a ligand-docking model and a putative endopeptidase mechanism for the LysB4 EAD. These suggestions add insight into the molecular mechanism of the endolysin LysB4 in B. cereus-infecting phages.

-	~~Authors~~:	+	Crystal Structure of LysB4, an Endolysin from Bacillus cereus-Targeting Bacteriophage B4.,Hong S, Son B, Ryu S, Ha NC Mol Cells. 2019 Jan 31;42(1):79-86. doi: 10.14348/molcells.2018.0379. Epub 2018, Dec 5. PMID:30518175<ref>PMID:30518175</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6akv" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ha, N C]]
		+	[[Category: Hong, S]]
		+	[[Category: Endolysin]]
		+	[[Category: Hydrolase]]
		+	[[Category: L-alanoyl d-glutamate endopeptidase]]
		+	[[Category: Las type enzyme]]

OCA at 06:08, 17 October 2018

OCA — Wed, 17 Oct 2018 06:08:25 GMT

←Older revision		Revision as of 06:08, 17 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6akv is ON HOLD	+	The entry 6akv is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 12 Sep 2018 05:56:15 GMT

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

←Older revision

Revision as of 05:56, 12 September 2018

OCA: New page: '''Unreleased structure''' The entry 6akv is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 12 Sep 2018 05:56:13 GMT

New page: '''Unreleased structure''' The entry 6akv is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6akv is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]