6m8o - Revision history

OCA at 06:26, 11 October 2023

OCA — Wed, 11 Oct 2023 06:26:17 GMT

←Older revision		Revision as of 06:26, 11 October 2023
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	<StructureSection load='6m8o' size='340' side='right'caption='[[6m8o]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='6m8o' size='340' side='right'caption='[[6m8o]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6m8o]] is a 1 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=6M8O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6M8O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6m8o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6M8O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6M8O FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.5Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>C3B39_09020, EP54_06415, EQ90_12235, HMPREF3211_02791 ([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=SO4:SULFATE+ION'>SO4</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=6m8o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6m8o OCA], [~~http~~://pdbe.org/6m8o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6m8o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6m8o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6m8o 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=6m8o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6m8o OCA], [https://pdbe.org/6m8o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6m8o RCSB], [https://www.ebi.ac.uk/pdbsum/6m8o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6m8o ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/LYTR_STAA8 LYTR_STAA8] Member of the two-component regulatory system LytR/LytS that regulates genes involved in autolysis, programmed cell death, biofilm formation and cell wall metabolism (PubMed:19502411). Participates also in sensing and responding to host defense cationic antimicrobial peptides (HDPs) (PubMed:23733465). Upon phosphorylation by LytS, functions as a transcription regulator by direct binding to promoter regions of target genes including lrgA and lrgB, to positively regulate their expression (PubMed:8824633, PubMed:25491472).<ref>PMID:19502411</ref> <ref>PMID:23733465</ref> <ref>PMID:25491472</ref> <ref>PMID:8824633</ref>
-	~~The response~~-regulatory ~~protein~~ LytR ~~belongs to a family of transcription factors~~ involved in ~~the regulation of important virulence factors in pathogenic bacteria. The protein consists of a receiver domain and an effector domain~~, ~~which play an important role in controlled~~ cell death ~~and lysis. The LytR receiver domain (LytR(N)) has been overexpressed~~, ~~purified~~ and ~~crystallized using the sitting-drop and hanging-drop vapour-diffusion methods. The crystals grew as needles, with unit-~~cell ~~parameters a = b = 84.82, c = 157.3 A, alpha = beta = 90, gamma = 120 degrees . LytR~~(N) ~~crystallized~~ in ~~space group P6122~~ and ~~the crystals diffracted~~ to ~~a maximum resolution of 2.34 A. Based on the Matthews coefficient~~ (V(M) ~~= 5~~.~~44 A~~(3) ~~Da(-1)), one molecule is estimated to be present in the asymmetric unit~~.	+

-	Expression, purification, crystallization and preliminary X-ray analysis of the receiver domain of Staphylococcus aureus LytR protein.,Shala A, Patel KH, Golemi-Kotra D, Audette GF Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Dec;69(Pt 12):1418-21., doi: 10.1107/S1744309113030972. Epub 2013 Nov 29. PMID:24316844<ref>PMID:24316844</ref>	+	==See Also==
-		+	*[[Response regulator 3D structure\|Response regulator 3D structure]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 6m8o" style~~=~~"background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Audette, G F~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Shala-Lawrence, A~~]]	+	[[Category: Audette GF]]
-	[[Category: ~~Receiver domain]]~~	+	[[Category: Shala-Lawrence A]]
-	~~[[Category: Response regulator]]~~	+
-	~~[[Category: Signaling protein]]~~	+
-	~~[[Category: Two~~-~~component system~~]]	+

OCA at 09:03, 8 January 2020

OCA — Wed, 08 Jan 2020 09:03:16 GMT

←Older revision		Revision as of 09:03, 8 January 2020
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	==Crystal structure of the receiver domain of LytR from Staphylococcus aureus==		==Crystal structure of the receiver domain of LytR from Staphylococcus aureus==
-	<StructureSection load='6m8o' size='340' side='right' caption='[[6m8o]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='6m8o' size='340' side='right'caption='[[6m8o]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6m8o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6M8O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6M8O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6m8o]] is a 1 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=6M8O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6M8O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C3B39_09020, EP54_06415, EQ90_12235, HMPREF3211_02791 ([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='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=6m8o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6m8o OCA], [http://pdbe.org/6m8o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6m8o RCSB], [http://www.ebi.ac.uk/pdbsum/6m8o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6m8o ProSAT]</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=6m8o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6m8o OCA], [http://pdbe.org/6m8o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6m8o RCSB], [http://www.ebi.ac.uk/pdbsum/6m8o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6m8o ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Audette, G F]]		[[Category: Audette, G F]]
	[[Category: Shala-Lawrence, A]]		[[Category: Shala-Lawrence, A]]

OCA at 19:59, 19 September 2018

OCA — Wed, 19 Sep 2018 19:59:04 GMT

←Older revision		Revision as of 19:59, 19 September 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6m8o is ~~ON HOLD~~	+	==Crystal structure of the receiver domain of LytR from Staphylococcus aureus==
		+	<StructureSection load='6m8o' size='340' side='right' caption='[[6m8o]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6m8o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6M8O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6M8O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6m8o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6m8o OCA], [http://pdbe.org/6m8o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6m8o RCSB], [http://www.ebi.ac.uk/pdbsum/6m8o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6m8o ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The response-regulatory protein LytR belongs to a family of transcription factors involved in the regulation of important virulence factors in pathogenic bacteria. The protein consists of a receiver domain and an effector domain, which play an important role in controlled cell death and lysis. The LytR receiver domain (LytR(N)) has been overexpressed, purified and crystallized using the sitting-drop and hanging-drop vapour-diffusion methods. The crystals grew as needles, with unit-cell parameters a = b = 84.82, c = 157.3 A, alpha = beta = 90, gamma = 120 degrees . LytR(N) crystallized in space group P6122 and the crystals diffracted to a maximum resolution of 2.34 A. Based on the Matthews coefficient (V(M) = 5.44 A(3) Da(-1)), one molecule is estimated to be present in the asymmetric unit.

-	~~Authors: Shala~~-~~Lawrence~~, A., Audette, G.F.	+	Expression, purification, crystallization and preliminary X-ray analysis of the receiver domain of Staphylococcus aureus LytR protein.,Shala A, Patel KH, Golemi-Kotra D, Audette GF Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Dec;69(Pt 12):1418-21., doi: 10.1107/S1744309113030972. Epub 2013 Nov 29. PMID:24316844<ref>PMID:24316844</ref>

-	~~Description: Crystal structure~~ of the ~~receiver domain~~ of ~~LytR from Staphylococcus aureus~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Audette, G.F]]	+	<div class="pdbe-citations 6m8o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Audette, G F]]
	[[Category: Shala-Lawrence, A]]		[[Category: Shala-Lawrence, A]]
		+	[[Category: Receiver domain]]
		+	[[Category: Response regulator]]
		+	[[Category: Signaling protein]]
		+	[[Category: Two-component system]]

OCA: Protected "6m8o" [edit=sysop:move=sysop]

OCA — Wed, 29 Aug 2018 06:07:42 GMT

Protected "6m8o" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:07, 29 August 2018

OCA: New page: '''Unreleased structure''' The entry 6m8o is ON HOLD Authors: Shala-Lawrence, A., Audette, G.F. Description: Crystal structure of the receiver domain of LytR from Staphylococcus aureus...

OCA — Wed, 29 Aug 2018 06:07:41 GMT

New page: '''Unreleased structure''' The entry 6m8o is ON HOLD Authors: Shala-Lawrence, A., Audette, G.F. Description: Crystal structure of the receiver domain of LytR from Staphylococcus aureus...

New page

'''Unreleased structure'''

The entry 6m8o is ON HOLD

Authors: Shala-Lawrence, A., Audette, G.F.

Description: Crystal structure of the receiver domain of LytR from Staphylococcus aureus
[[Category: Unreleased Structures]]
[[Category: Audette, G.F]]
[[Category: Shala-Lawrence, A]]