5yh8 - Revision history

OCA at 10:23, 27 March 2024

2024-03-27T10:23:28Z

←Older revision		Revision as of 10:23, 27 March 2024
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	==The crystal structure of Staphylococcus aureus CntA in complex with staphylopine and nickel==		==The crystal structure of Staphylococcus aureus CntA in complex with staphylopine and nickel==
-	<StructureSection load='5yh8' size='340' side='right' caption='[[5yh8]], [[Resolution\|resolution]] 2.12Å' scene=''>	+	<StructureSection load='5yh8' size='340' side='right'caption='[[5yh8]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yh8]] 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=5YH8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YH8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yh8]] 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=5YH8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YH8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8UX:(2~{S})-4-[[(2~{R})-3-(1~{H}-imidazol-4-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic+acid'>8UX</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 2.12Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">opp-1A, AYM28_13740, AYM37_13740, ERS072738_00487, ERS074020_00717, HMPREF3211_02361 ([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=8UX:(2~{S})-4-[[(2~{R})-3-(1~{H}-imidazol-4-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic+acid'>8UX</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5yh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yh8 OCA], [~~http~~://pdbe.org/5yh8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yh8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yh8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yh8 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=5yh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yh8 OCA], [https://pdbe.org/5yh8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yh8 RCSB], [https://www.ebi.ac.uk/pdbsum/5yh8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yh8 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/CNTA_STAA8 CNTA_STAA8] Part of the ABC transporter complex CntABCDF (Opp1) involved in the uptake of metal in complex with the metallophore staphylopine (StP). Involved in the import of divalent metals ions such as nickel, cobalt and zinc. Binds the metal via the metallophore StP, and transfers the StP-metal complex to the membrane-bound permease (PubMed:23279021, PubMed:29581261). Binds one molecule of StP/metal. Binds StP/Co(2+) and StP/Ni(2+) tighter than StP/Zn(2+) (PubMed:29581261). Plays a major role in nickel/cobalt import in zinc-depleted conditions. Contributes to virulence. Required for full urease activity in vitro (PubMed:23279021).<ref>PMID:23279021</ref> <ref>PMID:29581261</ref>
-	~~Metal acquisition is vital to pathogens for successful infection within hosts~~. ~~Staphylopine~~ (~~StP~~)~~, a broad-spectrum metallophore biosynthesized by the major human pathogen, Staphylococcus aureus, plays a central role~~ in ~~transition-~~metal ~~acquisition and bacterial virulence. The StP-like biosynthesis loci are present~~ in ~~various pathogens, and~~ the ~~proteins responsible for~~ StP~~/metal transportation have been determined~~. ~~However,~~ the ~~molecular mechanisms~~ of ~~how StP/metal complexes are recognized~~ and ~~transported remain unknown~~. ~~We report multiple structures of~~ the ~~extracytoplasmic solute-binding protein CntA from~~ the StP~~/metal transportation system in apo form~~ and ~~in complex with~~ StP ~~and three different metals. We elucidated a sophisticated~~ metal-bound ~~StP recognition mechanism and determined that~~ StP/metal ~~binding triggers a notable interdomain conformational change in CntA~~. ~~Furthermore, CRISPR~~/~~Cas9-mediated single-base substitution mutations~~ and ~~biochemical analysis highlight the importance of~~ StP/~~metal recognition for~~ StP/~~metal acquisition~~. ~~These discoveries provide critical insights into the study of novel metal~~-~~acquisition mechanisms~~ in ~~microbes~~.	+

-	Mechanistic insights into staphylopine-mediated metal acquisition.,Song L, Zhang Y, Chen W, Gu T, Zhang SY, Ji Q Proc Natl Acad Sci U S A. 2018 Mar 26. pii: 1718382115. doi:, 10.1073/pnas.1718382115. PMID:29581261<ref>PMID:29581261</ref>	+	==See Also==
-		+	*[[ABC transporter 3D structures\|ABC transporter 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 5yh8" style~~=~~"background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ji, Q~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Song, L~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Complex~~]]	+	[[Category: Ji Q]]
-	[[Category: ~~Metal binding protein]]~~	+	[[Category: Song L]]
-	~~[[Category: Receptor~~]]	+

OCA at 14:14, 11 April 2018

2018-04-11T14:14:59Z

←Older revision		Revision as of 14:14, 11 April 2018
Line 3:		Line 3:
	<StructureSection load='5yh8' size='340' side='right' caption='[[5yh8]], [[Resolution\|resolution]] 2.12Å' scene=''>		<StructureSection load='5yh8' size='340' side='right' caption='[[5yh8]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yh8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YH8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YH8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yh8]] 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=5YH8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YH8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8UX:(2~{S})-4-[[(2~{R})-3-(1~{H}-imidazol-4-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic+acid'>8UX</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8UX:(2~{S})-4-[[(2~{R})-3-(1~{H}-imidazol-4-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic+acid'>8UX</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">opp-1A, AYM28_13740, AYM37_13740, ERS072738_00487, ERS074020_00717, HMPREF3211_02361 ([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=5yh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yh8 OCA], [http://pdbe.org/5yh8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yh8 RCSB], [http://www.ebi.ac.uk/pdbsum/5yh8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yh8 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=5yh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yh8 OCA], [http://pdbe.org/5yh8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yh8 RCSB], [http://www.ebi.ac.uk/pdbsum/5yh8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yh8 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Metal acquisition is vital to pathogens for successful infection within hosts. Staphylopine (StP), a broad-spectrum metallophore biosynthesized by the major human pathogen, Staphylococcus aureus, plays a central role in transition-metal acquisition and bacterial virulence. The StP-like biosynthesis loci are present in various pathogens, and the proteins responsible for StP/metal transportation have been determined. However, the molecular mechanisms of how StP/metal complexes are recognized and transported remain unknown. We report multiple structures of the extracytoplasmic solute-binding protein CntA from the StP/metal transportation system in apo form and in complex with StP and three different metals. We elucidated a sophisticated metal-bound StP recognition mechanism and determined that StP/metal binding triggers a notable interdomain conformational change in CntA. Furthermore, CRISPR/Cas9-mediated single-base substitution mutations and biochemical analysis highlight the importance of StP/metal recognition for StP/metal acquisition. These discoveries provide critical insights into the study of novel metal-acquisition mechanisms in microbes.
		+
		+	Mechanistic insights into staphylopine-mediated metal acquisition.,Song L, Zhang Y, Chen W, Gu T, Zhang SY, Ji Q Proc Natl Acad Sci U S A. 2018 Mar 26. pii: 1718382115. doi:, 10.1073/pnas.1718382115. PMID:29581261<ref>PMID:29581261</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5yh8" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:35, 28 March 2018

2018-03-28T06:35:27Z

←Older revision		Revision as of 06:35, 28 March 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 5yh8 is ~~ON HOLD until Paper Publication~~	+	==The crystal structure of Staphylococcus aureus CntA in complex with staphylopine and nickel==
-		+	<StructureSection load='5yh8' size='340' side='right' caption='[[5yh8]], [[Resolution\|resolution]] 2.12Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5yh8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YH8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YH8 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8UX:(2~{S})-4-[[(2~{R})-3-(1~{H}-imidazol-4-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic+acid'>8UX</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5yh8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yh8 OCA], [http://pdbe.org/5yh8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yh8 RCSB], [http://www.ebi.ac.uk/pdbsum/5yh8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yh8 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ji, Q]]
		+	[[Category: Song, L]]
		+	[[Category: Complex]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Receptor]]

OCA: Protected "5yh8" [edit=sysop:move=sysop]

2017-10-04T08:06:32Z

Protected "5yh8" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:06, 4 October 2017

OCA: New page: '''Unreleased structure''' The entry 5yh8 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2017-10-04T08:06:31Z

New page: '''Unreleased structure''' The entry 5yh8 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5yh8 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]