3qzp - Revision history

OCA at 12:04, 14 March 2024

OCA — Thu, 14 Mar 2024 12:04:12 GMT

←Older revision		Revision as of 12:04, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3qzp' size='340' side='right'caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3qzp' size='340' side='right'caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Staan Staan~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QZP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_N315 Staphylococcus aureus subsp. aureus N315]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QZP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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]] 1.9Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158879 STAAN])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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'>[https://proteopedia.org/fgij/fg.htm?mol=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [https://pdbe.org/3qzp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [https://www.ebi.ac.uk/pdbsum/3qzp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qzp 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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [https://pdbe.org/3qzp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [https://www.ebi.ac.uk/pdbsum/3qzp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qzp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ISDA_STAAN ISDA_STAAN]] Transfers its hemin to hemin-free IsdC (apo-IsdC) directly probably through the activated holo-IsdA-apo-IsdC complex and driven by the higher affinity of apo-IsdC for the cofactor. The reaction is reversible. Binds transferrin, lactoferrin, heme, hemoglobin, hemin, fetuin, asialofetuin and protein A. Also binds fibronectin and chains B-beta and gamma of fibrinogen. Could play a role in the removal of heme from hemoglobin. The IsdA-mediated iron-acquisition system from transferrin could play only an ancillary role in the iron uptake whereas the siderophore-mediated iron-acquisition system from transferrin seems to play an essential or dominant role. May function as a reservoir for heme. Involved in adherence of S.aureus to human desquamated nasal epithelial cells and is required for nasal colonization. Protects S.aureus against the bactericidal protease activity of apolactoferrin in vitro and confers resistance to bovine lactoferricin. Also IsdA and/or IsdB promote resistance to hydrogen peroxide and killing by neutrophils (By similarity).	+	[https://www.uniprot.org/uniprot/ISDA_STAAN ISDA_STAAN] Transfers its hemin to hemin-free IsdC (apo-IsdC) directly probably through the activated holo-IsdA-apo-IsdC complex and driven by the higher affinity of apo-IsdC for the cofactor. The reaction is reversible. Binds transferrin, lactoferrin, heme, hemoglobin, hemin, fetuin, asialofetuin and protein A. Also binds fibronectin and chains B-beta and gamma of fibrinogen. Could play a role in the removal of heme from hemoglobin. The IsdA-mediated iron-acquisition system from transferrin could play only an ancillary role in the iron uptake whereas the siderophore-mediated iron-acquisition system from transferrin seems to play an essential or dominant role. May function as a reservoir for heme. Involved in adherence of S.aureus to human desquamated nasal epithelial cells and is required for nasal colonization. Protects S.aureus against the bactericidal protease activity of apolactoferrin in vitro and confers resistance to bovine lactoferricin. Also IsdA and/or IsdB promote resistance to hydrogen peroxide and killing by neutrophils (By similarity).
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	In humans, heme iron is the most abundant iron source, and bacterial pathogens such as Staphylococcus aureus acquire it for growth. IsdB of S. aureus acquires Fe(III)-protoporphyrin IX (heme) from hemoglobin for transfer to IsdC via IsdA. These three cell-wall-anchored Isd (iron-regulated surface determinant) proteins contain conserved NEAT (near iron transport) domains. The purpose of this work was to delineate the mechanism of heme binding and transfer between the NEAT domains of IsdA, IsdB, and IsdC using a combination of structural and spectroscopic studies. X-ray crystal structures of IsdA NEAT domain (IsdA-N1) variants reveal that removing the native heme-iron ligand Tyr166 is compensated for by iron coordination by His83 on the distal side and that no single mutation of distal loop residues is sufficient to perturb the IsdA-heme complex. Also, alternate heme-iron coordination was observed in structures of IsdA-N1 bound to reduced Fe(II)-protoporphyrin IX and Co(III)-protoporphyrin IX. The IsdA-N1 structural data were correlated with heme transfer kinetics from the NEAT domains of IsdB and IsdC. We demonstrated that the NEAT domains transfer heme at rates comparable to full-length proteins. The second-order rate constant for heme transfer from IsdA-N1 was modestly affected (<2-fold) by the IsdA variants, excluding those at Tyr166. Substituting Tyr166 with Ala or Phe changed the reaction mechanism to one with two observable steps and decreased observed rates >15-fold (to 100-fold excess IsdC). We propose a heme transfer model wherein NEAT domain complexes pass heme iron directly from an iron-coordinating Tyr of the donor protein to the homologous Tyr residues of the acceptor protein.	+
-		+
-	~~Iron-Coordinating Tyrosine Is a Key Determinant of NEAT Domain Heme Transfer.,Grigg JC, Mao CX, Murphy ME J Mol Biol. 2011 Aug 26. PMID:21893067<ref>PMID:21893067</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3qzp" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Staan~~]]	+	[[Category: Staphylococcus aureus subsp. aureus N315]]
-	[[Category: Grigg~~, J C~~]]	+	[[Category: Grigg JC]]
-	[[Category: Mao~~, C X~~]]	+	[[Category: Mao CX]]
-	[[Category: Murphy~~, M E.P]]~~	+	[[Category: Murphy MEP]]
-	~~[[Category: Cell wall]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Receptor]]~~	+
-	~~[[Category: Transport]]~~	+
-	~~[[Category: Uptake~~]]	+

OCA at 05:42, 15 June 2022

OCA — Wed, 15 Jun 2022 05:42:48 GMT

←Older revision		Revision as of 05:42, 15 June 2022
Line 1:		Line 1:

	==Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX==		==Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX==
-	<StructureSection load='3qzp' size='340' side='right' caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='3qzp' size='340' side='right'caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Staan Staan]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3QZP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staan Staan]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QZP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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" id="ligandDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158879 STAAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158879 STAAN])</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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [~~http~~://pdbe.org/3qzp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3qzp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3qzp 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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [https://pdbe.org/3qzp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [https://www.ebi.ac.uk/pdbsum/3qzp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qzp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ISDA_STAAN ISDA_STAAN]] Transfers its hemin to hemin-free IsdC (apo-IsdC) directly probably through the activated holo-IsdA-apo-IsdC complex and driven by the higher affinity of apo-IsdC for the cofactor. The reaction is reversible. Binds transferrin, lactoferrin, heme, hemoglobin, hemin, fetuin, asialofetuin and protein A. Also binds fibronectin and chains B-beta and gamma of fibrinogen. Could play a role in the removal of heme from hemoglobin. The IsdA-mediated iron-acquisition system from transferrin could play only an ancillary role in the iron uptake whereas the siderophore-mediated iron-acquisition system from transferrin seems to play an essential or dominant role. May function as a reservoir for heme. Involved in adherence of S.aureus to human desquamated nasal epithelial cells and is required for nasal colonization. Protects S.aureus against the bactericidal protease activity of apolactoferrin in vitro and confers resistance to bovine lactoferricin. Also IsdA and/or IsdB promote resistance to hydrogen peroxide and killing by neutrophils (By similarity).	+	[[https://www.uniprot.org/uniprot/ISDA_STAAN ISDA_STAAN]] Transfers its hemin to hemin-free IsdC (apo-IsdC) directly probably through the activated holo-IsdA-apo-IsdC complex and driven by the higher affinity of apo-IsdC for the cofactor. The reaction is reversible. Binds transferrin, lactoferrin, heme, hemoglobin, hemin, fetuin, asialofetuin and protein A. Also binds fibronectin and chains B-beta and gamma of fibrinogen. Could play a role in the removal of heme from hemoglobin. The IsdA-mediated iron-acquisition system from transferrin could play only an ancillary role in the iron uptake whereas the siderophore-mediated iron-acquisition system from transferrin seems to play an essential or dominant role. May function as a reservoir for heme. Involved in adherence of S.aureus to human desquamated nasal epithelial cells and is required for nasal colonization. Protects S.aureus against the bactericidal protease activity of apolactoferrin in vitro and confers resistance to bovine lactoferricin. Also IsdA and/or IsdB promote resistance to hydrogen peroxide and killing by neutrophils (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Staan]]		[[Category: Staan]]
	[[Category: Grigg, J C]]		[[Category: Grigg, J C]]

OCA at 21:25, 5 August 2016

OCA — Fri, 05 Aug 2016 21:25:03 GMT

←Older revision		Revision as of 21:25, 5 August 2016
Line 1:		Line 1:
		+
	==Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX==		==Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX==
	<StructureSection load='3qzp' size='340' side='right' caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3qzp' size='340' side='right' caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QZP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staan Staan]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QZP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <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=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~46170 Staphylococcus aureus subsp. aureus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158879 STAAN])</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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [http://www.ebi.ac.uk/pdbsum/3qzp PDBsum]</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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [http://pdbe.org/3qzp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [http://www.ebi.ac.uk/pdbsum/3qzp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3qzp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3qzp" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Staphylococcus aureus subsp. aureus~~]]	+	[[Category: Staan]]
	[[Category: Grigg, J C]]		[[Category: Grigg, J C]]
	[[Category: Mao, C X]]		[[Category: Mao, C X]]

OCA at 21:31, 3 January 2015

OCA — Sat, 03 Jan 2015 21:31:35 GMT

←Older revision		Revision as of 21:31, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QZP FirstGlance]. <br>		<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QZP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46170 Staphylococcus aureus subsp. aureus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46170 Staphylococcus aureus subsp. aureus])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [http://www.ebi.ac.uk/pdbsum/3qzp PDBsum]</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=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [http://www.ebi.ac.uk/pdbsum/3qzp PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ISDA_STAAN ISDA_STAAN]] Transfers its hemin to hemin-free IsdC (apo-IsdC) directly probably through the activated holo-IsdA-apo-IsdC complex and driven by the higher affinity of apo-IsdC for the cofactor. The reaction is reversible. Binds transferrin, lactoferrin, heme, hemoglobin, hemin, fetuin, asialofetuin and protein A. Also binds fibronectin and chains B-beta and gamma of fibrinogen. Could play a role in the removal of heme from hemoglobin. The IsdA-mediated iron-acquisition system from transferrin could play only an ancillary role in the iron uptake whereas the siderophore-mediated iron-acquisition system from transferrin seems to play an essential or dominant role. May function as a reservoir for heme. Involved in adherence of S.aureus to human desquamated nasal epithelial cells and is required for nasal colonization. Protects S.aureus against the bactericidal protease activity of apolactoferrin in vitro and confers resistance to bovine lactoferricin. Also IsdA and/or IsdB promote resistance to hydrogen peroxide and killing by neutrophils (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 13:		Line 15:
	Iron-Coordinating Tyrosine Is a Key Determinant of NEAT Domain Heme Transfer.,Grigg JC, Mao CX, Murphy ME J Mol Biol. 2011 Aug 26. PMID:21893067<ref>PMID:21893067</ref>		Iron-Coordinating Tyrosine Is a Key Determinant of NEAT Domain Heme Transfer.,Grigg JC, Mao CX, Murphy ME J Mol Biol. 2011 Aug 26. PMID:21893067<ref>PMID:21893067</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, a database of the U.S. National Library of Medicine.<br>	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
	== References ==		== References ==
Line 20:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Staphylococcus aureus subsp. aureus]]		[[Category: Staphylococcus aureus subsp. aureus]]
-	[[Category: Grigg, J C.]]	+	[[Category: Grigg, J C]]
-	[[Category: Mao, C X.]]	+	[[Category: Mao, C X]]
-	[[Category: Murphy, M E.P.]]	+	[[Category: Murphy, M E.P]]
	[[Category: Cell wall]]		[[Category: Cell wall]]
	[[Category: Heme]]		[[Category: Heme]]

OCA at 04:52, 5 June 2014

OCA — Thu, 05 Jun 2014 04:52:07 GMT

←Older revision		Revision as of 04:52, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3qzp.~~png~~\|~~left~~\|~~200px~~]]	+	==Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX==
		+	<StructureSection load='3qzp' size='340' side='right' caption='[[3qzp]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QZP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COH:PROTOPORPHYRIN+IX+CONTAINING+CO'>COH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">frpA, isdA, SA0977, stbA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=46170 Staphylococcus aureus subsp. aureus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3qzp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qzp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qzp RCSB], [http://www.ebi.ac.uk/pdbsum/3qzp PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In humans, heme iron is the most abundant iron source, and bacterial pathogens such as Staphylococcus aureus acquire it for growth. IsdB of S. aureus acquires Fe(III)-protoporphyrin IX (heme) from hemoglobin for transfer to IsdC via IsdA. These three cell-wall-anchored Isd (iron-regulated surface determinant) proteins contain conserved NEAT (near iron transport) domains. The purpose of this work was to delineate the mechanism of heme binding and transfer between the NEAT domains of IsdA, IsdB, and IsdC using a combination of structural and spectroscopic studies. X-ray crystal structures of IsdA NEAT domain (IsdA-N1) variants reveal that removing the native heme-iron ligand Tyr166 is compensated for by iron coordination by His83 on the distal side and that no single mutation of distal loop residues is sufficient to perturb the IsdA-heme complex. Also, alternate heme-iron coordination was observed in structures of IsdA-N1 bound to reduced Fe(II)-protoporphyrin IX and Co(III)-protoporphyrin IX. The IsdA-N1 structural data were correlated with heme transfer kinetics from the NEAT domains of IsdB and IsdC. We demonstrated that the NEAT domains transfer heme at rates comparable to full-length proteins. The second-order rate constant for heme transfer from IsdA-N1 was modestly affected (<2-fold) by the IsdA variants, excluding those at Tyr166. Substituting Tyr166 with Ala or Phe changed the reaction mechanism to one with two observable steps and decreased observed rates >15-fold (to 100-fold excess IsdC). We propose a heme transfer model wherein NEAT domain complexes pass heme iron directly from an iron-coordinating Tyr of the donor protein to the homologous Tyr residues of the acceptor protein.

-	<!--	+	Iron-Coordinating Tyrosine Is a Key Determinant of NEAT Domain Heme Transfer.,Grigg JC, Mao CX, Murphy ME J Mol Biol. 2011 Aug 26. PMID:21893067<ref>PMID:21893067</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3qzp"~~, ~~creates the "Structure Box" on the page.~~	+
-	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded)~~,	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_3qzp\| PDB=3qzp \| SCENE= }}~~	+

-	~~===Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_21893067}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21893067 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21893067}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3qzp]] is a 2 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021893067<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Staphylococcus aureus subsp. aureus]]		[[Category: Staphylococcus aureus subsp. aureus]]
	[[Category: Grigg, J C.]]		[[Category: Grigg, J C.]]

OCA at 05:43, 5 October 2011

OCA — Wed, 05 Oct 2011 05:43:01 GMT

←Older revision		Revision as of 05:43, 5 October 2011
Line 1:		Line 1:
-	[[Image:3qzp.~~jpg~~\|left\|200px]]	+	[[Image:3qzp.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX===		===Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21893067}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21893067 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21893067}}

	==About this Structure==		==About this Structure==
	[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA].		[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021893067</ref><references group="xtra"/>
	[[Category: Staphylococcus aureus subsp. aureus]]		[[Category: Staphylococcus aureus subsp. aureus]]
	[[Category: Grigg, J C.]]		[[Category: Grigg, J C.]]

OCA at 06:58, 31 August 2011

OCA — Wed, 31 Aug 2011 06:58:31 GMT

←Older revision		Revision as of 06:58, 31 August 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3qzp.jpg\|left\|200px]]

-	The ~~entry 3qzp~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3qzp", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3qzp\| PDB=3qzp \| SCENE= }}

-	~~Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P.~~	+	===Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX===

-	~~Description~~: Staphylococcus aureus ~~IsdA NEAT domain in complex with cobalt~~-~~protoporphyrin IX~~	+
		+	==About this Structure==
		+	[[3qzp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QZP OCA].
		+	[[Category: Staphylococcus aureus subsp. aureus]]
		+	[[Category: Grigg, J C.]]
		+	[[Category: Mao, C X.]]
		+	[[Category: Murphy, M E.P.]]
		+	[[Category: Cell wall]]
		+	[[Category: Heme]]
		+	[[Category: Iron]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Receptor]]
		+	[[Category: Transport]]
		+	[[Category: Uptake]]

OCA at 06:48, 23 March 2011

OCA — Wed, 23 Mar 2011 06:48:11 GMT

←Older revision		Revision as of 06:48, 23 March 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3qzp is ON HOLD	+	The entry 3qzp is ON HOLD until Paper Publication

	Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P.		Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P.

	Description: Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX		Description: Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX

OCA: Protected "3qzp" [edit=sysop:move=sysop]

OCA — Wed, 16 Mar 2011 08:06:19 GMT

Protected "3qzp" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:06, 16 March 2011

OCA: New page: '''Unreleased structure''' The entry 3qzp is ON HOLD Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P. Description: Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protopor...

OCA — Wed, 16 Mar 2011 08:06:18 GMT

New page: '''Unreleased structure''' The entry 3qzp is ON HOLD Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P. Description: Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protopor...

New page

'''Unreleased structure'''

The entry 3qzp is ON HOLD

Authors: Grigg, J.C., Mao, C.X., Murphy, M.E.P.

Description: Staphylococcus aureus IsdA NEAT domain in complex with cobalt-protoporphyrin IX