2e7d - Revision history

OCA at 13:49, 13 March 2024

2024-03-13T13:49:10Z

← Older revision		Revision as of 13:49, 13 March 2024
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	<StructureSection load='2e7d' size='340' side='right'caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2e7d' size='340' side='right'caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [https://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=2E7D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E7D FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e7d]] is a 2 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=2E7D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E7D FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</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]] 2.2Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]~~</~~div~~><~~/td~~></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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"~~>~~IsdH ([https://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'>[https://proteopedia.org/fgij/fg.htm?mol=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [https://pdbe.org/2e7d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [https://www.ebi.ac.uk/pdbsum/2e7d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e7d 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [https://pdbe.org/2e7d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [https://www.ebi.ac.uk/pdbsum/2e7d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e7d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/ISDH_STAAM ISDH_STAAM]] Binds human plasma haptoglobin-hemoglobin complexes, haptoglobin and hemoglobin. Binds haptoglobin-hemoglobin complexes with significantly higher affinity than haptoglobin alone (By similarity).		[https://www.uniprot.org/uniprot/ISDH_STAAM ISDH_STAAM] Binds human plasma haptoglobin-hemoglobin complexes, haptoglobin and hemoglobin. Binds haptoglobin-hemoglobin complexes with significantly higher affinity than haptoglobin alone (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2e7d ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2e7d ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	To elucidate the heme acquisition system in pathogenic bacteria, we investigated the heme-binding properties of the third NEAT domain of IsdH (IsdH-NEAT3), a receptor for heme located on the surfaces of pathogenic bacterial cells, by using x-ray crystallography, isothermal titration calorimetry, examination of absorbance spectra, mutation analysis, size-exclusion chromatography, and analytical ultracentrifugation. We found the following: 1) IsdH-NEAT3 can bind with multiple heme molecules by two modes; 2) heme was bound at the surface of IsdH-NEAT3; 3) candidate residues proposed from the crystal structure were not essential for binding with heme; and 4) IsdH-NEAT3 was associated into a multimeric heme complex by the addition of excess heme. From these observations, we propose a heme-binding mechanism for IsdH-NEAT3 that involves multimerization and discuss the biological importance of this mechanism.

	Structural basis for multimeric heme complexation through a specific protein-heme interaction: the case of the third neat domain of IsdH from Staphylococcus aureus.,Watanabe M, Tanaka Y, Suenaga A, Kuroda M, Yao M, Watanabe N, Arisaka F, Ohta T, Tanaka I, Tsumoto K J Biol Chem. 2008 Oct 17;283(42):28649-59. Epub 2008 Jul 30. PMID:18667422<ref>PMID:18667422</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 2e7d" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Kumagai, I]]		[[Category: Staphylococcus aureus]]
	[[Category: Suenaga, A]]		[[Category: Kumagai I]]
	[[Category: Tanaka, I]]		[[Category: Suenaga A]]
	[[Category: Tanaka, Y]]		[[Category: Tanaka I]]
	[[Category: Tsumoto, K]]		[[Category: Tanaka Y]]
	[[Category: Yao, M]]		[[Category: Tsumoto K]]
	~~[[Category: Ig-like fold]]~~		[[Category: Yao M]]
	~~[[Category: Metal binding protein~~]]

OCA at 11:51, 10 February 2021

2021-02-10T11:51:48Z

← Older revision		Revision as of 11:51, 10 February 2021
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	==Crystal structure of a NEAT domain from Staphylococcus aureus==		==Crystal structure of a NEAT domain from Staphylococcus aureus==
	<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2e7d' size='340' side='right'caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e7d]] is a 2 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=2E7D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2E7D FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [https://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=2E7D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E7D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([~~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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([https://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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [~~http~~://pdbe.org/2e7d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2e7d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2e7d 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [https://pdbe.org/2e7d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [https://www.ebi.ac.uk/pdbsum/2e7d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e7d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/ISDH_STAAM ISDH_STAAM]] Binds human plasma haptoglobin-hemoglobin complexes, haptoglobin and hemoglobin. Binds haptoglobin-hemoglobin complexes with significantly higher affinity than haptoglobin alone (By similarity).		[[https://www.uniprot.org/uniprot/ISDH_STAAM ISDH_STAAM]] Binds human plasma haptoglobin-hemoglobin complexes, haptoglobin and hemoglobin. Binds haptoglobin-hemoglobin complexes with significantly higher affinity than haptoglobin alone (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Kumagai, I]]		[[Category: Kumagai, I]]
	[[Category: Suenaga, A]]		[[Category: Suenaga, A]]

OCA at 07:17, 6 June 2018

2018-06-06T07:17:13Z

← Older revision		Revision as of 07:17, 6 June 2018
Line 1:		Line 1:

	==Crystal structure of a NEAT domain from Staphylococcus aureus==		==Crystal structure of a NEAT domain from Staphylococcus aureus==
	<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://pdbe.org/2e7d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://pdbe.org/2e7d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2e7d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e7/2e7d_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e7/2e7d_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 08:42, 9 February 2016

2016-02-09T08:42:43Z

← Older revision		Revision as of 08:42, 9 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2e7d ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 20:33, 10 September 2015

2015-09-10T20:33:27Z

← Older revision		Revision as of 20:33, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus Staphylococcus~~ aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E7D FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e7d]] is a 2 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=2E7D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E7D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 ~~Staphylococcus~~ aureus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://pdbe.org/2e7d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/ISDH_STAAM ISDH_STAAM]] Binds human plasma haptoglobin-hemoglobin complexes, haptoglobin and hemoglobin. Binds haptoglobin-hemoglobin complexes with significantly higher affinity than haptoglobin alone (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 28:
	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 2e7d" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Staphylococcus aureus]]~~
	[[Category: Kumagai, I]]		[[Category: Kumagai, I]]
	[[Category: Suenaga, A]]		[[Category: Suenaga, A]]

OCA at 18:42, 15 January 2015

2015-01-15T18:42:13Z

← Older revision		Revision as of 18:42, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E7D FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E7D FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d PDBsum]</span></td></tr>
	<table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: Kumagai, I.]]		[[Category: Kumagai, I]]
	[[Category: Suenaga, A.]]		[[Category: Suenaga, A]]
	[[Category: Tanaka, I.]]		[[Category: Tanaka, I]]
	[[Category: Tanaka, Y.]]		[[Category: Tanaka, Y]]
	[[Category: Tsumoto, K.]]		[[Category: Tsumoto, K]]
	[[Category: Yao, M.]]		[[Category: Yao, M]]
	[[Category: Ig-like fold]]		[[Category: Ig-like fold]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 01:27, 30 September 2014

2014-09-30T01:27:21Z

← Older revision		Revision as of 01:27, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2e7d~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of a NEAT domain from Staphylococcus aureus==
			<StructureSection load='2e7d' size='340' side='right' caption='[[2e7d]], [[Resolution\|resolution]] 2.20Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2e7d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E7D FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2h3k\|2h3k]], [[2o1a\|2o1a]], [[2ite\|2ite]], [[2itf\|2itf]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IsdH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus 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=2e7d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e7d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e7d RCSB], [http://www.ebi.ac.uk/pdbsum/2e7d PDBsum]</span></td></tr>
			<table>
			== Evolutionary Conservation ==
			[[Image:Consurf_key_small.gif\|200px\|right]]
			Check<jmol>
			<jmolCheckbox>
			<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e7/2e7d_consurf.spt"</scriptWhenChecked>
			<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
			<text>to colour the structure by Evolutionary Conservation</text>
			</jmolCheckbox>
			</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
			<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			To elucidate the heme acquisition system in pathogenic bacteria, we investigated the heme-binding properties of the third NEAT domain of IsdH (IsdH-NEAT3), a receptor for heme located on the surfaces of pathogenic bacterial cells, by using x-ray crystallography, isothermal titration calorimetry, examination of absorbance spectra, mutation analysis, size-exclusion chromatography, and analytical ultracentrifugation. We found the following: 1) IsdH-NEAT3 can bind with multiple heme molecules by two modes; 2) heme was bound at the surface of IsdH-NEAT3; 3) candidate residues proposed from the crystal structure were not essential for binding with heme; and 4) IsdH-NEAT3 was associated into a multimeric heme complex by the addition of excess heme. From these observations, we propose a heme-binding mechanism for IsdH-NEAT3 that involves multimerization and discuss the biological importance of this mechanism.

	~~{{STRUCTURE_2e7d\| PDB=2e7d \| SCENE= }}~~		Structural basis for multimeric heme complexation through a specific protein-heme interaction: the case of the third neat domain of IsdH from Staphylococcus aureus.,Watanabe M, Tanaka Y, Suenaga A, Kuroda M, Yao M, Watanabe N, Arisaka F, Ohta T, Tanaka I, Tsumoto K J Biol Chem. 2008 Oct 17;283(42):28649-59. Epub 2008 Jul 30. PMID:18667422<ref>PMID:18667422</ref>

	~~===Crystal structure~~ of ~~a NEAT domain from Staphylococcus aureus===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18667422}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2e7d]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Staphylococcus_aureus Staphylococcus aureus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:018667422<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: Kumagai, I.]]		[[Category: Kumagai, I.]]

OCA: Protected "2e7d" [edit=sysop:move=sysop]

2013-01-06T10:42:30Z

Protected "2e7d" [edit=sysop:move=sysop]

← Older revision	Revision as of 10:42, 6 January 2013
(No difference)

OCA at 10:42, 6 January 2013

2013-01-06T10:42:27Z

← Older revision		Revision as of 10:42, 6 January 2013
Line 1:		Line 1:
	~~{{Seed}}~~
	[[Image:2e7d.png\|left\|200px]]		[[Image:2e7d.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2e7d", 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_2e7d\| PDB=2e7d \| SCENE= }}		{{STRUCTURE_2e7d\| PDB=2e7d \| SCENE= }}

	===Crystal structure of a NEAT domain from Staphylococcus aureus===		===Crystal structure of a NEAT domain from Staphylococcus aureus===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18667422}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18667422 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18667422}}		{{ABSTRACT_PUBMED_18667422}}

	==About this Structure==		==About this Structure==
	~~2E7D~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA].		[[2e7d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18667422~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018667422</ref><references group="xtra"/>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: Kumagai, I.]]		[[Category: Kumagai, I.]]
Line 33:		Line 21:
	[[Category: Ig-like fold]]		[[Category: Ig-like fold]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 08:27:17 2009''~~

OCA at 06:27, 17 February 2009

2009-02-17T06:27:19Z

← Older revision		Revision as of 06:27, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
	2E7D is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA].		2E7D is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E7D OCA].

	==Reference==		==Reference==
	Structural basis for multimeric heme complexation through a specific protein-heme interaction: the case of the third neat domain of IsdH from Staphylococcus aureus., Watanabe M, Tanaka Y, Suenaga A, Kuroda M, Yao M, Watanabe N, Arisaka F, Ohta T, Tanaka I, Tsumoto K, J Biol Chem. 2008 Oct 17;283(42):28649-59. Epub 2008 Jul 30. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18667422 18667422]~~		<ref group="xtra">PMID:18667422</ref><references group="xtra"/>
	~~[[Category: Single protein]]~~
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]		[[Category: Kumagai, I.]]
			[[Category: Suenaga, A.]]
			[[Category: Tanaka, I.]]
			[[Category: Tanaka, Y.]]
			[[Category: Tsumoto, K.]]
			[[Category: Yao, M.]]
	[[Category: Ig-like fold]]		[[Category: Ig-like fold]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Dec 10 20~~:23:~~52 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 08:27:17 2009''