2k78

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{{Seed}}
 
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[[Image:2k78.png|left|200px]]
 
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==Solution Structure of the IsdC NEAT domain bound to Zinc Protoporphyrin==
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The line below this paragraph, containing "STRUCTURE_2k78", creates the "Structure Box" on the page.
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<StructureSection load='2k78' size='340' side='right'caption='[[2k78]]' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2k78]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_MW2 Staphylococcus aureus subsp. aureus MW2]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K78 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZNH:PROTOPORPHYRIN+IX+CONTAINING+ZN'>ZNH</scene></td></tr>
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{{STRUCTURE_2k78| PDB=2k78 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2k78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k78 OCA], [https://pdbe.org/2k78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k78 RCSB], [https://www.ebi.ac.uk/pdbsum/2k78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k78 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ISDC_STAAW ISDC_STAAW] Involved in heme (porphyrin) scavenging. Binds hemoglobin and almost exclusively free-base protoporphyrin IX. Probably has a role as the central conduit of the isd heme uptake system, i.e. mediates the transfer of the iron-containing nutrient from IsdABH to the membrane translocation system IsdDEF (By similarity). Hemin-free IsdC (apo-IsdC) acquires hemin from hemin-containing IsdA (holo-IsdA) probably through the activated holo-IsdA-apo-IsdC complex and due to the higher affinity of apo-IsdC for the cofactor. The reaction is reversible.<ref>PMID:18184657</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k7/2k78_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=2k78 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Staphylococcus aureus scavenges heme-iron from host hemoproteins using iron-regulated surface determinant (Isd) proteins. IsdC is the central conduit through which heme is passed across the cell wall and binds this molecule using a NEAr Transporter (NEAT) domain. NMR spectroscopy was used to determine the structure of IsdC in complex with a heme analog, zinc-substituted protoporphyrin IX (ZnPPIX). The backbone coordinates of the ensemble of conformers representing the structure exhibit a root mean square deviation to the mean structure of 0.53 +/- 0.11 angstroms. IsdC partially buries protoporphyrin within a large hydrophobic pocket that is located at the end of its beta-barrel structure. The central metal ion of the analog adopts a pentacoordinate geometry in which a highly conserved tyrosine residue serves as a proximal ligand. Consistent with the structure and its role in heme transfer across the cell wall, we show that IsdC weakly binds heme (K(D) = 0.34 +/- 0.12 microm) and that ZnPPIX rapidly dissociates from the protein at a rate of 126 +/- 30 s(-1). NMR studies of the apo-form of IsdC reveal that a 3(10) helix within the binding pocket undergoes a flexible to rigid transition as heme is captured. This structural plasticity may increase the efficiency of heme transfer across the cell wall by facilitating protein-protein interactions between apoIsdC and upstream hemoproteins.
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===Solution Structure of the IsdC NEAT domain bound to Zinc Protoporphyrin===
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The IsdC protein from Staphylococcus aureus uses a flexible binding pocket to capture heme.,Villareal VA, Pilpa RM, Robson SA, Fadeev EA, Clubb RT J Biol Chem. 2008 Nov 14;283(46):31591-600. Epub 2008 Aug 20. PMID:18715872<ref>PMID:18715872</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 2k78" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 18715872 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18715872}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2K78 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_mw2 Staphylococcus aureus subsp. aureus mw2]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K78 OCA].
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[[Category: Staphylococcus aureus subsp. aureus MW2]]
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[[Category: Clubb RT]]
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==Reference==
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[[Category: Fadeev EA]]
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The IsdC protein from staphylococcus aureus uses a flexible binding pocket to capture heme., Villareal VA, Pilpa RM, Robson SA, Fadeev EA, Clubb RT, J Biol Chem. 2008 Sep 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18715872 18715872]
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[[Category: Pilpa RM]]
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[[Category: Staphylococcus aureus subsp. aureus mw2]]
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[[Category: Robson SA]]
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[[Category: Clubb, R T.]]
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[[Category: Villareal VA]]
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[[Category: Fadeev, E A.]]
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[[Category: Pilpa, R M.]]
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[[Category: Robson, S A.]]
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[[Category: Villareal, V A.]]
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[[Category: Cell wall]]
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[[Category: Heme]]
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[[Category: Heme-binding protein]]
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[[Category: Iron]]
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[[Category: Isd]]
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[[Category: Isdc]]
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[[Category: Metal-binding]]
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[[Category: Neat domain]]
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[[Category: Nmr complex]]
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[[Category: Peptidoglycan-anchor]]
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[[Category: Secreted]]
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[[Category: Transport protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Nov 27 13:48:53 2008''
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Current revision

Solution Structure of the IsdC NEAT domain bound to Zinc Protoporphyrin

PDB ID 2k78

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