3h8t: Difference between revisions

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{{Seed}}
[[Image:3h8t.png|left|200px]]


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==Structure of Porphyromonas gingivalis heme-binding protein HmuY in complex with Heme==
The line below this paragraph, containing "STRUCTURE_3h8t", creates the "Structure Box" on the page.
<StructureSection load='3h8t' size='340' side='right'caption='[[3h8t]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3h8t]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H8T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H8T FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_3h8t|  PDB=3h8t  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3h8t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h8t OCA], [https://pdbe.org/3h8t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h8t RCSB], [https://www.ebi.ac.uk/pdbsum/3h8t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h8t ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A2I2W2_PORGN A2I2W2_PORGN]
== 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/h8/3h8t_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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/main_output.php?pdb_ID=3h8t ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Infection, survival, and proliferation of pathogenic bacteria in humans depend on their capacity to impair host responses and acquire nutrients in a hostile environment. Among such nutrients is heme, a co-factor for oxygen storage, electron transport, photosynthesis, and redox biochemistry, which is indispensable for life. Porphyromonas gingivalis is the major human bacterial pathogen responsible for severe periodontitis. It recruits heme through HmuY, which sequesters heme from host carriers and delivers it to its cognate outer-membrane transporter, the TonB-dependent receptor HmuR. Here we report that heme binding does not significantly affect the secondary structure of HmuY. The crystal structure of heme-bound HmuY reveals a new all-beta fold mimicking a right hand. The thumb and fingers pinch heme iron through two apical histidine residues, giving rise to highly symmetric octahedral iron co-ordination. The tetrameric quaternary arrangement of the protein found in the crystal structure is consistent with experiments in solution. It shows that thumbs and fingertips, and, by extension, the bound heme groups, are shielded from competing heme-binding proteins from the host. This may also facilitate heme transport to HmuR for internalization. HmuY, both in its apo- and in its heme-bound forms, is resistant to proteolytic digestion by trypsin and the major secreted proteases of P. gingivalis, gingipains K and R. It is also stable against thermal and chemical denaturation. In conclusion, these studies reveal novel molecular properties of HmuY that are consistent with its role as a putative virulence factor during bacterial infection.


===Structure of Porphyromonas gingivalis heme-binding protein HmuY in complex with Heme===
Unique structure and stability of HmuY, a novel heme-binding protein of Porphyromonas gingivalis.,Wojtowicz H, Guevara T, Tallant C, Olczak M, Sroka A, Potempa J, Sola M, Olczak T, Gomis-Ruth FX PLoS Pathog. 2009 May;5(5):e1000419. Epub 2009 May 8. PMID:19424422<ref>PMID:19424422</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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The line below this paragraph, {{ABSTRACT_PUBMED_19424422}}, adds the Publication Abstract to the page
<div class="pdbe-citations 3h8t" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 19424422 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_19424422}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3H8T is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H8T OCA].
 
==Reference==
<ref group="xtra">PMID:19424422</ref><references group="xtra"/>
[[Category: Porphyromonas gingivalis]]
[[Category: Porphyromonas gingivalis]]
[[Category: Gomis-Ruth, F X.]]
[[Category: Gomis-Ruth FX]]
[[Category: Guevara, T.]]
[[Category: Guevara T]]
[[Category: Olczak, M.]]
[[Category: Olczak M]]
[[Category: Olczak, T.]]
[[Category: Olczak T]]
[[Category: Potempa, J.]]
[[Category: Potempa J]]
[[Category: Sola, M.]]
[[Category: Sola M]]
[[Category: Sroka, A.]]
[[Category: Sroka A]]
[[Category: Tallant, C.]]
[[Category: Tallant C]]
[[Category: Wojtowicz, H.]]
[[Category: Wojtowicz H]]
[[Category: Bacterial virulence factor]]
[[Category: Heme-binding protein]]
[[Category: Hemophore]]
[[Category: Periodontitis]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 27 14:27:24 2009''
Retrieved from "https://proteopedia.org/3h8t"