3h8t: Difference between revisions

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<StructureSection load='3h8t' size='340' side='right'caption='[[3h8t]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='3h8t' size='340' side='right'caption='[[3h8t]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3h8t]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_33277 Atcc 33277]. 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>
<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>
</td></tr><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>
</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>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">HmuY, hmuY' ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 ATCC 33277])</td></tr>
<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>
<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>
<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>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A2I2W2_PORGN A2I2W2_PORGN]
== 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=3h8t 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=3h8t ConSurf].
<div style="clear:both"></div>
<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.
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>
</div>
<div class="pdbe-citations 3h8t" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Atcc 33277]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Gomis-Ruth, F X]]
[[Category: Porphyromonas gingivalis]]
[[Category: Guevara, T]]
[[Category: Gomis-Ruth FX]]
[[Category: Olczak, M]]
[[Category: Guevara T]]
[[Category: Olczak, T]]
[[Category: Olczak M]]
[[Category: Potempa, J]]
[[Category: Olczak T]]
[[Category: Sola, M]]
[[Category: Potempa J]]
[[Category: Sroka, A]]
[[Category: Sola M]]
[[Category: Tallant, C]]
[[Category: Sroka A]]
[[Category: Wojtowicz, H]]
[[Category: Tallant C]]
[[Category: Bacterial virulence factor]]
[[Category: Wojtowicz H]]
[[Category: Heme-binding protein]]
[[Category: Hemophore]]
[[Category: Periodontitis]]

Revision as of 09:58, 21 February 2024

Structure of Porphyromonas gingivalis heme-binding protein HmuY in complex with Heme

3h8t, resolution 1.80Å

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