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| - | [[Image:2oyy.gif|left|200px]] | |
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| - | {{Structure
| + | ==HTHP: a hexameric tyrosine-coordinated heme protein== |
| - | |PDB= 2oyy |SIZE=350|CAPTION= <scene name='initialview01'>2oyy</scene>, resolution 2.50Å
| + | <StructureSection load='2oyy' size='340' side='right'caption='[[2oyy]], [[Resolution|resolution]] 2.50Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene> | + | <table><tr><td colspan='2'>[[2oyy]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Ruegeria_pomeroyi Ruegeria pomeroyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OYY FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5Å</td></tr> |
| - | |GENE= spoa0176 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=89184 Silicibacter pomeroyi])
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2oyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oyy OCA], [https://pdbe.org/2oyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oyy RCSB], [https://www.ebi.ac.uk/pdbsum/2oyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oyy ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2oyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oyy OCA], [http://www.ebi.ac.uk/pdbsum/2oyy PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2oyy RCSB]</span>
| + | == Function == |
| - | }}
| + | [https://www.uniprot.org/uniprot/Q5LL55_RUEPO Q5LL55_RUEPO] |
| - | | + | == Evolutionary Conservation == |
| - | '''HTHP: a hexameric tyrosine-coordinated heme protein'''
| + | [[Image:Consurf_key_small.gif|200px|right]] |
| - | | + | Check<jmol> |
| - | | + | <jmolCheckbox> |
| - | ==Overview== | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/oy/2oyy_consurf.spt"</scriptWhenChecked> |
| - | We have cloned, expressed, isolated and characterized a hexameric tyrosine-coordinated heme protein (HTHP) from the marine bacterium Silicibacter pomeroyi. HTHP shows peroxidase and catalase activity and has a high thermal stability. As-isolated HTHP has absorption maxima at 407, 495, 504, 532 and 622 nm wavelength. Upon reduction maxima at 430, 564 and 596 nm wavelength are discernible. The crystal structure of HTHP reveals a hexameric, ring-like arrangement of six monomers. Each monomer binds a solvent accessible heme group, which is stabilized by the interaction of three neighboring monomers. The pocket around the heme distal side is positively charged due to three conserved arginine residues in direct vicinity. The heme iron is penta-coordinated with a tyrosine residue as proximal ligand. The coordinating hydroxyl-group of the tyrosine ligand interacts with the guanidinium group of a nearby arginine residue, an arrangement closely resembling the catalytic dyad found in monofunctional heme-containing catalases and coral allene oxide synthases, which are b-type cytochromes with tyrosine coordination trans to an empty coordination site. Despite the similarity in heme coordination HTHP is functionally and structurally unrelated to catalases and other heme-containing proteins. Its hexameric arrangement, solvent accessible heme binding pocket and heme coordination by tyrosine render HTHP a unique protein with unusual properties. A database search against complete and incomplete genomes shows that the 76 amino acid residues sequence of HTHP is unrelated to characterized proteins, but is homologous to orfs found in a phylogenetically diverse set of bacteria with sequence identities of 30-76%. We therefore propose that HTHP is the prototype of a new class of heme proteins.
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> |
| - | | + | <text>to colour the structure by Evolutionary Conservation</text> |
| - | ==About this Structure== | + | </jmolCheckbox> |
| - | 2OYY is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Silicibacter_pomeroyi Silicibacter pomeroyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OYY OCA].
| + | </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=2oyy ConSurf]. |
| - | | + | <div style="clear:both"></div> |
| - | ==Reference== | + | __TOC__ |
| - | HTHP: a novel class of hexameric, tyrosine-coordinated heme proteins., Jeoung JH, Pippig DA, Martins BM, Wagener N, Dobbek H, J Mol Biol. 2007 May 11;368(4):1122-31. Epub 2007 Mar 6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17395199 17395199]
| + | </StructureSection> |
| - | [[Category: Silicibacter pomeroyi]] | + | [[Category: Large Structures]] |
| - | [[Category: Single protein]] | + | [[Category: Ruegeria pomeroyi]] |
| - | [[Category: Dobbek, H.]] | + | [[Category: Dobbek H]] |
| - | [[Category: all helical]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:25:17 2008''
| + | |
