1ebc

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(New page: 200px<br /> <applet load="1ebc" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ebc, resolution 1.8&Aring;" /> '''SPERM WHALE MET-MYOG...)
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[[Image:1ebc.gif|left|200px]]<br />
 
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<applet load="1ebc" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1ebc, resolution 1.8&Aring;" />
 
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'''SPERM WHALE MET-MYOGLOBIN:CYANIDE COMPLEX'''<br />
 
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==Overview==
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==SPERM WHALE MET-MYOGLOBIN:CYANIDE COMPLEX==
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The x-ray crystal structures of the cyanide derivative of Lucina pectinata, monomeric hemoglobin I (L. pectinata HbI) and sperm whale (Physeter, catodon) myoglobin (Mb), generally taken as reference models for monomeric, hemoproteins carrying hydrogen sulfide and oxygen, respectively, have been, determined at 1.9 A (R-factor = 0. 184), and 1.8 A (R-factor = 0.181), resolution, respectively, at room temperature (lambda = 1.542 A)., Moreover, the x-ray crystal structure of the L. pectinata HbI:cyanide, derivative has been studied at 1.4-A resolution (R-factor = 0.118) and 100, K (on a synchrotron source lambda = 0.998 A). At room temperature, the, cyanide ligand is roughly parallel to the heme plane of L. pectinata HbI, being located approximately 2.5 A from the iron atom. On the other hand, the crystal structure of the L. pectinata HbI:cyanide derivative at 100 K, shows that the diatomic ligand is coordinated to the iron atom in an, orientation almost perpendicular to the heme (the Fe-C distance being 1.95, A), adopting a coordination geometry strictly reminescent of that observed, in sperm whale Mb, at room temperature. The unusual cyanide distal site, orientation observed in L. pectinata HbI, at room temperature, may reflect, reduction of the heme Fe(III) atom induced by free radical species during, x-ray data collection using Cu Kalpha radiation.
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<StructureSection load='1ebc' size='340' side='right'caption='[[1ebc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1ebc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Physeter_catodon Physeter catodon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EBC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EBC FirstGlance]. <br>
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</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=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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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=1ebc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ebc OCA], [https://pdbe.org/1ebc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ebc RCSB], [https://www.ebi.ac.uk/pdbsum/1ebc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ebc ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/MYG_PHYMC MYG_PHYMC] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
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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/eb/1ebc_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=1ebc 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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The x-ray crystal structures of the cyanide derivative of Lucina pectinata monomeric hemoglobin I (L. pectinata HbI) and sperm whale (Physeter catodon) myoglobin (Mb), generally taken as reference models for monomeric hemoproteins carrying hydrogen sulfide and oxygen, respectively, have been determined at 1.9 A (R-factor = 0. 184), and 1.8 A (R-factor = 0.181) resolution, respectively, at room temperature (lambda = 1.542 A). Moreover, the x-ray crystal structure of the L. pectinata HbI:cyanide derivative has been studied at 1.4-A resolution (R-factor = 0.118) and 100 K (on a synchrotron source lambda = 0.998 A). At room temperature, the cyanide ligand is roughly parallel to the heme plane of L. pectinata HbI, being located approximately 2.5 A from the iron atom. On the other hand, the crystal structure of the L. pectinata HbI:cyanide derivative at 100 K shows that the diatomic ligand is coordinated to the iron atom in an orientation almost perpendicular to the heme (the Fe-C distance being 1.95 A), adopting a coordination geometry strictly reminescent of that observed in sperm whale Mb, at room temperature. The unusual cyanide distal site orientation observed in L. pectinata HbI, at room temperature, may reflect reduction of the heme Fe(III) atom induced by free radical species during x-ray data collection using Cu Kalpha radiation.
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==About this Structure==
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Cyanide binding to Lucina pectinata hemoglobin I and to sperm whale myoglobin: an x-ray crystallographic study.,Bolognesi M, Rosano C, Losso R, Borassi A, Rizzi M, Wittenberg JB, Boffi A, Ascenzi P Biophys J. 1999 Aug;77(2):1093-9. PMID:10423453<ref>PMID:10423453</ref>
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1EBC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Physeter_catodon Physeter catodon] with CYN, SO4 and HEM as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EBC OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Cyanide binding to Lucina pectinata hemoglobin I and to sperm whale myoglobin: an x-ray crystallographic study., Bolognesi M, Rosano C, Losso R, Borassi A, Rizzi M, Wittenberg JB, Boffi A, Ascenzi P, Biophys J. 1999 Aug;77(2):1093-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10423453 10423453]
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</div>
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[[Category: Physeter catodon]]
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<div class="pdbe-citations 1ebc" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Ascenzi, P.]]
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[[Category: Bolognesi, M.]]
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[[Category: Losso, R.]]
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[[Category: Rizzi, M.]]
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[[Category: Rosano, C.]]
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[[Category: CYN]]
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[[Category: HEM]]
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[[Category: SO4]]
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[[Category: globins]]
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[[Category: hemoprotein]]
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[[Category: oxigen storage]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 13:00:56 2007''
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==See Also==
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*[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
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*[[Myoglobin 3D structures|Myoglobin 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Physeter catodon]]
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[[Category: Ascenzi P]]
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[[Category: Bolognesi M]]
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[[Category: Losso R]]
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[[Category: Rizzi M]]
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[[Category: Rosano C]]

Current revision

SPERM WHALE MET-MYOGLOBIN:CYANIDE COMPLEX

PDB ID 1ebc

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