2grf

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(New page: 200px<br /> <applet load="2grf" size="450" color="white" frame="true" align="right" spinBox="true" caption="2grf, resolution 2.10&Aring;" /> '''Crystal structure o...)
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[[Image:2grf.gif|left|200px]]<br />
 
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<applet load="2grf" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="2grf, resolution 2.10&Aring;" />
 
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'''Crystal structure of Scapharca inaequivalvis HBI, M37V mutant in the absence of ligand'''<br />
 
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==Overview==
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==Crystal structure of Scapharca inaequivalvis HBI, M37V mutant in the absence of ligand==
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Protein allostery provides mechanisms for regulation of biological, function at the molecular level. We present here an investigation of, global, ligand-induced allosteric transition in a protein by time-resolved, x-ray diffraction. The study provides a view of structural changes in, single crystals of Scapharca dimeric hemoglobin as they proceed in real, time, from 5 ns to 80 micros after ligand photodissociation. A tertiary, intermediate structure forms rapidly (&lt;5 ns) as the protein responds to, the presence of an unliganded heme within each R-state protein subunit, with key structural changes observed in the heme groups, neighboring, residues, and interface water molecules. This intermediate lays a, foundation for the concerted tertiary and quaternary structural changes, that occur on a microsecond time scale and are associated with the, transition to a low-affinity T-state structure. Reversal of these changes, shows a considerable lag as a T-like structure persists well after ligand, rebinding, suggesting a slow T-to-R transition.
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<StructureSection load='2grf' size='340' side='right'caption='[[2grf]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2grf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Anadara_inaequivalvis Anadara inaequivalvis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GRF 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]] 2.1&#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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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=2grf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2grf OCA], [https://pdbe.org/2grf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2grf RCSB], [https://www.ebi.ac.uk/pdbsum/2grf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2grf ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/GLB1_ANAIN GLB1_ANAIN]
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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/gr/2grf_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=2grf 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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Protein allostery provides mechanisms for regulation of biological function at the molecular level. We present here an investigation of global, ligand-induced allosteric transition in a protein by time-resolved x-ray diffraction. The study provides a view of structural changes in single crystals of Scapharca dimeric hemoglobin as they proceed in real time, from 5 ns to 80 micros after ligand photodissociation. A tertiary intermediate structure forms rapidly (&lt;5 ns) as the protein responds to the presence of an unliganded heme within each R-state protein subunit, with key structural changes observed in the heme groups, neighboring residues, and interface water molecules. This intermediate lays a foundation for the concerted tertiary and quaternary structural changes that occur on a microsecond time scale and are associated with the transition to a low-affinity T-state structure. Reversal of these changes shows a considerable lag as a T-like structure persists well after ligand rebinding, suggesting a slow T-to-R transition.
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==About this Structure==
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Allosteric action in real time: time-resolved crystallographic studies of a cooperative dimeric hemoglobin.,Knapp JE, Pahl R, Srajer V, Royer WE Jr Proc Natl Acad Sci U S A. 2006 May 16;103(20):7649-54. Epub 2006 May 9. PMID:16684887<ref>PMID:16684887</ref>
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2GRF is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Scapharca_inaequivalvis Scapharca inaequivalvis] with HEM as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2GRF 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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Allosteric action in real time: time-resolved crystallographic studies of a cooperative dimeric hemoglobin., Knapp JE, Pahl R, Srajer V, Royer WE Jr, Proc Natl Acad Sci U S A. 2006 May 16;103(20):7649-54. Epub 2006 May 9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16684887 16684887]
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</div>
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[[Category: Scapharca inaequivalvis]]
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<div class="pdbe-citations 2grf" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Jr., W.E.Royer.]]
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[[Category: Knapp, J.E.]]
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[[Category: Pahl, R.]]
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[[Category: Srajer, V.]]
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[[Category: HEM]]
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[[Category: allostery]]
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[[Category: cooperativity]]
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[[Category: heme protein]]
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[[Category: hemoglobin]]
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[[Category: invertebrate]]
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[[Category: oxygen-binding]]
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[[Category: oxygen-transport]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 13:30:39 2007''
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==See Also==
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*[[Hemoglobin 3D structures|Hemoglobin 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: Anadara inaequivalvis]]
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[[Category: Large Structures]]
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[[Category: Knapp JE]]
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[[Category: Pahl R]]
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[[Category: Royer Jr WE]]
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[[Category: Srajer V]]

Current revision

Crystal structure of Scapharca inaequivalvis HBI, M37V mutant in the absence of ligand

PDB ID 2grf

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