5mba: Difference between revisions

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[[Image:5mba.png|left|200px]]
==BINDING MODE OF AZIDE TO FERRIC APLYSIA LIMACINA MYOGLOBIN. CRYSTALLOGRAPHIC ANALYSIS AT 1.9 ANGSTROMS RESOLUTION==
<StructureSection load='5mba' size='340' side='right' caption='[[5mba]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5mba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aplysia_limacina Aplysia limacina]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2mba 2mba]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MBA FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZI:AZIDE+ION'>AZI</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5mba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=5mba RCSB], [http://www.ebi.ac.uk/pdbsum/5mba PDBsum]</span></td></tr>
</table>
== 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/mb/5mba_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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/chain_selection.php?pdb_ID=2ata ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The binding mode of azide to the ferric form of Aplysia limacina myoglobin has been studied by X-ray crystallography. The three-dimensional structure of the complex has been refined at 1.9 A resolution to a crystallographic R-factor of 13.9%, including 126 ordered solvent molecules. Azide binds to the heme iron, at the sixth co-ordination position, and is oriented towards the outer part of the distal site crevice. This orientation is stabilized by an ionic interaction with the side-chain of Arg66 (E10) which, from an outer orientation in the 'aquo-met' ligand-free myoglobin, folds back towards the distal site in the presence of the anionic ligand. In the absence of a hydrogen bond donor residue at the distal E7 position in Aplysia limacina myoglobin, a different polar residue, Arg66 at the E10 topological position, has been selected by molecular evolution in order to grant ligand stabilization.


{{STRUCTURE_5mba|  PDB=5mba  |  SCENE=  }}
Binding mode of azide to ferric Aplysia limacina myoglobin. Crystallographic analysis at 1.9 A resolution.,Mattevi A, Gatti G, Coda A, Rizzi M, Ascenzi P, Brunori M, Bolognesi M J Mol Recognit. 1991 Feb;4(1):1-6. PMID:1931125<ref>PMID:1931125</ref>


===BINDING MODE OF AZIDE TO FERRIC APLYSIA LIMACINA MYOGLOBIN. CRYSTALLOGRAPHIC ANALYSIS AT 1.9 ANGSTROMS RESOLUTION===
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
{{ABSTRACT_PUBMED_1931125}}
 
==About this Structure==
[[5mba]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aplysia_limacina Aplysia limacina]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2mba 2mba]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MBA OCA].


==See Also==
==See Also==
*[[Myoglobin|Myoglobin]]
*[[Myoglobin|Myoglobin]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:001931125</ref><references group="xtra"/>
__TOC__
</StructureSection>
[[Category: Aplysia limacina]]
[[Category: Aplysia limacina]]
[[Category: Ascenzi, P.]]
[[Category: Ascenzi, P]]
[[Category: Bolognesi, M.]]
[[Category: Bolognesi, M]]
[[Category: Brunori, M.]]
[[Category: Brunori, M]]
[[Category: Coda, A.]]
[[Category: Coda, A]]
[[Category: Gatti, G.]]
[[Category: Gatti, G]]
[[Category: Onesti, S.]]
[[Category: Onesti, S]]
[[Category: Oxygen storage]]
[[Category: Oxygen storage]]
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