1mmf: Difference between revisions

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{{Seed}}
[[Image:1mmf.png|left|200px]]


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==Crystal structure of substrate free form of glycerol dehydratase==
The line below this paragraph, containing "STRUCTURE_1mmf", creates the "Structure Box" on the page.
<StructureSection load='1mmf' size='340' side='right'caption='[[1mmf]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1mmf]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MMF FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#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=K:POTASSIUM+ION'>K</scene></td></tr>
{{STRUCTURE_1mmf|  PDB=1mmf  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1mmf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmf OCA], [https://pdbe.org/1mmf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mmf RCSB], [https://www.ebi.ac.uk/pdbsum/1mmf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmf ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/O08505_KLEPN O08505_KLEPN]
== 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/mm/1mmf_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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/main_output.php?pdb_ID=1mmf ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Glycerol dehydratase (GDH) and diol dehydratase (DDH) are highly homologous isofunctional enzymes that catalyze the elimination of water from glycerol and 1,2-propanediol (1,2-PD) to the corresponding aldehyde via a coenzyme B(12)-dependent radical mechanism. The crystal structure of substrate free form of GDH in complex with cobalamin and K(+) has been determined at 2.5 A resolution. Its overall fold and the subunit assembly closely resemble those of DDH. Comparison of this structure and the DDH structure, available only in substrate bound form, shows the expected change of the coordination of the essential K(+) from hexacoordinate to heptacoordinate with the displacement of a single coordinated water by the substrate diol. In addition, there appears to be an increase in the rigidity of the K(+) coordination (as measured by lower B values) upon the binding of the substrate. Structural analysis of the locations of conserved residues among various GDH and DDH sequences has aided in identification of residues potentially important for substrate preference or specificity of protein-protein interactions.


===Crystal structure of substrate free form of glycerol dehydratase===
Crystal structure of substrate free form of glycerol dehydratase.,Liao DI, Dotson G, Turner I Jr, Reiss L, Emptage M J Inorg Biochem. 2003 Jan 1;93(1-2):84-91. PMID:12538056<ref>PMID:12538056</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_12538056}}, adds the Publication Abstract to the page
<div class="pdbe-citations 1mmf" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 12538056 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_12538056}}
__TOC__
 
</StructureSection>
==About this Structure==
1MMF is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMF OCA].
 
==Reference==
<ref group="xtra">PMID:12538056</ref><references group="xtra"/>
[[Category: Glycerol dehydratase]]
[[Category: Klebsiella pneumoniae]]
[[Category: Klebsiella pneumoniae]]
[[Category: Dotson, G.]]
[[Category: Large Structures]]
[[Category: Emptage, M.]]
[[Category: Dotson G]]
[[Category: Liao, D I.]]
[[Category: Emptage M]]
[[Category: Reiss, L.]]
[[Category: Liao DI]]
[[Category: Turner, I.]]
[[Category: Reiss L]]
[[Category: Coenzyme b12]]
[[Category: Turner I]]
[[Category: Diol dehydratase]]
[[Category: Glycerol dehydratase]]
[[Category: Tim barrel]]
 
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Retrieved from "https://proteopedia.org/1mmf"