3any: Difference between revisions

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[[Image:3any.png|left|200px]]


{{STRUCTURE_3any| PDB=3any | SCENE= }}
==Crystal structure of ethanolamine ammonia-lyase from escherichia coli complexed with CN-CBL and (R)-2-amino-1-propanol==
<StructureSection load='3any' size='340' side='right'caption='[[3any]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3any]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ANY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ANY FirstGlance]. <br>
</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>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2A3:(2R)-2-AMINOPROPAN-1-OL'>2A3</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3any OCA], [https://pdbe.org/3any PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3any RCSB], [https://www.ebi.ac.uk/pdbsum/3any PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3any ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/EUTB_ECOLI EUTB_ECOLI]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Coenzyme B(12)-dependent ethanolamine ammonia-lyase acts on both enantiomers of the substrate 2-amino-1-propanol [Diziol, P., et al. (1980) Eur. J. Biochem. 106, 211-224]. To rationalize this apparent lack of stereospecificity and the enantiomer-specific stereochemical courses of the deamination, we analyzed the X-ray structures of enantiomer-bound forms of the enzyme-cyanocobalamin complex. The lower affinity for the (R)-enantiomer may be due to the conformational change of the Valalpha326 side chain of the enzyme. In a manner consistent with the reported experimental results, we can predict that the pro-S hydrogen atom on C1 is abstracted by the adenosyl radical from both enantiomeric substrates, because it is the nearest one in both enantiomer-bound forms. We also predicted that the NH(2) group migrates from C2 to C1 by a suprafacial shift, with inversion of configuration at C1 for both enantiomeric substrates, although the absolute configuration of the 1-amino-1-propanol intermediate is not yet known. Reported labeling experiments demonstrate that (R)-2-amino-1-propanol is deaminated by the enzyme with inversion of configuration at C2, whereas the (S)-enantiomer is deaminated with retention. By taking these results into consideration, we can predict the rotameric radical intermediate from the (S)-enantiomer undergoes flipping to the rotamer from the (R)-enantiomer before the hydrogen back-abstraction. This suggests the preference of the enzyme active site for the rotamer from the (R)-enantiomer in equilibration. This preference might be explained in terms of the steric repulsion of the (S)-enantiomer-derived product radical at C3 with the Phealpha329 and Leualpha402 residues.


===Crystal structure of ethanolamine ammonia-lyase from escherichia coli complexed with CN-CBL and (R)-2-amino-1-propanol===
How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization.,Shibata N, Higuchi Y, Toraya T Biochemistry. 2011 Feb 1;50(4):591-8. Epub 2010 Dec 30. PMID:21142024<ref>PMID:21142024</ref>


{{ABSTRACT_PUBMED_21142024}}
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
==About this Structure==
<div class="pdbe-citations 3any" style="background-color:#fffaf0;"></div>
[[3any]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ANY OCA].
== References ==
 
<references/>
==Reference==
__TOC__
<ref group="xtra">PMID:021142024</ref><references group="xtra"/>
</StructureSection>
[[Category: Escherichia coli k-12]]
[[Category: Escherichia coli K-12]]
[[Category: Ethanolamine ammonia-lyase]]
[[Category: Large Structures]]
[[Category: Shibata, N.]]
[[Category: Shibata N]]
[[Category: Cobalamin]]
[[Category: Cobalt]]
[[Category: Lyase]]
[[Category: Tim barrel]]
Retrieved from "https://proteopedia.org/3any"