6k1f: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(2 intermediate revisions by the same user not shown)
Line 1: Line 1:
'''Unreleased structure'''


The entry 6k1f is ON HOLD  until Paper Publication
==Crystal structure of the L-fucose isomerase from Raoultella sp.==
<StructureSection load='6k1f' size='340' side='right'caption='[[6k1f]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6k1f]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Raoultella_planticola Raoultella planticola]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K1F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K1F 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]] 2.5&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=6k1f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k1f OCA], [https://pdbe.org/6k1f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k1f RCSB], [https://www.ebi.ac.uk/pdbsum/6k1f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k1f ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A0A443VNT1_RAOPL A0A443VNT1_RAOPL] Converts the aldose L-fucose into the corresponding ketose L-fuculose.[HAMAP-Rule:MF_01254]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Background: l-Fucose is a rare sugar with potential uses in the pharmaceutical, cosmetic, and food industries. The enzymatic approach using l-fucose isomerase, which interconverts l-fucose and l-fuculose, can be an efficient way of producing l-fucose for industrial applications. Here, we performed biochemical and structural analyses of l-fucose isomerase identified from a novel species of Raoultella (RdFucI). Results: RdFucI exhibited higher enzymatic activity for l-fuculose than for l-fucose, and the rate for the reverse reaction of converting l-fuculose to l-fucose was higher than that for the forward reaction of converting l-fucose to l-fuculose. In the equilibrium mixture, a much higher proportion of l-fucose (~ ninefold) was achieved at 30 degrees C and pH 7, indicating that the enzyme-catalyzed reaction favors the formation of l-fucose from l-fuculose. When biochemical analysis was conducted using l-fuculose as the substrate, the optimal conditions for RdFucI activity were determined to be 40 degrees C and pH 10. However, the equilibrium composition was not affected by reaction temperature in the range of 30 to 50 degrees C. Furthermore, RdFucI was found to be a metalloenzyme requiring Mn(2+) as a cofactor. The comparative crystal structural analysis of RdFucI revealed the distinct conformation of alpha7-alpha8 loop of RdFucI. The loop is present at the entry of the substrate binding pocket and may affect the catalytic activity. Conclusions: RdFucI-catalyzed isomerization favored the reaction from l-fuculose to l-fucose. The biochemical and structural data of RdFucI will be helpful for the better understanding of the molecular mechanism of l-FucIs and the industrial production of l-fucose.


Authors: Kim, I.J., Kim, D.H., Nam, K.H., Kim, K.H.
Enzymatic synthesis of l-fucose from l-fuculose using a fucose isomerase from Raoultella sp. and the biochemical and structural analyses of the enzyme.,Kim IJ, Kim DH, Nam KH, Kim KH Biotechnol Biofuels. 2019 Dec 5;12:282. doi: 10.1186/s13068-019-1619-0., eCollection 2019. PMID:31827610<ref>PMID:31827610</ref>


Description: Crystal structure of the L-fucose isomerase from Raoultella sp.
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Kim, D.H]]
<div class="pdbe-citations 6k1f" style="background-color:#fffaf0;"></div>
[[Category: Kim, K.H]]
== References ==
[[Category: Kim, I.J]]
<references/>
[[Category: Nam, K.H]]
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Raoultella planticola]]
[[Category: Kim DH]]
[[Category: Kim IJ]]
[[Category: Kim KH]]
[[Category: Nam KH]]
Retrieved from "https://proteopedia.org/6k1f"