5xt4: Difference between revisions

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~~'''Unreleased structure'''~~

~~The entry~~ 5xt4 is ~~ON HOLD until Paper~~ Publication

==Crystal Structure of Transketolase in complex with TPP intermediate VIII' from Pichia Stipitis==

== Structural highlights ==

<table><tr><td colspan='2'>[[5xt4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Scheffersomyces_stipitis_CBS_6054 Scheffersomyces stipitis CBS 6054]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XT4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XT4 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]] 1.06Å</td></tr>

<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=T6F:2-C-{3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-5-(2-{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-IUM-2-YL}-6-O-PHOSPHONO-D-GLUCITOL'>T6F</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=5xt4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xt4 OCA], [https://pdbe.org/5xt4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xt4 RCSB], [https://www.ebi.ac.uk/pdbsum/5xt4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xt4 ProSAT]</span></td></tr>

</table>

== Function ==

[https://www.uniprot.org/uniprot/TKT_PICST TKT_PICST] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.

== Publication Abstract from PubMed ==

Transketolase (TK) catalyzes a reversible transfer of a two-carbon (C2 ) unit between phosphoketose donors and phosphoaldose acceptors, for which the group-transfer reaction that follows a one- or two-electron mechanism and the force that breaks the C2"-C3" bond of the ketose donors remain unresolved. Herein, we report ultrahigh-resolution crystal structures of a TK (TKps) from Pichia stipitis in previously undiscovered intermediate states and support a diradical mechanism for a reversible group-transfer reaction. In conjunction with MS, NMR spectroscopy, EPR and computational analyses, it is concluded that the enzyme-catalyzed non-Kekule diradical cofactor brings about the C2"-C3" bond cleavage/formation for the C2 -unit transfer reaction, for which suppression of activation energy and activation and destabilization of enzymatic intermediates are facilitated.

~~Authors: Li~~, ~~T.L.~~, Hsu, ~~N.S.~~, Wang, Y.L.

Evidence of Diradicals Involved in the Yeast Transketolase Catalyzed Keto-Transferring Reactions.,Hsu NS, Wang YL, Lin KH, Chang CF, Ke SC, Lyu SY, Hsu LJ, Li YS, Chen SC, Wang KC, Li TL Chembiochem. 2018 Nov 16;19(22):2395-2402. doi: 10.1002/cbic.201800378. Epub 2018, Oct 18. PMID:30155962<ref>PMID:30155962</ref>

~~Description~~: ~~Crystal Structure of~~ Transketolase ~~in complex with TPP intermediate IX' from Pichia Stipitis~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased~~ Structures]]

</div>

[[Category: ~~Li, T.L~~]]

[[Category: Hsu~~, N.S~~]]

[[Category: Wang~~, Y.L~~]]

==See Also==

*[[Transketolase 3D structures|Transketolase 3D structures]]

== References ==

__TOC__

</StructureSection>

[[Category: Large Structures]]

[[Category: Scheffersomyces stipitis CBS 6054]]

[[Category: Hsu NS]]

[[Category: Li TL]]

[[Category: Wang YL]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5xt4 is ON HOLD  until Paper Publication
+==Crystal Structure of Transketolase in complex with TPP intermediate VIII' from Pichia Stipitis==
+<StructureSection load='5xt4' size='340' side='right'caption='[[5xt4]], [[Resolution|resolution]] 1.06&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5xt4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Scheffersomyces_stipitis_CBS_6054 Scheffersomyces stipitis CBS 6054]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XT4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XT4 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]] 1.06&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=T6F:2-C-{3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-5-(2-{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-IUM-2-YL}-6-O-PHOSPHONO-D-GLUCITOL'>T6F</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=5xt4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xt4 OCA], [https://pdbe.org/5xt4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xt4 RCSB], [https://www.ebi.ac.uk/pdbsum/5xt4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xt4 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TKT_PICST TKT_PICST] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Transketolase (TK) catalyzes a reversible transfer of a two-carbon (C2 ) unit between phosphoketose donors and phosphoaldose acceptors, for which the group-transfer reaction that follows a one- or two-electron mechanism and the force that breaks the C2"-C3" bond of the ketose donors remain unresolved. Herein, we report ultrahigh-resolution crystal structures of a TK (TKps) from Pichia stipitis in previously undiscovered intermediate states and support a diradical mechanism for a reversible group-transfer reaction. In conjunction with MS, NMR spectroscopy, EPR and computational analyses, it is concluded that the enzyme-catalyzed non-Kekule diradical cofactor brings about the C2"-C3" bond cleavage/formation for the C2 -unit transfer reaction, for which suppression of activation energy and activation and destabilization of enzymatic intermediates are facilitated.
-Authors: Li, T.L., Hsu, N.S., Wang, Y.L.
+Evidence of Diradicals Involved in the Yeast Transketolase Catalyzed Keto-Transferring Reactions.,Hsu NS, Wang YL, Lin KH, Chang CF, Ke SC, Lyu SY, Hsu LJ, Li YS, Chen SC, Wang KC, Li TL Chembiochem. 2018 Nov 16;19(22):2395-2402. doi: 10.1002/cbic.201800378. Epub 2018, Oct 18. PMID:30155962<ref>PMID:30155962</ref>
-Description: Crystal Structure of Transketolase in complex with TPP intermediate IX' from Pichia Stipitis
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Li, T.L]]
+<div class="pdbe-citations 5xt4" style="background-color:#fffaf0;"></div>
-[[Category: Hsu, N.S]]
-[[Category: Wang, Y.L]]
+==See Also==
+*[[Transketolase 3D structures|Transketolase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Scheffersomyces stipitis CBS 6054]]
+[[Category: Hsu NS]]
+[[Category: Li TL]]
+[[Category: Wang YL]]