3upb: Difference between revisions

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-{{STRUCTURE_3upb|  PDB=3upb  |  SCENE=  }}
-===1.5 Angstrom Resolution Crystal Structure of Transaldolase from Francisella tularensis in Covalent Complex with Arabinose-5-Phosphate===
-{{ABSTRACT_PUBMED_24510200}}
-==Function==
+==1.5 Angstrom Resolution Crystal Structure of Transaldolase from Francisella tularensis in Covalent Complex with Arabinose-5-Phosphate==
-[[http://www.uniprot.org/uniprot/Q5NFX0_FRATT Q5NFX0_FRATT]] Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway (By similarity).[RuleBase:RU004155][SAAS:SAAS004730_004_006516]
+<StructureSection load='3upb' size='340' side='right'caption='[[3upb]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3upb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Francisella_tularensis_subsp._tularensis Francisella tularensis subsp. tularensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UPB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UPB 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]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A5P:ARABINOSE-5-PHOSPHATE'>A5P</scene>, <scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</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=3upb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3upb OCA], [https://pdbe.org/3upb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3upb RCSB], [https://www.ebi.ac.uk/pdbsum/3upb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3upb ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q5NFX0_FRATT Q5NFX0_FRATT] Transaldolase is important for the balance of metabolites in the pentose-phosphate pathway (By similarity).[RuleBase:RU004155][SAAS:SAAS004730_004_006516]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Arabinose 5-phosphate (A5P) is the aldopentose version of the ketohexose fructose 6-phosphate (F6P), having identical stereochemistry but lacking atoms corresponding to the 1-carbon and 1-hydroxyl. Despite structural similarity and conservation of the reactive portion of F6P, F6P acts as a substrate whereas A5P is reported to be an inhibitor of transaldolase. To address the lack of A5P reactivity we determined a crystal structure of the Francisella tularensis transaldolase in complex with A5P. This structure reveals that like F6P, A5P forms a covalent Schiff base with active site Lys135. Unlike F6P, A5P binding fails to displace an ordered active site water molecule. Retaining this water necessitates conformational changes at the A5P-protein linkage that possibly hinder reactivity. The findings presented here show the basis of A5P inhibition and suggest an unusual mechanism of competitive, reversible-covalent transaldolase regulation.
-==About this Structure==
+Arabinose 5-phosphate covalently inhibits transaldolase.,Light SH, Anderson WF J Struct Funct Genomics. 2014 Mar;15(1):41-4. doi: 10.1007/s10969-014-9174-1., Epub 2014 Feb 9. PMID:24510200<ref>PMID:24510200</ref>
-[[3upb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"francisella_tularensis_subsp._nearctica"_olsufjev_1970 "francisella tularensis subsp. nearctica" olsufjev 1970]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UPB OCA].
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3upb" style="background-color:#fffaf0;"></div>
 ==See Also==
-*[[Transaldolase|Transaldolase]]
+*[[Transaldolase 3D structures|Transaldolase 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:024510200</ref><references group="xtra"/><references/>
+__TOC__
-[[Category: Francisella tularensis subsp. nearctica olsufjev 1970]]
+</StructureSection>
-[[Category: Transaldolase]]
+[[Category: Francisella tularensis subsp. tularensis]]
-[[Category: Anderson, W F.]]
+[[Category: Large Structures]]
-[[Category: CSGID, Center for Structural Genomics of Infectious Diseases.]]
+[[Category: Anderson WF]]
-[[Category: Light, S H.]]
+[[Category: Light SH]]
-[[Category: Minasov, G.]]
+[[Category: Minasov G]]
-[[Category: Papazisi, L.]]
+[[Category: Papazisi L]]
-[[Category: Shuvalova, L.]]
+[[Category: Shuvalova L]]
-[[Category: Alpha-beta barrel/tim barrel]]
-[[Category: Center for structural genomics of infectious disease]]
-[[Category: Csgid]]
-[[Category: Structural genomic]]
-[[Category: Transferase]]