4cr7: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4cr7]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Flavobacterium_sp._141-8 Flavobacterium sp. 141-8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CR7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CR7 FirstGlance]. <br> | <table><tr><td colspan='2'>[[4cr7]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Flavobacterium_sp._141-8 Flavobacterium sp. 141-8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CR7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CR7 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BM3:2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MANNOPYRANOSE'>BM3</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.15Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BM3:2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-MANNOPYRANOSE'>BM3</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</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=4cr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4cr7 OCA], [https://pdbe.org/4cr7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4cr7 RCSB], [https://www.ebi.ac.uk/pdbsum/4cr7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4cr7 ProSAT]</span></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=4cr7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4cr7 OCA], [https://pdbe.org/4cr7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4cr7 RCSB], [https://www.ebi.ac.uk/pdbsum/4cr7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4cr7 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[https://www.uniprot.org/uniprot/DHMA_FLAS1 DHMA_FLAS1] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
Latest revision as of 15:15, 20 December 2023
Crystal structure of the N-acetyl-D-mannosamine dehydrogenase with n-acetylmannosamineCrystal structure of the N-acetyl-D-mannosamine dehydrogenase with n-acetylmannosamine
Structural highlights
FunctionPublication Abstract from PubMedN-acetyl-D-mannosamine dehydrogenase (NAMDH) from the soil bacteroidete Flavobacterium sp 141-8 catalyses a rare NAD+-dependent oxidation of N-acetyl-D-mannosamine (ManNAc) into N-acetylmannosamino-lactone, which spontaneously hydrolyses into N-acetylmannosaminic acid. NAMDH belongs to the SDR (short-chain dehydrogenase/reductase) superfamily representing the only NAMDH characterized to date. Thorough functional, stability, site-directed mutagenesis and crystallographic studies have been carried out to better understand the structural and biochemical aspects of this unique enzyme. NAMDH exhibited remarkable alkaline pH optimum (pH 9.4) with a high thermal stability in glycine buffer (Tm = 64 masculineC) and a strict selectivity towards ManNAc and NAD+. Crystal structures of ligand-free and N-acetyl-D-mannosamine and NAD+-bound enzyme forms revealed a compact homotetramer having point 222 symmetry, formed by subunits presenting the characteristic SDR alpha3beta7alpha3 sandwich fold. A highly developed C-terminal tail used as a latch connecting nearby subunits stabilizes the tetramer. A dense network of polar interactions with the substrate including the encasement of its acetamido group in a specific binding pocket and the hydrogen binding of the sugar 4OH atom ensure specificity for N-acetyl-D-mannosamine.The NAMDH-substrate complexes and site-directed mutagenesis studies identify the catalytic tetrad and provide useful traits for identifying new NAMDH sequences. Crystal structures and functional studies clarify substrate selectivity and catalytic residues for the unique orphan enzyme N-acetyl-D-mannosamine dehydrogenase.,Sola-Carvajal A, Gil-Ortiz F, Garcia-Carmona F, Rubio V, Sanchez-Ferrer A Biochem J. 2014 Jun 27. PMID:24969681[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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