5yyc: Difference between revisions

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-'''Unreleased structure'''
-The entry 5yyc is ON HOLD  until Paper Publication
+==Crystal structure of alanine racemase from Bacillus pseudofirmus (OF4)==
+<StructureSection load='5yyc' size='340' side='right'caption='[[5yyc]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5yyc]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YYC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YYC FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alanine_racemase Alanine racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.1 5.1.1.1] </span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5yyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yyc OCA], [http://pdbe.org/5yyc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yyc RCSB], [http://www.ebi.ac.uk/pdbsum/5yyc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yyc ProSAT]</span></td></tr>
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/D3FSP1_BACPE D3FSP1_BACPE]] Catalyzes the interconversion of L-alanine and D-alanine. May also act on other amino acids.[HAMAP-Rule:MF_01201]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Alanine racemase (Alr) is a pyridoxal-5'-phosphate-dependent (PLP) enzyme that catalyzes a reversible racemization between the enantiomers of alanine. d-Alanine is an indispensable constituent in the biosynthesis of bacterial cell-wall peptidoglycan, and its inhibition is lethal to prokaryotes, which makes it an attractive target for designing antibacterial drugs. In this study, the molecular structure of alanine racemase from Bacillus pseudofirmus OF4 (DadXOF4) was determined by X-ray crystallography to a resolution of 1.8A. The comparison of DadXOF4 with alanine racemases from other bacteria demonstrated a conserved overall fold. Enzyme kinetics analysis showed that the conserved residues at the substrate entryway and the salt bridge at the dimer interface are critical for enzyme activity. These structural and biochemical findings provide a template for future structure-based drug-development efforts targeting alanine racemases.
-Authors: Dong, D.H., Hu, H.T.T., He, H.G.Z., Lu, L.D.R., Qi, Q.J.X., Dou, D.Y.S., Long, L.W., He, H.X., Su, S.D., Ju, J.J.S.
+Structural features and kinetic characterization of alanine racemase from Bacillus pseudofirmus OF4.,Dong H, Hu T, He G, Lu D, Qi J, Dou Y, Long W, He X, Ju J, Su D Biochem Biophys Res Commun. 2018 Feb 26;497(1):139-145. doi:, 10.1016/j.bbrc.2018.02.041. Epub 2018 Feb 7. PMID:29427660<ref>PMID:29427660</ref>
-Description: Crystal structure of alanine racemase from Bacillus pseudofirmus (OF4)
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Dou, D.Y.S]]
+<div class="pdbe-citations 5yyc" style="background-color:#fffaf0;"></div>
-[[Category: Qi, Q.J.X]]
-[[Category: Dong, D.H]]
+==See Also==
-[[Category: Hu, H.T.T]]
+*[[Alanine racemase 3D structures|Alanine racemase 3D structures]]
-[[Category: Su, S.D]]
+== References ==
-[[Category: He, H.G.Z]]
+<references/>
-[[Category: Lu, L.D.R]]
+__TOC__
-[[Category: Long, L.W]]
+</StructureSection>
-[[Category: Ju, J.J.S]]
+[[Category: Alanine racemase]]
-[[Category: He, H.X]]
+[[Category: Large Structures]]
+[[Category: Dong, H]]
+[[Category: Dou, Y S]]
+[[Category: He, G Z]]
+[[Category: He, X]]
+[[Category: Hu, T T]]
+[[Category: Ju, J S]]
+[[Category: Long, W]]
+[[Category: Lu, D R]]
+[[Category: Qi, J X]]
+[[Category: Su, D]]
+[[Category: Isomerase]]