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| | <StructureSection load='4prl' size='340' side='right'caption='[[4prl]], [[Resolution|resolution]] 2.60Å' scene=''> | | <StructureSection load='4prl' size='340' side='right'caption='[[4prl]], [[Resolution|resolution]] 2.60Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4prl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactobacillus_jensenii_1153 Lactobacillus jensenii 1153]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PRL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PRL FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4prl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lactobacillus_jensenii_1153 Lactobacillus jensenii 1153]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PRL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PRL FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4prk|4prk]]</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=4prl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4prl OCA], [https://pdbe.org/4prl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4prl RCSB], [https://www.ebi.ac.uk/pdbsum/4prl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4prl ProSAT]</span></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pdxB, LBJG_01197 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=440497 Lactobacillus jensenii 1153])</td></tr>
| + | |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-phosphoerythronate_dehydrogenase 4-phosphoerythronate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.290 1.1.1.290] </span></td></tr>
| + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4prl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4prl OCA], [http://pdbe.org/4prl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4prl RCSB], [http://www.ebi.ac.uk/pdbsum/4prl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4prl ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: 4-phosphoerythronate dehydrogenase]] | |
| | [[Category: Lactobacillus jensenii 1153]] | | [[Category: Lactobacillus jensenii 1153]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Kim, K J]] | + | [[Category: Kim KJ]] |
| - | [[Category: Kim, S]] | + | [[Category: Kim S]] |
| - | [[Category: Nad]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Rossmann fold]]
| + | |
| Structural highlights
Publication Abstract from PubMed
The thermostable d-lactate dehydrogenase from Lactobacillus jensenii (Ljd-LDH) is a key enzyme in the production of the d-form of lactic acid from pyruvate concomitant with the oxidation of NADH to NAD(+). The polymers of d-lactic acid are used as biodegradable bioplastics. The crystal structures of Ljd-LDH and in complex with NAD(+) were determined at 2.13 and 2.60A resolutions, respectively. The Ljd-LDH monomer consists of the N-terminal substrate-binding domain and the C-terminal NAD-binding domain. The Ljd-LDH forms a homodimeric structure, and the C-terminal NAD-binding domain mostly enables the dimerization of the enzyme. The NAD cofactor is bound to the GxGxxG NAD-binding motif located between the two domains. Structural comparisons of Ljd-LDH with other d-LDHs reveal that Ljd-LDH has unique amino acid residues at the linker region, which indicates that the open-close dynamics of Ljd-LDH might be different from that of other d-LDHs. Moreover, thermostability experiments showed that the T50(10) value of Ljd-LDH (54.5 degrees C) was much higher than the commercially available d-lactate dehydrogenase (42.7 degrees C). In addition, Ljd-LDH has at least a 7 degrees C higher denaturation temperature compared to commercially available d-LDHs.
Crystal structure and thermodynamic properties of d-lactate dehydrogenase from Lactobacillus jensenii.,Kim S, Gu SA, Kim YH, Kim KJ Int J Biol Macromol. 2014 Jul;68:151-7. doi: 10.1016/j.ijbiomac.2014.04.048. Epub, 2014 Apr 30. PMID:24794195[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Kim S, Gu SA, Kim YH, Kim KJ. Crystal structure and thermodynamic properties of d-lactate dehydrogenase from Lactobacillus jensenii. Int J Biol Macromol. 2014 Jul;68:151-7. doi: 10.1016/j.ijbiomac.2014.04.048. Epub, 2014 Apr 30. PMID:24794195 doi:http://dx.doi.org/10.1016/j.ijbiomac.2014.04.048
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