4PRK image
Deposition Date 2014-03-06
Release Date 2014-06-18
Last Version Date 2024-03-20
Entry Detail
PDB ID:
4PRK
Keywords:
Title:
Crystal structure of D-lactate dehydrogenase (D-LDH) from Lactobacillus jensenii
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.13 Å
R-Value Free:
0.27
R-Value Work:
0.21
R-Value Observed:
0.23
Space Group:
P 31 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:4-phosphoerythronate dehydrogenase
Chain IDs:A, B
Chain Length:336
Number of Molecules:2
Biological Source:Lactobacillus jensenii
Primary Citation
Crystal structure and thermodynamic properties of d-lactate dehydrogenase from Lactobacillus jensenii.
Int.J.Biol.Macromol. 68C 151 157 (2014)
PMID: 24794195 DOI: 10.1016/j.ijbiomac.2014.04.048

Abstact

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 2.60Å 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°C) was much higher than the commercially available d-lactate dehydrogenase (42.7°C). In addition, Ljd-LDH has at least a 7°C higher denaturation temperature compared to commercially available d-LDHs.

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Primary Citation of related structures
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