| Literature DB >> 28509615 |
Wen-Bin Zhou1, Jin-Song Gong1, Hai-Juan Hou1, Heng Li1, Zhen-Ming Lu1,2, Hong-Yu Xu1,2, Zheng-Hong Xu1,2, Jin-Song Shi1.
Abstract
Phosphatidylserine (PS) is useful as the additive in industries for memory improvement, mood enhancement and drug delivery. Conventionally, PS was extracted from soybeans, vegetable oils, egg yolk, and biomass; however, their low availability and high extraction cost were limiting factors. Phospholipase D (PLD) is a promising tool for enzymatic synthesis of PS due to its transphosphatidylation activity. In this contribution, a new and uncharacterized PLD was first obtained from GenBank database via genome mining strategy. The open reading frame consisted of 1614 bp and potentially encoded a protein of 538-amino-acid with a theoretical molecular mass of 60 kDa. The gene was successfully cloned and expressed in Escherichia coli. Its enzymatic properties were experimentally characterized. The temperature and pH optima of PLD were determined to be 60°C and 7.5, respectively. Its hydrolytic activity was improved by addition of Ca2+ at 5 mM as compared with the control. The enzyme displayed suitable transphosphatidylation activity and PS could be synthesized with L-serine and soybean lecithin as substrates under the catalysis of PLD. This PLD enzyme might be a potential candidate for industrial applications in PS production. To the best of our knowledge, this is the first report on genome mining of PLDs from GenBank database.Entities:
Keywords: Cloning and expression; Enzyme characterization; Genome mining; Phosphatidylserine; Phospholipase D
Mesh:
Substances:
Year: 2017 PMID: 28509615 PMCID: PMC5972935 DOI: 10.1080/21655979.2017.1308992
Source DB: PubMed Journal: Bioengineered ISSN: 2165-5979 Impact factor: 3.269
Organisms and accession numbers of the putative phospholipase D minedfrom the GenBank database.
| Organisms | GenBank Accession no. | Predicted function | Definedb function | Identitya (%) |
|---|---|---|---|---|
| 1F0I_A | phospholipase D | 100 | ||
| BAB69062.1 | phospholipase D | 86 | ||
| BAL15170.1 | phospholipase D | 83 | ||
| CAF28888.1 | phospholipase D | 82 | ||
| BAA75216.1 | phospholipase D | 82 | ||
| WP_030196193.1 | phospholipase | 80 | ||
| WP_051850263.1 | phospholipase | 79 | ||
| WP_051696556.1 | phospholipase | 79 | ||
| ABY71835.1 | phospholipase D | 79 | ||
| WP_037845646.1 | phospholipase | 79 | ||
| BAB92022.2 | phospholipase D | 79 | ||
| WP_030234440.1 | phospholipase | 78 | ||
| WP_046420913.1 | phospholipase | 78 | ||
| WP_004956185.1 | phospholipase | 77 | ||
| WP_019891137.1 | phospholipase | 77 | ||
| Streptomyces sp NRRL S-444 | KJY44982.1 | phospholipase | 76 | |
| WP_037634994.1 | phospholipase | 76 | ||
| BAJ15265.1 | phospholipase D | 76 | ||
| WP_052499544.1 | phospholipase | 76 | ||
| WP_030031279.1 | phospholipase | 75 | ||
| WP_045950021.1 | phospholipase | 75 | ||
| WP_031157604.1 | phospholipase | 75 | ||
| WP_030654627.1 | phospholipase | 75 | ||
| WP_031173856.1 | phospholipase | 75 | ||
| BAB72230.1 | phospholipase D | 74 | ||
| WP_037922288.1 | phospholipase | 74 | ||
| WP_033226935.1 | phospholipase | 74 | ||
| WP_030390510.1 | phospholipase | 74 | ||
| WP_030817873.1 | phospholipase | 74 | ||
| WP_006606984.1 | phospholipase | 73 | ||
| BAR46028.1 | phospholipase D | 73 | ||
| WP_037618265.1 | phospholipase | 73 | ||
| Q53728.1 | phospholipase D | 73 | ||
| 2ZE4_A | phospholipase D | 73 | ||
| 2ZE9_A | phospholipase | 73 | ||
| WP_052707075.1 | phospholipase | 71 | ||
| WP_045710701.1 | phospholipase | 71 | ||
| WP_045942976.1 | phospholipase | 71 | ||
| WP_037848087.1 | phospholipase | 69 | ||
| WP_033347441.1 | phospholipase | 68 | ||
| WP_052391292.1 | phospholipase | 68 | ||
| WP_037828318.1 | phospholipase | 68 |
aBLASTP was performed by comparing the amino acid sequence with that of the phospholipase D from Streptomyces sp. PMF.
bThe enzymes were experimentally characterized to harbor phospholipase D activity.
Figure 1.Unrooted neighbor-joining tree based on the amino acid sequences of the organisms from Table 1 (accession numbers are in parentheses). A consensus tree was constructed using a bootstrap test with 1000 replications. Bootstrap values greater than 50% are shown at the branch points. The organisms harboring defined PLD activity are shadowed.
Figure 2.Subcloning of PLD gene into pET-28a(+) vector. The PLD gene was amplified by PCR using the primers containing restriction sites of BamHI and HindIII and subcloned into pET-28a(+) expression vector. Lanes:M, 5 kb DNA ladder; 1, amplified PLD gene; 2, pET28a(+)-PLD/(BamHI + HindIII).
Figure 3.Western blot analysis for confirming the expression of PLD.
Figure 4.Effect of pH on PLD activity. The optimal activity of PLD was determined using standard assay in 40 mM of the following buffers. Symbols: diamond, disodium hydrogen phosphate-citric acid buffer (pH 4.0–8.0); square, Tris-HCl buffer (pH 8.0–9.0); triangle, glycine-sodium hydroxide (pH 9.0–10.0). The maximum activity was taken as 100%. To determine pH stability, the enzyme was incubated at 37°C for 60 min in various buffers mentioned above, and the residual activities were measured.
Figure 5.Effect of temperature on activity of PLD. The optimal activities of PLD were tested at different temperatures (20–80°C) in Tris-HCl (40 mM, pH 7.5) using standard assay. For evaluating the thermostability, the residual activities were measured in 40 mM Tris-HCl (pH 7.5) at 37°C after the enzyme was treated for 60 min at different temperatures.
Effects of various inhibitors and metal ions on PLD stability.
| Inhibitors/metal ions | Concentration (mM) | Residual activity (%) | Inhibitors/metal ions | Concentration (mM) | Residual activity (%) |
|---|---|---|---|---|---|
| None | 0 | 100 ± 0.3 | Co2+ | 5 | 117.8 ± 1.8 |
| 2-ME | 5 | 75 ± 0.9 | Na+ | 5 | 101.5 ± 1.2 |
| DTT | 5 | 80 ± 1.1 | Cu2+ | 5 | 108.2 ± 0.6 |
| SDS | 5 | 50 ± 2.1 | Mn2+ | 5 | 101.7 ± 1.5 |
| PMSF | 5 | 40 ± 0.3 | Li+ | 5 | 107.6 ± 0.8 |
| EDTA | 5 | 6 ± 0.6 | Fe3+ | 5 | 105.9 ± 2.1 |
| K+ | 5 | 105.2 ± 1.5 | Fe2+ | 5 | 56.0 ± 2.2 |
| Mg2+ | 5 | 101.1 ± 0.3 | Ag+ | 5 | 27.0 ± 1.2 |
| Ba2+ | 5 | 118.2 ± 1.5 | Zn2+ | 5 | 109.7 ± 0.6 |
| Ca2+ | 5 | 134.1 ± 0.2 | Al3+ | 5 | 109.3 ± 2.4 |
Note. The activity of control sample without addition of any chemicals was considered as 100%. Residual activity was measured at pH 7.5 at 55°C.
Figure 6.Determination of PS by HPLC. The reaction mixtures were subjected to HPLC using ELSD detection for the determination of PS. (A) The PS standard sample. (B) The reaction mixture for 10-h transphosphatidylation.