| Literature DB >> 35707637 |
Shaw Xian Au1,2, Noor Dina Muhd Noor1,3, Hiroyoshi Matsumura4, Raja Noor Zaliha Raja Abdul Rahman1,5, Yahaya M Normi1,2.
Abstract
Metallo-β-lactamases (MBLs) are class B β-lactamases from the metallo-hydrolase-like MBL-fold superfamily which act on a broad range of β-lactam antibiotics, thus conferring antibiotics resistance to bacterial pathogens. The attempt to structurally characterize BLEG-1, an evolutionary divergent B3 metallo-β-lactamase (MBL) with dual activity from Bacillus lehensis G1, led to the optimization of its purification, post-purification and crystallization processes for X-ray diffraction purpose. The workflow, conditions used and dataset obtained from each stage of the processes are presented herein. The optimization workflow has enabled the obtainment of purified, active BLEG-1 in high yield for its activity assays, crystallization and structure determination via X-ray diffraction. This is the first step to gain a better insight into its dual activity and evolutionary divergence from a structural perspective. The complete research article, including BLEG-1 dual activity analysis, is published in the International Journal of Molecular Sciences (Au et al., 2021). • The method was optimized to increase the stability of BLEG-1 in purification, post-purification and crystallization processes. • Protein crystallization using the optimized conditions presented herein is able to produce and regenerate BLEG-1 protein crystals of medium-size, which is an advantage in X-ray diffraction. • The method can be used for relevant homologs and variants of BLEG-1 for structure-function and mechanistic studies of such proteins.Entities:
Keywords: B3 metallo-β-lactamase; BLEG-1; Protein crystallography; Protein production; Protein purification
Year: 2022 PMID: 35707637 PMCID: PMC9189199 DOI: 10.1016/j.mex.2022.101740
Source DB: PubMed Journal: MethodsX ISSN: 2215-0161
Fig. 1SDS-PAGE (12%) gel image of BLEG-1 His-tagged fusion protein (26 kDa) (A) expressed in insoluble fraction (Lane 1), soluble fraction (Lane 2); and (B) purified via affinity chromatography (Lane 1: flow-through, Lane 2-6: purified fractions.). Lane M: unstained protein marker (Thermo Fisher Scientific, USA), size range: 14.4–116.0 kDa.
Fig. 2SDS-PAGE (12%) gel image of His-tagged fusion BLEG-1 treated with thrombin in the presence of glycerol at (A) 4 °C; (B) 25 °C; and (C) in the absence of glycerol at 4 °C and 25 °C, at various incubation period. Lane M: BLUelf prestained protein ladder (GeneDireX, Inc, USA), size range: 5.0–245.0 kDa; Lane 1: purified BLEG-1 without the addition of thrombin (control); Lane 2 onwards: BLEG-1 treated with thrombin at different incubation period. The sizes of BLEG-1 with and without His-tag were 26 kDa and 23 kDa, respectively.
Compilation of optimization parameters to date for the production and purification of BLEG-1 B3 MBL.
| Details | Tan et al. [ | Selvaraju et al. [ | Au et al. [ | Remarks |
|---|---|---|---|---|
| pET-32b | pET-28b | pET-28b | ||
| Luria-Bertani broth | Luria-Bertani broth | Luria-Bertani broth | ||
| 50 μg/mL ampicillin and 34 μg/mL chloramphenicol | 50 μg/mL kanamycin | 50 μg/mL kanamycin | ||
| Absent | Present | Present | 100 µM ZnSO4 was added to the cultivation medium as a means to allow the target protein to be incorporated with Zn2+. | |
| Buffer composition used in Selvaraju et al. | ||||
| No | No | Yes | ||
| Dialysis allows buffer exchange to take place gradually over time, in a diluted environment. This minimizes | ||||
| 3.2 mg | 27 mg | 32 mg |
Fig. 3SDS-PAGE (12%) gel image of cleaved BLEG-1 purified via (A) affinity chromatography (Lane 1: BLEG-1 without His-tag cleavage (control); Lane 2: BLEG-1 after His-tag cleavage); and (B) anion-exchange chromatography (Lane 1–3: purified fractions of His-tag-cleaved BLEG-1). Lane M: unstained protein marker (Thermo Fisher Scientific, USA), size range: 14.4–116.0 kDa. The sizes of BLEG-1 with and without His-tag were 26 kDa and 23 kDa, respectively.
Fig. 4Protein crystals formed in (A) formulation Tube 10 PEG/ Ion Screen 1TM (Hampton Research, USA) containing 0.2 M NaI and 20% (w/v) PEG3350 at 4 °C, and (B) in optimized formulation containing 0.5 M NaI and 30% (w/v) PEG3350 at 20 °C, at 1:1 protein-to-formulation ratio, after 14 days of incubation.
Observation of BLEG-1 protein crystal growth at 4 °C during optimization of crystallization conditions.
| 0.1 M NaI | 0.2 M NaI | 0.3 M NaI | 0.4 M NaI | 0.5 M NaI | |
|---|---|---|---|---|---|
| 10% (w/v) PEG3350 | - | - | |||
| 20% (w/v) PEG3350 | |||||
| 30% (w/v) PEG3350 |
“-” denotes no protein crystals formed.
Observation of BLEG-1 protein crystal growth at 20 °C during optimization of crystallization conditions.
| 0.1 M NaI | 0.2 M NaI | 0.3 M NaI | 0.4 M NaI | 0.5 M NaI | |
|---|---|---|---|---|---|
| 10% (w/v) PEG3350 | - | - | - | - | - |
| 20% (w/v) PEG3350 | - | - | - | - | - |
| 30% (w/v) PEG3350 | - | - |
“-” denotes no protein crystals formed.
| Biochemistry, Genetics and Molecular Biology | |
| Structural biology | |
| Optimized and regenerable two-steps purification and crystallization of evolutionary divergent B3 metallo-β-lactamase | |
| S.X. Au, N.S. Dzulkifly, N.D.M. Noor, H. Matsumura, R.N.Z.R.A. Rahman, Y.M. Normi, Dual Activity BLEG-1 from | |
| Not applicable. |