A Dual-Standard Reversed-Phase HPLC-UV Method for the Simultaneous Identification, Assay, and Impurities Analysis of Phenylboronic Acid: Using 4-Methoxyphenyl Boronic Acid as a Model Compound

Abstract

Boronic acids (BAs) are versatile building blocks in organic synthesis and the pharmaceutical industry. A dual-standard reverse phase (RP) HPLC-UV method was developed for the simultaneous identification (as monomer), assay (as monomer), and impurities analysis of phenylboronic acid (PBA), using 4-methoxyphenyl boronic acid (4-MPBA) as a model compound. The method utilizes an Ascentis? Express 90 ? ES-Cyano column with 0.025% TFA in both mobile phases (A: water, B: methanol). It employs a simple gradient with an injection volume of 10 μL and a flow rate of 0.8 mL/min. This QC-friendly, single-sequence method achieves baseline separation of the analyte and its impurities. By utilizing a stable, readily available bromo-analog surrogate for quantitation, it bypasses the need for a single-component primary BA reference standard.

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Ying, W. , Castelo, M. , Li, J. and Wu, F. (2026) A Dual-Standard Reversed-Phase HPLC-UV Method for the Simultaneous Identification, Assay, and Impurities Analysis of Phenylboronic Acid: Using 4-Methoxyphenyl Boronic Acid as a Model Compound. American Journal of Analytical Chemistry, 17, 147-175. doi: 10.4236/ajac.2026.175011.

1. Introduction

Boronic acids (BA) are versatile building blocks in organic synthesis [1] [2]. Through scalable and efficient Suzuki-Miyaura coupling reactions [2], BAs are the intermediates of Active Pharmaceutical Ingredients (APIs) in pharmaceutical industries [3], drugs [4]-[10], or prodrugs [11]. BAs are also used as analytical probes [12], as well as drug delivery materials [13] [14]. BA typically exists as a mixture of monomer and various oligomers [15]-[20]. As shown in Figure 1, these oligomers include dimers, trimers, and tetramers, as well as their partially hydrolyzed forms. The monomer undergoes dehydration to form oligomers when exposed to heat, vacuum, or even ambient conditions [17]-[20]. Conversely, these interchangeable oligomers revert to the monomer via rapid hydrolysis upon exposure to moisture, including atmospheric humidity. Consequently, the exact composition of BA may fluctuate during preparation (from batch to batch), transportation, and storage.

Figure 1. Structure of boronic acid, monomer and oligomers.

Different analytical methods have been applied to boronic acid analysis, including both non-chromatographic and chromatographic techniques. Non-chromatographic methods are primarily qualitative and used for characterization, such as melting point [21], thermogravimetric analysis (TGA) [15], differential scanning calorimetry (DSC) [15], X-ray powder diffraction (XRPD) [15], infrared (IR) [22], Raman spectroscopy [23], and nuclear magnetic resonance (NMR) [15] [16] [24]. Conversely, chromatographic methods, such as gas chromatography (GC) and liquid chromatography (LC), are used for quantitation. GC analyses require derivatization [25] [26], a process that involves extra sample preparation steps which may inevitably introduce additional variation. LC techniques include thin-layer chromatography (TLC) [27], reversed-phase high-performance liquid chromatography (RP-HPLC) [28]-[30], and hydrophilic interaction liquid chromatography (HILIC-HPLC) [31]. Several mass spectrometry (MS)-based HPLC methods have also been reported [30] [32]-[36].

During the manufacture of a PBA-type intermediate for an API in clinical studies, an urgent need arose to develop a QC-friendly HPLC method for identification (ID as monomer), assay (%w/w as monomer), and impurity analysis within a two-week timeframe. Procuring a high-purity, single-component PBA reference standard (monomer or oligomer) from domestic or international sources, such as those in India, was not feasible within this period.

To resolve these issues, a dual-standard approach was implemented: the PBA was used as a retention time marker for identification, while a readily available bromo-analogue1 was employed for quantitation (assay and impurity). In this paper, we present a simple, QC-friendly RP-HPLC-UV method using 4-methoxyphenylboronic acid (4-MPBA) as a model compound.

2. Experimental Method

2.1. Chemicals and Abbreviations

4-Methoxyphenylboronic acid (4-MPBA) was purchased from Thermo Fisher Scientific (Cat. No. 30948, ≥ 96%). 4-Methoxyphenol (Phenol, Cat. No. M18655, 99.8% by GC), Anisole (Des-Br, Cat. No. 296295, 99.7% by GC), 4-Bromoanisole (Bromo, Cat. No. A11824, 98.8% by GC), and 4, 4’-Dimethoxybiphenyl (BisPh, Cat. No. 148539, 99.5% by GC), were purchased from Sigma-Aldrich. The potential impurities of compound 4-MPBA are illustrated in Figure 2, where Bromo is the leftover starting material, Phenol is the oxidation impurity, and Des-Br and BisPh are typical processing impurities.

1,3,5-Trimethoxybenzene (74599-1G, Lot BCCG8790, Potency 0.9999, qNMR reference standard), Dimethyl sulfoxide-d6 (DMSO-d6, Cat. No. 320760075, 100.0 atom %D, for NMR solvent), and Deuterium oxide (D2O, 99.9 atom % D) were purchased from Sigma-Aldrich.

Mobile phase components were HPLC grade and purchased from Fisher Chemical or Sigma-Aldrich: Acetonitrile (ACN, HPLC grade, Fisher Scientific A998-4), Methanol (MeOH, HPLC grade, Fisher Scientific A452SK-4), Trifluoroacetic acid (TFA, HPLC grade, Sigma Aldrich 302031), O-Phosphoric Acid (PA, 85% HPLC Grade, Fisher A260), Formic Acid (FA, LC-MS grade, Thermo Scientific 28905), Ammonium Formate (AF, Optima LCMS grade, Fisher Chemical A115-50), Ammonium Acetate (AAc, ≥99.99% trace metals basis, Sigma Aldrich 431311-50G), Acetic acid (AA, glacial (HPLC) grade, Fisher Chemical A35-500), and Ammonium hydroxide (NH4OH, ≥99.99% trace metals basis, Sigma Aldrich 338818-1L).

Figure 2. Structure of 4-MPBA and its potential impurities.

2.2. RP-HPLC-UV Method

The analyses are performed on a Agilent Infinity II 1260/1290 system with a UV detector (wavelength 223 nm), using a reverse phase (RP) HPLC column (Ascentis® Express 90 Å ES-Cyano, 2.7 µm, 150 mm × 4.6 mm) at 35˚C, with 0.025% TFA in both mobile phases A (water) and B (methanol), applying a simple gradient (0 – 1 min, 14%B; 1 – 22 min, 14% - 80%B; 22 – 25 min, 80%B; 25 - 25.1 min, 80% - 14%B; 25.1 - 30min, 14%B), with an injection volume of 10 µL, and at a flow rate of 0.8 mL/min. Refer to Table S1 in the supplementary material for detailed HPLC conditions. A working standard solution (WSS) was a mixture of 0.1 mg/mL of each of two standards, 4-MPBA and Bromo. The purity sample was prepared at 1.0 mg/mL in diluent (50% aqueous acetonitrile). The assay sample was prepared by 10-fold dilution from the purity sample. The resolution solution was prepared by spiking 2% w/w of each potential impurity into 1.0 mg/mL of 4-MPBA. Limit of quantitation (LOQ) solution was prepared by serial dilution (200-fold) from the WSS. To ensure consistent results, all HPLC samples were allowed to equilibrate in the aqueous diluent for approximately 30 seconds prior to injection.

The assay (% w/w) of sample can be calculated from Equation (1). Similarly individual impurity (% w/w) of sample can be calculated from Equation (2).

Assay( % )=( Asam Astd )*( Cstd Cassay )*( P RRF )*100 (1)

Impurity( % )=( Asam( i ) Astd )*( Cstd Cpurity )*( P RRF( i ) )*100 (2)

Where: Asam is the peak area of 4-MPBA in the assay sample. Astd is mean peak area (n = 6) of the Bromo in the first 6 injections of the WSS. Cstd is nominal concentration of the Bromo in the WSS (e.g., 0.1 mg/mL). Cassay is nominal concentration of the assay sample solution (e.g., 0.1 mg/mL). P is the potency of the Bromo reference standard (e.g., 0.988). RRF is the Relative response factor of 4-MPBA relative to the Bromo standard, calculated by dividing the slope of the 4-MPBA linear curve (0.05 - 0.15 mg/mL; 50% - 150% of 0.1 mg/mL) by the slope of the Bromo linear curve over the same range. Asam (i) is the peak area of individual impurity in the purity sample. Cpurity is nominal concentration of the purity sample solution (e.g., 1.0 mg/mL). RRF (i) is the relative response factor of each impurity relative to the Bromo standard, calculated by dividing the slope of the linear curve for each impurity (0.0005 - 0.02 mg/mL; 0.05% - 2.0% of 1.0 mg/mL) by the slope of the Bromo linear curve (0.05 - 0.15 mg/mL; 50% - 150% of 0.1 mg/mL).

3. HPLC Method Development

The HPLC method development involves systematically testing various parameters: diluents, columns, mobile phase buffers, mobile phase B (organic solvent), flow rate, different UV absorption wavelengths, column temperature, and gradient.

3.1. Mobile Phases (MP)

It was challenging to separate the phenol impurity peak from the 4-MPBA peak. Initially, a Waters XBridge Shield RP18 column (4.6 × 150 mm, 3.5 µm)—selected for its embedded polar group (carbamate) to assist with phenolic compounds—and various acid/base modifiers (TFA, PA, FA, NH4OH) were used to analyze 1.0 mg/mL 4-MPBA resolution solutions, both with and without a 2% w/w phenol spike. Although baseline separation between phenol and 4-MPBA was not fully achieved, TFA and phosphoric acid (0.05% v/v) in both mobile phases A (water) and B (ACN) performed better than formic acid; see Figure 3.

Figure 3. Different acid (0.05%) in mobile phases A and B.

Figure 4. Chromatograms of two resolution solutions.

Baseline separation between the Phenol impurity and 4-MPBA was achieved using 0.05% v/v TFA in methanol as mobile phase B (MPB), as shown in Figure 4(a). However, resolution was compromised upon the addition of acetonitrile to MPB (0.05% TFA in a 1:1 methanol/acetonitrile mixture; Figure 4(b)). Furthermore, the 4-MPBA peak exhibited significant broadening and a decrease in retention when 0.05% ammonium hydroxide was utilized in both MPA and MPB (Figure 4(c)).

3.2. Column Screening

Figure 5. Chromatograms with different columns (PDA wavelength 225 nm, peaks from left to right are Phenol, 4-MPBA, Des-Br, Bromo).

Table 1. Peak tailing with different HPLC columns.

Item

Column

Catalog No.

Tailing

a

Supelco Ascentis Expres 90Å ES-CN (4.6 mm × 150 mm, 2.7 µm)

53492-U

1.0

b

Waters XBridge Premier BEH C18 (4.6 × 150 mm, 3.5 µm)

186010661

1.2

c

Waters XBridge Shield RP18 (4.6 × 150 mm, 3.5 µm)

186003045

1.3

d

Waters XBridge Premier BEH Phenyl (4.6 × 150 mm, 3.5 µm)

186010677

1.3

e

Waters XSelect Premier HSS T3 (4.6 × 150 mm, 3.5 µm)

186010936

1.4

f

Supelco Ascentis Expres 90Å RP-Amide (4.6 mm × 150 mm, 2.7 µm)

53931-U

1.5

g

Waters XSelect Premier CSH C18 (4.6 × 150 mm, 3.5 µm)

186010644

1.6

h

Phenomenex Kinetex Polar C18 (150 × 4.6 mm, 2.6 µm)

00F-4759-E0

1.9

i

Phenomenex Luna Omega Polar C18 (150 × 4.6 mm, 3 µm)

004-4760-E0

2.5

j

Waters Atlantis Premier BEH AX (4.6 × 150 mm, 3.5 µm)

186009398

2.6

Inspired by Waters application notes [37] [38], ten columns were screened by analyzing a mixture containing 0.2 mg/mL each of phenol, 4-MPBA, Des-Br, and Bromo, while maintaining consistent mobile phase components (0.05% TFA in water as MPA and 0.05% TFA in MeOH as MPB). All analytes were not only well retained but also well resolved (as shown in the chromatograms in Figure 5). Based on the peak tailing results listed in Table 1, the Supelco Ascentis Express 90 Å ES-CN provided the best peak shape for 4-MPBA. The cyano groups on the ES-CN column offer unique interactions that resolve tailing issues with polar compounds, such as boronic acids, more effectively than standard RP phases.

3.3. Wavelength

Figure 6. UV Spectra of Phenol, 4-MPBA, Des-Br, Bromo, and BisPh.

Figure 7. Chromatograms of 0.1 mg/mL mixture of Phenol, 4-MPBA, Des-Br, Bromo, and BisPh at different wavelengths.

Based on the UV spectra of Phenol, 4-MPBA, Des-Br, Bromo, and BisPh (Figure 6), several wavelengths (220 nm, 223 nm, 225 nm, and 228 nm) were evaluated. The wavelength 223 nm (Figure 7(b)) was selected, because all the resulting peak heights are comparable to that of 4-MPBA, see Figure 7 for the chromatograms at each tested wavelength.

3.4. Diluent

Since BisPh is insoluble in methanol but soluble in acetonitrile, 50%-100% acetonitrile in water (with or without 0.05% TFA) were used as diluents. Figure 8 presents the chromatograms of the resolution solution (1.0 mg/mL of 4-MPBA spiked with 2% of Phenol, Des-Br, Bromo, and BisPh). While 100% Acetonitrile resulted in poor peak shapes (Figure 8(a)), both 50% acetonitrile in water (Figure 8(b)) and 0.05% TFA in 50% acetonitrile (Figure 8(c)) yielded excellent peak shapes.

Figure 8. Chromatograms of resolution solution (2% of Phenol, Des-Br, Bromo, and BisPh in 1.0 mg/mL 4-MPBA with different diluents).

3.5. Robustness

The robustness of the method was assessed by varying several parameters, including flow rate, injection volume, initial %B, column temperature, and %TFA in mobile phases (see Table 2). Under all tested conditions, the peaks remained well-resolved with comparable peak shape. Chromatograms of the resolution solution and the 0.1 mg/mL mixture solution of five compounds are provided in the supplementary material (see Figures S6-S15).

Table 2. Robustness.

Flow Rate (mL/minute)

Injection Volume (µL)

Initial %B

Column Temperature (˚C)

%TFA in MPs

MP

pH

0.7

9

12

30

0.025

2.4 - 2.5

0.8

10

14

35

0.05

3.5

0.9

11

16

40

0.1

4.5

4. HPLC Method Qualification

The HPLC method was qualified in terms of specificity, limit of detection (LOD), limit of quantitation (LOQ), linearity, accuracy, precision, intermediate precision, range, and solution stability. Detailed method validation for the GMP manufacturing of the actual MPA-type intermediate are omitted from this report due to intellectual property considerations.

4.1. Specificity and Carryover

Table 3. USP resolution of peaks in resolution solution.

Compound

RT (min)

USP Resolution

Phenol

7.622

NA

4-MPBA

8.709

5.0

Des-Br

10.890

10.1

RRT 1.29a

11.258

2.1

Bromo

16.011

28.8

BisPh

19.870

27.2

Note: a: An unknown/unspecified impurity.

Figure 9. Chromatograms of resolution solution (a) and WSS (b).

No interference peaks were observed at the retention time of Phenol, 4-MPBA, Des-Br, Bromo, and BisPh in the diluent injections. The USP resolution of each peak in resolution solution (containing a 2% spike of Phenol, 4-MPBA, Des-Br, Bromo, and BisPh in 1.0 mg/mL 4-MPBA) was greater than 2.0 (see Table 3). A typical chromatogram of resolution solution is shown in Figure 9(a), and a typical chromatogram of WSS is shown in Figure 9(b). No carryover was detected in the blank injections.

4.2. Limit of Detection (LOD) and Limit of Quantitation (LOQ)

The LOD was determined to be 0.00025 mg/mL for each of the 5 components, representing 0.025% of nominal concentration of the purity sample (1.0 mg/mL); LOQ was 0.0005 mg/mL for each component, or 0.05% of nominal purity sample concentration. The signal-to-noise ratio (S/N) of each component across three LOD injections was more than 3 (see Table S-2 in the supplementary material). For the six LOQ injections, the S/N of each component was greater than 10 (see Table S-3 in the supplementary material), and the %RSD of each component was less than 6.0% (Table S-3). Figure 10 presents representative chromatograms of the diluent, LOD, and LOQ.

Figure 10. Chromatograms of diluent (a), LOD (b), and LOQ (c).

4.3. Identification as Monomer

The Identification (ID) was verified by the relative retention time (RRT), calculated by dividing the retention time (RT) of 4-MPBA peak in the assay samples by the mean RT (n = 6) of 4-MPBA peak in the WSS. The RRT of 4-MPBA cross all assay sample injections was within the acceptance criteria (0.98 - 1.02, see Table 4).

Table 4. Identification.

Assay Sample

RT (min)

Mean RT in WSS (min)

RRT

ID Criteria

1

8.791

8.814

1.00

0.98 < RRT < 1.02

4.4. Linearity and Relative Response Factor (RRF)

The linearity of all the potential impurities (Phenol, Des-Br, Bromo, and BisPh) was verified over the low concentration range (0.05% (LOQ) to 2.0% of 1.0 mg/mL), with correlation coefficient (R2) better than 0.995 (see Table 5). Linearity of 4-MPBA and Bromo was also confirmed over the assay concentration range (50% to 150% of 0.1 mg/mL), with R2 better than 0.998 (Table 6). The relative response factor (RRF) of each impurity was calculated by dividing its slope (low concentration range) by the slope of the Bromo (assay concentration range). The RRF of 4-MPBA is calculated by dividing its assay-range slope by the Bromo assay-range slope (see Table 5 and Table 6). The RRF of Bromo is defined as 1.00.

Table 5. Linearity of impurities (0.05% (LOQ) – 2.0% of 1.0 mg/mL).

compound

Linear equation

R2

RRF

Phenol

y = 37725.718x − 1.163

1.0000

0.8920

Des-Br

y = 31727.405x − 0.837

1.0000

0.7501

Bromo

y = 41003.840x − 0.906

1.0000

1.00

BisPh

y = 21975.097x − 0.414

0.9999

0.5196

Table 6. Linearity of 4-MPBA and Bromo (50% – 150% of 0.1 mg/mL).

compound

Linear equation

R2

RRF

4-MPBA

y = 32564.622x − 72.850

0.9998

0.7699

Bromo

y = 42295.187x − 103.303

0.9998

1.00

4.5. Accuracy, Precision, and Intermediate Precision of Assay and Impurity

The accuracy and precision for assay quantitation of 4-MPBA were verified at three levels (50%, 100%, 150%). Recovery of each replicate at all three levels was within 98.0% - 102.0%, with averages of 99.2%, 98.6%, 98.2%, respectively; the %RSD was less than 1.0% at all levels (see Table S5 in the supplementary material). Intermediate precision for the assay was verified by two analysts using two HPLC systems (Agilent Infinity II 1290 and 1260) over multiple days, yielding a % RSD of 1.1% (n = 12, see Table S6 in the supplementary material). Similarly, the accuracy and precision of the impurities (Phenol, Des-Br, Bromo, and BisPh) were verified at three levels (0.05% [LOQ], 1.0%, 2.0% of 1.0 mg/mL, see Table S7 in the supplementary material). Recovery of each replicate at these levels ranged between 93% - 114%, with a %RSD of less than 4.0%. Intermediate precision of all impurities was also confirmed, with a %RSD value less than 6.5% (n = 12, see Table S-8 in the supplementary material).

4.6. Solution Stability

Solution stability was assessed by testing all the solutions (LOQ, Resolution, WSS, Assay sample, and Purity sample) stored at ambient temperature for 24 hours. The peak area of each component in the LOQ, Resolution, and WSS solutions was compared with the corresponding initial value. Assay (% w/w) and impurity (%w/w) were determined against a freshly prepared WSS at 24 h using Equations (1) and (2), respectively. Based on the results (see Table S9 in the supplementary material), the LOQ, resolution, WSS, Assay, and purity sample solutions are stable for 24 h at ambient temperature.

5. Discussion

5.1. Diluent and Monomer

Using a diluent with approximately 50% water improves peak shape for 4-MPBA and facilitates the in situ conversion of anhydrides or oligomers into the monomer, as shown in Figure 11. A 1H NMR study confirms that 4-MPBX (boroxine trimer, a representative anhydride/oligomer) rapidly converts to 4-MPBA upon quenching with deuterated water (Figure S3 and Figure S4 in the supplementary material). This conversion allows both the identification and assay value to be reported in the monomeric form, as all oligomers are converted in situ and subsequently utilized in the downstream aqueous reaction.

Figure 11. Inter-conversion of 4-MPBA and 4-MPBX.

5.2. MeOH vs ACN as Mobile Phase B

The choice of organic solvent in mobile phase B is critical to achieving baseline separation of Phenol and 4-MPBA. While the aprotic solvent acetonitrile failed to resolve the phenol and 4-MPBA peaks, methanol (a polar protic solvent) achieved baseline resolution (Figures 3-4). This improvement is due to methanol’s ability to act as both a hydrogen-bond donor and acceptor, allowing it to effectively compete for hydrogen-bonding sites between the analytes and the cyano stationary phase. In contrast, acetonitrile lacks the protic hydrogen necessary to disrupt these interactions.

5.3. Impurity Profile

During in-process control (IPC) testing of the reaction producing the actual GMP PBA-type intermediate, the formation of two process-related impurities (Phenol and Des-Br types) was observed at levels below the LOQ (0.05%w/w), while the Bromo-type starting material and the BisPh-type impurity were below the LOD (0.025% w/w).

5.4. Range

The established low-level linearity range (0.05% - 2.0% w/w of 1.0 mg/mL) enables the quantification of trace amounts of impurities, while the high-level range (50% - 150% w/w of 0.1 mg/mL) enables accurate quantification of the assay as the monomer of 4-MPBA. The established range meets QC requirements and ICH guidelines.

5.5. RRF Determination

The RRF for 4-MPBA is critical to the RP-HPLC-UV assay method, as the actual concentration of 4-MPBA in the linearity solutions directly affects the RRF calculation. Therefore, determining an accurate potency (as monomer) of 4-MPBA is key. Using an HPLC mass balance calculation (see Equation (3)), a potency of 0.877 (as 4-MPBX) was obtained. Since one molecule of 4-MPBX yields three molecules of 4-MPBA, the potency was calculated as 0.995 (as monomer) according to Equation (4). This potency value is consistent with the assay results (99.4%) obtained via an orthogonal qNMR method (see Table 7).

Potency( as4MPBX )=( 100Timp( %area ) )*(100TV( %w )*( 1/100 ) =( 10012.230 )*( 1000.0724 )*0.01=0.87707 (3)

where: Timp is the total HPLC impurities, and TV is % total volatiles obtained from duplicate measurements of loss of drying. This is supported by thermogravimetric analyses TGA and differential scanning calorimetry (DSC) data (see Figure S1 and Figure S2 in the supplementary material).

Potency( as 4 MPBA )=Potency( as MPBX )*n*( MW1 MWn ) =0.87707*n*151.956/( n*133.941 ) =0.87707*151.956/133.941=0.995 (4)

where: n = 3, MW1 is molecular weight (151.956) of the monomer (4-MPBA), and MWn is molecular weight (3 x 133.941) of the trimer (4-MPBX).

5.6. Verification by an Orthogonal Method

The method was further verified via an orthogonal quantitative NMR (qNMR) method. The mean assay as monomer obtained by qNMR was 99.4%, while the mean assay as monomer by HPLC (n = 12) was 99.2%, representing a 0.2% difference (see Table 7). A difference of less than 2.0% between an HPLC method and another orthogonal method is considered acceptable. Refer to Figure S5 and Tables S10-S14 in the supplementary material for the qNMR experimental data.

Table 7. Assay by HPLC and qNMR methods.

HPLC (n = 12)

qNMR (n = 2)

Difference

99.2

99.4

−0.2

6. Conclusion

In conclusion, using 4-methoxyphenylboronic acid (4-MPBA) as a model compound, a dual-standard RP-HPLC-UV method suitable for the simultaneous identification, assay, and impurity analysis of phenylboronic acid (PBA) has been developed and qualified. This simple method provides a quality-control-friendly, single-sequence protocol that achieves baseline separation of 4-MPBA and its related impurities. Furthermore, it bypasses the requirement for a single-component primary BA reference standard, which can be difficult to obtain, by utilizing a readily available Bromo-surrogate for quantitation. Indeed, a similar method has been implemented for the analysis (ID, assay, and impurities) of a PBA-type intermediate used in an API for clinical trials.

Supplementary Online Material

Supplementary material is available free of charge via https://figshare.com (DIO: 10.6084/m9.figshare.31931391).

Acknowledgements

The authors are grateful to Hua Zhao and Max Mellmer for their helpful discussions, and Neurocrine Biosciences for financial support.

Appendix

Table S1. HPLC conditions.

HPLC column

Ascentis® Express 90 Å ES-Cyano, 2.7 µm, 150 x 4.6mm, Sigma-Aldrich P/N 53492-U

HPLC System

Agilent Technologies Infinity II 1260/1290 with PDA or equivalent

MPA

0.025% TFA in Water

MPB

0.025% TFA in MeOH

PDA Wavelength

223 nm

Column Temperature

35˚C

Sampler Temperature

ambient

Injection Volume

10 µL

Flow rate

0.8 mL/min

Diluent

ACN/Water = 1:1 (v/v)

Needle Wash

ACN/Water = 1:1 (v/v)

Gradient

Time (min)

A%

B%

0

86

14

1.0

86

14

22.0

20

80

25.0

20

80

25.1

86

14

30.0

86

14

WSS

0.1 mg/mL of 4-MPBA and Bromo

Nominal Assay Concentration

0.1 mg/mL

Nominal Purity Concentration

1.0 mg/mL

Table S2. S/N of three LOD injections.

LOD

(0.00025 mg/mL)

S/N1

Inj-1

Inj-2

Inj-3

Minimum

Phenol

16

22

19

16

4-MPBA

13

16

12

12

Des-Br

13

19

16

13

Bromo

23

31

29

23

BisPh

14

16

15

14

Note: 1Criteria: S/N ≥ 3 in all LOD injections (n = 3).

Table S3. Peak area and S/N of six LOQ injections.

LOQ (0.0005 mg/mL)

Phenol

4-MPBA

Des-Br

Bromo

BisPh

Area

S/N1

Area

S/N1

Area

S/N1

Area

S/N1

Area

S/N1

1

16.789

49

15.113

35

14.607

45

21.150

69

9.207

38

2

19.240

64

15.612

45

13.788

52

20.748

86

9.836

48

3

17.383

40

15.268

28

16.209

37

20.896

57

9.746

32

4

18.343

25

17.013

18

14.339

22

22.247

34

10.345

20

5

17.299

21*

14.931

16*

14.310

20*

20.143

31*

9.236

17*

6

16.505

48

14.592

35

14.586

45

20.355

70

9.288

37

Mean

17.593

NA

15.422

NA

14.640

NA

20.923

NA

9.610

NA

%RSD2

5.8

NA

5.5

NA

5.6

NA

3.6

NA

4.7

NA

Note: *minimal S/N; 1Cruteria: S/N ≥ 10 in all LOQ injections (n = 6); 2Criteria: %RSD ≤ 20% (n = 6).

Table S4. System suitability (Resolution ≥ 1.5, Peak tailing 0.8 - 1.2).

WSS Injection #

4-MPBA RT (min)

4-MPBA Peak Area

Bromo RT (min)

4-Bromo Peak Area

1

8.816

3155.918

15.994

3980.226

2

8.813

3156.236

15.993

3985.799

3

8.812

3156.074

15.996

3982.341

4

8.813

3160.781

15.995

3988.001

5

8.815

3152.564

15.994

3977.131

6

8.812

3155.138

15.995

3984.942

Bracket #1

8.817

3147.566

15.996

3982.826

Bracket #2

8.812

3162.410

15.994

3951.284

Average (n = 6)

8.814

3156.119

15.995

3983.073

Std Dev (n = 6)

0.0

2.7

0.0

4.0

%RSD1 (n = 6)

0.02

0.08

0.01

0.10

Average (all)

8.814

3155.836

15.995

3979.069

Std Dev (all)

0.0

4.6

0.0

11.7

%RSD1 (all)

0.02

0.15

0.01

0.29

Note: 1Criteria: %RSD ≤ 2.0% (n = 6 or ≥ 7).

Table S5. Accuracy and precision of assay.

Level

Nominal Concentration (mg/mL)

Replicates

Recovery1 (%)

Mean Recovery (%)

%RSD2

50%

0.05

1

99.45

99.2

0.4

2

98.82

3

99.40

100%

0.10

1

98.02

98.6

0.6

2

99.16

3

98.24

4

98.20

5

99.45

6

98.74

150%

0.15

1

98.34

98.2

0.2

2

98.05

3

98.30

Note: 1Criteria: 98.0-102.0% for each individual preparation. 2Criteria: %RSD ≤ 2.0% (n = 3 or 6).

Table S6. Intermediate precision of assay (at 100% level, 0.1 mg/mL).

Replicates

Recovery1 (%) Agilent 1290

%RSD2 (n = 6)

Recovery1 (%) Agilent 1260

%RSD (n = 6)

Mean Assay (%, n = 12)

%RSD2 (n = 12)

1

101.26

1.2

98.02

0.6

99.2

1.1

2

98.91

99.16

3

98.07

98.24

4

100.03

98.20

5

100.70

99.45

6

99.73

98.74

Note: 1Criteria: 98.0-102.0%. 2Criteria: %RSD ≤ 2.0% (n = 6 or 12).

Table S7. Accuracy1 and precision2 of impurities.

Compound

Replicates

0.05%

1%

2%

Phenol

1

104.16

101.70

102.17

2

101.81

104.10

100.25

3

100.60

103.52

103.53

4

NA

102.31

NA

5

NA

106.34

NA

6

NA

101.68

NA

Average (%)

102.2

103.3

102.0

%RSD

1.8

1.7

1.6

Des-Br

1

108.65

108.39

109.30

2

106.99

111.61

106.47

3

101.35

110.22

110.49

4

NA

109.14

NA

5

NA

113.97

NA

6

NA

108.79

NA

Average (%)

105.7

110.4

108.8

%RSD

3.6

1.9

1.9

Bromo

1

102.98

102.12

103.34

2

107.49

104.91

100.95

3

108.98

104.24

104.30

4

NA

102.71

NA

5

NA

107.59

NA

6

NA

102.70

NA

Average (%)

106.5

104.0

102.9

%RSD

2.9

2.0

1.7

BisPh

1

96.67

106.51

107.61

2

98.75

108.88

104.81

3

93.14

108.51

108.18

4

NA

107.63

NA

5

NA

111.43

NA

6

NA

107.41

NA

Average (%)

96.2

108.4

106.9

%RSD

2.9

1.6

1.7

Note: 1Criteria: 80-120% for each individual impurity ≥ LOQ and ≤ 0.15%; 85-115% for each individual impurity > 0.15%. 2Criteria: %RSD ≤ 20% (n = 6) for each individual impurity ≥ LOQ and ≤ 0.15%; %RSD ≤ 15% (n = 6) for each individual impurity > 0.15%.

Table S8. Intermediate precision of impurities (at 1% level).

Compound

Replicates

Recovery1 (%) Agilent 1290

%RSD2 (n = 6)

Recovery1 (%) Agilent 1260

%RSD2 (n = 6)

%RSD2 (n = 12)

Phenol

1

101.70

1.7

95.43

1.2

5.0

2

104.10

92.61

3

103.52

94.68

4

102.31

94.47

5

106.34

94.83

6

101.68

93.05

Des-Br

1

108.39

1.9

102.47

0.9

4.6

2

111.61

99.91

3

110.22

102.01

4

109.14

102.01

5

113.97

101.85

6

108.79

101.11

Bromo

1

102.12

2.0

95.73

1.1

5.3

2

104.91

92.94

3

104.24

95.21

4

102.71

94.70

5

107.59

95.01

6

102.70

93.45

BisPh

1

106.51

1.6

97.54

1.2

6.3

2

108.88

94.81

3

108.51

96.79

4

107.63

96.47

5

111.43

97.08

6

107.41

95.06

Note: 1Criteria: 85%-115% for each individual impurity for each individual impurity > 0.15%. 2Criteria: %RSD ≤ 15% (n = 6 or 12) for each individual impurity > 0.15%.

Table S9. Solutions stability at ambient temperature.

Solution

Compound

T = 0

24 h

Recovery (%), 24 h

Criteria (%)

LOQ

4-MPBA

15.475

14.117

91.2

80 - 120

Bromo

21.616

20.823

96.3

Resolution

Phenol

744.921

746.119

100.2

85 - 115

4-MPBA

26703.948

26708.741

100.0

98.0 - 102.0

Des-Br

689.547

685.976

99.5

85 - 115

Bromo

818.321

801.003

97.9

BisPh

452.57

451.468

99.8

WSS

4-MPBA

3136.906

3189.6865

101.7

98.0 - 102.0

Bromo

4094.605

4123.16

100.7

Assay

4-MPBA

99.7

99.7

100.0

Impurity

Des-Br

0.0740

0.0716

96.7

80 - 120

RRT1.29*

<0.05%

<0.05%

NA

N/A

Note: *An unknown/unspecified impurity.

qNMR in duplicates. Briefly, ~20 - 40 mg of each sample (4-MPBA) and internal standard (IS, 1,3,5-trimethoxybenzene) were weighed accurately into a 4 mL vial, to this vial ~0.75 - 1.5 mL of DMSO-d6 was added. The vial was capped and vortex for ~30 seconds until complete dissolution, then 20 µL of D2O was added and vortex for ~30 seconds. The resulting solution was transferred into an NMR tube. The 1H NMR data was collected on a Bruker AscendTM 400 and analyzed with ACD/Spectrus Processor 2020.2.1. The mean assay obtained by qNMR method is 99.4 (% w/w), see Tables S10-S14 for weights and peak integrals of sample and IS, and assay calculation. See Figure S5 for 1H NMR Spectra of qNMR.

Table S10. Peaks integrals of sample and IS (q-NMR1).

No.

(ppm)

Non-Negative Value (Integral)

Hydrogen Numbers

Normalized Integral

1

[7.57 - 7.84]

1.9920

2

0.9960

2

[6.75 - 7.05]

2.0000

2

1.0000

I (sample, average)

0.9980

IS

[5.92 - 6.25]

3.0418

3

1.0139

I (IS, average)

1.0139

Table S11. Weights of samples and IS, potency (qNMR1).

Sample Molecular Weight (g/mol)

4-MPBA

151.956

Internal Standard (IS) Molecular Weight (g/mol)

1,3,5-trimethoxybenzene

168.19

Weight (mg)

Sample

20.02

IS

22.42

*Potency (%)

99.58%

Note: *Potency = (1.0139/0.9980) × (151.956/168.19) × (22.41/20.02) = 99.58% = 0.9958.

Table S12. Peaks integrals of sample and IS (qNMR2).

No.

(ppm)

Non-Negative Value

Hydrogen Numbers

Normalized Integral

1

[7.59 - 7.83]

1.9945

2

0.9973

2

[6.72 - 7.04]

2.0000

2

1.0000

I (sample, average)

0.9986

IS

[5.91 - 6.25]

2.5039

3

0.8346

I (IS, average)

0.8346

Table S13. Weights of samples and IS, potency (qNMR2).

Sample Molecular Weight (g/mol)

4-MPBA

151.956

Internal Standard (IS) Molecular Weight (g/mol)

1,3,5-trimethoxybenzene

168.19

Weight (mg)

Sample

38.09

IS

34.99

*Potency (%)

99.29%

Note: *Potency = (0.9986/0.8346) × (151.956/168.19) × (34.99/38.09) = 99.29% = 0.9929.

Table S14. Assay by q-NMR.

Assay by q-NMR

qNMR1

qNMR2

Mean

% w/w

99.58

99.29

99.4

DSC, TGA, and 1H-NMR experiments:

Differential scanning calorimetry (DSC) analyses were performed on a TA instrument DSC Q2000. Thermogravimetric analyses (TGA) were performed on a TA instrument TGA 5500. 1H NMR analyses were performed on a Bruker Ascend 400.

Based on the DSC analysis (See Figure S1), 4-MPBA monomer turns into n-oligomer (s), through de-solvation and dehydration ~ 75˚C - 140˚C. Meanwhile, n-oligomers will turn into a more thermodynamic stable trimer. The crystalline trimer is then milted above 200˚C. The de-solvation and dehydration processes are also observed in the TGA analyses (see Figure S2).

Figure S1. DSC of 4-MPBA.

Figure S2. TGA of 4-MPBA (Duplicates).

1H-NMR spectrum of the commercially available 4-MPBA in anhydrous DMSO-d6 (See Figure S3(a) and Figure S4(a)) shows the major component of commercially available 4-methoxyphenyl boronic acid is the monomer (~90%), with about 10% of n-oligomers. The same sample was quenched with 20 µL of D2O, all the n-oligomers turn into the monomer, see Figure S3(b) and Figure S4(b). The oligomer peak always on the left of the corresponding peak of the monomer.

Figure S3. 1H-NMR spectra of 4-MPBA in anhydrous DMSO-d6 (a) and in DMSO-d6 and D2O (b).

Figure S4. Expended 1H-NMR spectra of 4-MPBA in anhydrous DMSO-d6 (a) and in DMSO-d6 and D2O (b).

Figure S5. 1H NMR spectra of q-NMR (Duplicates).

Figure S6. Chromatograms of resolution solution at different flow rates.

Figure S7. Chromatograms of 0.1 mg/mL mixture at different flow rates.

Figure S8. Chromatograms of resolution solution with different initial %MPB (12%, 14%, 16%).

Figure S9. Chromatograms of 0.1 mg/mL mixture with different initial %MPB (12%, 14%, 16%).

Figure S10. Chromatograms of resolution solution at different temperatures.

Figure S11. Chromatograms of 0.1 mg/mL mixture at different temperatures.

Figure S12. Chromatograms of resolution solution with different injection volumes (9, 10, 11 µL).

Figure S13. Chromatograms of 0.1 mg/mL mixture with different injection volumes (9, 10, 11 µL).

Figure S14. Chromatograms of resolution solution using ammonium formate/acetate as MPA buffer.

Figure S15. Chromatograms of 0.1 mg/mL mixture using ammonium formate/acetate as MPA buffer.

NOTES

1The bromo-analogue was chosen due to its ready availability, high purity, solution stability, compatible UV response, and distinct chromatographic separation from 4-MPBA and its impurities.

Conflicts of Interest

The authors declare no conflicts of interest, financial or otherwise.

References

[1] Fyfe, J.W.B. and Watson, A.J.B. (2017) Recent Developments in Organoboron Chemistry: Old Dogs, New Tricks. Chem, 3, 31-55.[CrossRef]
[2] Miyaura, N., Yamada, K. and Suzuki, A. (1979) A New Stereospecific Cross-Coupling by the Palladium-Catalyzed Reaction of 1-Alkenylboranes with 1-Alkenyl or 1-Alkynyl Halides. Tetrahedron Letters, 20, 3437-3440.[CrossRef]
[3] António, J.P.M., Russo, R., Carvalho, C.P., Cal, P.M.S.D. and Gois, P.M.P. (2019) Boronic Acids as Building Blocks for the Construction of Therapeutically Useful Bioconjugates. Chemical Society Reviews, 48, 3513-3536.[CrossRef] [PubMed]
[4] Coghi, P.S., Zhu, Y., Xie, H., Hosmane, N.S. and Zhang, Y. (2021) Organoboron Compounds: Effective Antibacterial and Antiparasitic Agents. Molecules, 26, Article 3309.[CrossRef] [PubMed]
[5] Das, B.C., Nandwana, N.K., Das, S., Nandwana, V., Shareef, M.A., Das, Y., et al. (2022) Boron Chemicals in Drug Discovery and Development: Synthesis and Medicinal Perspective. Molecules, 27, Article 2615.[CrossRef] [PubMed]
[6] Adams, J. and Kauffman, M. (2004) Development of the Proteasome Inhibitor Velcade™ (Bortezomib). Cancer Investigation, 22, 304-311. [Google Scholar] [CrossRef] [PubMed]
[7] U.S. Food and Drug Administration (2015) Velcade (Bortezomib) Injection. Application No. 021602.
https://www.fda.gov/media/94379/download
[8] U.S. Food and Drug Administration (2019) Efficacy and Safety Evaluation of AN2690 Topical Solution to Treat Onychomycosis of the Toenail. Clinical Trial No. NCT01270971.
https://clinicaltrials.gov/study/NCT01270971?term=NCT01270971&rank=1
[9] U.S. Food and Drug Administration (2015) Millennium Pharmaceuticals Inc., NINLARO (Ixazomib) Capsules. Application No. 208462.
https://www.accessdata.fda.gov/drugsatfda_docs/nda/2015/208462Orig1s000Approv.pdf
[10] U.S. Food and Drug Administration (2016) Eucrisa (Crisaborole) Ointment. Application No. 207695.
https://www.accessdata.fda.gov/drugsatfda_docs/nda/2016/207695Orig1s000Lbl.pdf
[11] Maslah, H., Skarbek, C., Pethe, S. and Labruère, R. (2020) Anticancer Boron-Containing Prodrugs Responsive to Oxidative Stress from the Tumor Microenvironment. European Journal of Medicinal Chemistry, 207, Article ID: 112670.[CrossRef] [PubMed]
[12] Faraco, M., Fico, D., Pennetta, A. and De Benedetto, G.E. (2016) New Evidences on Efficacy of Boronic Acid-Based Derivatization Method to Identify Sugars in Plant Material by Gas Chromatography–mass Spectrometry. Talanta, 159, 40-46.[CrossRef] [PubMed]
[13] Stubelius, A., Lee, S. and Almutairi, A. (2019) The Chemistry of Boronic Acids in Nanomaterials for Drug Delivery. Accounts of Chemical Research, 52, 3108-3119.[CrossRef] [PubMed]
[14] Aung, Y., Kristanti, A.N., Lee, H.V. and Fahmi, M.Z. (2021) Boronic-Acid-Modified Nanomaterials for Biomedical Applications. ACS Omega, 6, 17750-17765.[CrossRef] [PubMed]
[15] Marinaro, W.A., Schieber, L.J., Munson, E.J., Day, V.W. and Stella, V.J. (2012) Properties of a Model Aryl Boronic Acid and Its Boroxine. Journal of Pharmaceutical Sciences, 101, 3190-3198.[CrossRef] [PubMed]
[16] Islam, T.M.B., Yoshino, K., Nomura, H., Mizuno, T. and Sasane, A. (2002) 1H and 11B NMR Study of P-Toluene Boronic Acid and Anhydride. Analytical Sciences, 18, 363-366.[CrossRef] [PubMed]
[17] Kinney, C.R. and Pontz, D.F. (1936) The Structure of the Organoboron Oxides. Journal of the American Chemical Society, 58, 197-197.[CrossRef]
[18] Snyder, H.R., Kuck, J.A. and Johnson, J.R. (1938) Organoboron Compounds, and the Study of Reaction Mechanisms. Primary Aliphatic Boronic Acids. Journal of the American Chemical Society, 60, 105-111.[CrossRef]
[19] Tokunaga, Y., Ueno, H., Shimomura, Y. and Seo, T. (2002) Formation of Boroxine: Its Stability and Thermodynamic Parameters in Solution. Heterocycles, 57, 787-790.[CrossRef]
[20] Tokunaga, Y. (2013) Boroxine Chemistry: From Fundamental Studies to Applications in Supramolecular and Synthetic Organic Chemistry. Heterocycles, 87, 991-1021.[CrossRef]
[21] (2026) 4-Methoxyphenylboronic Acid.
https://www.thermofisher.com/order/catalog/product/309480010
[22] Faniran, J.A. and Shurvell, H.F. (1968) Infrared Spectra of Phenylboronic Acid (Normal and Deuterated) and Diphenyl Phenylboronate. Canadian Journal of Chemistry, 46, 2089-2095.[CrossRef]
[23] Soriano-Ursúa, M.A., Farfán-García, E.D., López-Cabrera, Y., Querejeta, E. and Trujillo-Ferrara, J.G. (2014) Boron-Containing Acids: Preliminary Evaluation of Acute Toxicity and Access to the Brain Determined by Raman Scattering Spectroscopy. NeuroToxicology, 40, 8-15.[CrossRef] [PubMed]
[24] Weiss, J.W.E. and Bryce, D.L. (2010) A Solid-State 11B NMR and Computational Study of Boron Electric Field Gradient and Chemical Shift Tensors in Boronic Acids and Boronic Esters. The Journal of Physical Chemistry A, 114, 5119-5131.[CrossRef] [PubMed]
[25] Rose, M.E., Longstaff, C. and Dean, P.D.G. (1982) Gas Chromatography of Aromatic Boronic Acids: On-Column Derivatization. Journal of Chromatography A, 249, 174-179.[CrossRef]
[26] Ji, Z., Petrovic, J. and Kott, L. (2021) Analysis of Boronic Compounds as Potential Mutagenic Impurities in Drug Substances by GC-MS. LCGC North America, 39, 588-592.
https://www.chromatographyonline.com/view/analysis-of-boronic-compounds-as-potential-mutagenic-impurities-in-drug-substances-by-gc-ms
[27] Lawrence, K., Flower, S.E., Kociok-Kohn, G., Frost, C.G. and James, T.D. (2012) A Simple and Effective Colorimetric Technique for the Detection of Boronic Acids and Their Derivatives. Analytical Methods, 4, 2215-2217.[CrossRef]
[28] Salisbury, J.J., Georgian, W., Herr, M. and Buetti-Weekly, M. (2024) Validation of a Purity Method for a Suzuki-Miyaura Boronic Ester by Liquid Chromatography with Derivatization. Journal of Chromatography Open, 5, Article ID: 100120.[CrossRef]
[29] Duval, F., Wardani, P.A., Zuilhof, H. and van Beek, T.A. (2015) Selective On-Line Detection of Boronic Acids and Derivatives in High-Performance Liquid Chromatography Eluates by Post-Column Reaction with Alizarin. Journal of Chromatography A, 1417, 57-63.[CrossRef] [PubMed]
[30] Pandiyan, P.J., Appadurai, R. and Ramesh, S. (2013) A High Throughput Analysis of Boronic Acids Using Ultra High Performance Liquid Chromatography-Electrospray Ionization Mass Spectrometry. Analytical Methods, 5, 3386-3394.[CrossRef]
[31] Dai, L., Gonzalez, J. and Zhang, K. (2022) A Simple Generic Method for Analyzing Water Sensitive Pinacol Boronate Compounds by Hydrophilic Interaction Liquid Chromatography. Journal of Chromatography Open, 2, Article ID: 100036.[CrossRef]
[32] Haas, M.J., Blom, K.F. and Schwarz, C.H. (1999) Positive-Ion Analysis of Boropeptides by Chemical Ionization and Liquid Secondary Ionization Mass Spectrometry. Analytical Chemistry, 71, 1574-1578.[CrossRef]
[33] Flender, C., Leonhard, P., Wolf, C., Fritzsche, M. and Karas, M. (2010) Analysis of Boronic Acids by Nano Liquid Chromatography-Direct Electron Ionization Mass Spectrometry. Analytical Chemistry, 82, 4194-4200.[CrossRef] [PubMed]
[34] Wang, L., Dai, C., Burroughs, S.K., Wang, S.L. and Wang, B. (2013) Arylboronic Acid Chemistry under Electrospray Conditions. ChemistryA European Journal, 19, 7587-7594.[CrossRef] [PubMed]
[35] Chidella, K.S., Dasari, V.B. and Jayashree, A. (2021) A High Sensitive LC-MS/MS Method for the Simultaneous Determination of Potential Genotoxic Impurities Carboxy Phenyl Boronic Acid and Methyl Phenyl Boronic Acid in Lumacaftor. American Journal of Analytical Chemistry, 12, 74-86.[CrossRef]
[36] Mullangi, S., Ravindhranath, K. and Panchakarla, R.K. (2021) LC-MS/MS Method for the Quantification of Potential Genotoxic Impurity 4-Phenoxyphenyl-Boronic Acid in Ibrutinib. Journal of the Iranian Chemical Society, 18, 1381-1389.[CrossRef]
[37] Berthelette, K.D., DeLoffi, M., Kalwood, J. and Haynes, K. (2024) Developing a Separation for Eleven Boronic Acids Using MaxpeakTM Premier Column Technology on an ArcTM HPLC System. WatersTM Corporation Application Note 720008307-en.
[38] Maziarz, M. and Rainville, P.D. (2022) High Sensitivity Analysis of Potential Mutagenic Boronic Acids Using XevoTM TQ Absolute Tandem Quadrupole Mass Spectrometer with an ACQUITYTM Premier System. Waters™ Corporation Application Note 720007562-en.

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