| Literature DB >> 34191513 |
Robert E Trout1, Allison Zulli1, Eugen Mesaros1, Randy W Jackson1, Steven Boyd1, Bin Liu1, Jodie Hamrick1, Denis Daigle1, Cassandra L Chatwin1, Kaitlyn John1, Lisa McLaughlin1, Susan M Cusick1, William J Weiss2, Mark E Pulse2, Daniel C Pevear1, Greg Moeck1, Luigi Xerri1, Christopher J Burns1.
Abstract
A major antimicrobial resistance mechanism in Gram-negative bacteria is the production of β-lactamase enzymes. The increasing emergence of β-lactamase-producing multi-drug-resistant "superbugs" has resulted in increases in costly hospital Emergency Department (ED) visits and hospitalizations due to the requirement for parenteral antibiotic therapy for infections caused by these difficult-to-treat bacteria. To address the lack of outpatient treatment, we initiated an iterative program combining medicinal chemistry, biochemical testing, microbiological profiling, and evaluation of oral pharmacokinetics. Lead optimization focusing on multiple smaller, more lipophilic active compounds, followed by an exploration of oral bioavailability of a variety of their respective prodrugs, provided 36 (VNRX-7145/VNRX-5236 etzadroxil), the prodrug of the boronic acid-containing β-lactamase inhibitor 5 (VNRX-5236). In vitro and in vivo studies demonstrated that 5 restored the activity of the oral cephalosporin antibiotic ceftibuten against Enterobacterales expressing Ambler class A extended-spectrum β-lactamases, class A carbapenemases, class C cephalosporinases, and class D oxacillinases.Entities:
Year: 2021 PMID: 34191513 PMCID: PMC8311649 DOI: 10.1021/acs.jmedchem.1c00437
Source DB: PubMed Journal: J Med Chem ISSN: 0022-2623 Impact factor: 7.446
Figure 1Boronic acid-based BLIs approved (vaborbactam), in Phase 3 development (taniborbactam), and in Phase 1 development (QPX7728).
Figure 2Strategy for designing a cyclic boronate-based BLI with potential for oral absorption.
Scheme 1Generalized Synthesis of Cyclic Boronate-Based BLIs
Figure 3Chemical structures of screened BLIs.
Biochemical Activity of BLIs 5–14 against Purified β-Lactamasesa
| IC50 (μM) | ||||||
|---|---|---|---|---|---|---|
| entry | clog | tPSA | SHV-5 (class A) | KPC-2 (class A) | AmpC (class C) | OXA-48 (class D) |
| 0.48 | 96 | 0.126 | 0.080 | 0.014 | 0.317 | |
| 1.01 | 96 | 0.036 | 0.093 | 0.009 | 0.426 | |
| 0.72 | 96 | 0.008 | 0.043 | 0.009 | 1.62 | |
| 0.07 | 120 | 0.012 | 0.033 | 0.014 | 0.687 | |
| 0.23 | 113 | 0.025 | 0.116 | 0.008 | 1.45 | |
| –0.64 | 139 | 0.514 | 0.069 | 0.006 | 1.79 | |
| –0.26 | 142 | 0.012 | 0.028 | 0.005 | 4.67 | |
| 0.53 | 96 | 0.017 | 0.031 | 0.006 | 0.627 | |
| –0.92 | 156 | 0.008 | 0.035 | 0.003 | 8.55 | |
| 0.68 | 96 | 0.006 | 0.041 | 0.007 | 2.39 | |
IC50 values reported as the mean from duplicate measurements on separate days with automatic repeat if data differed by more than 20% from the previous result.
Concentrations of BLIs 5–14 to Restore the Antibacterial Activity of Ceftibuten (Fixed at 1 μg/mL) against β-Lactamase-Producing Isolates of E. coli and K. pneumoniaea
| BLI concentration (μg/mL) | ||||||||
|---|---|---|---|---|---|---|---|---|
| ESBL | KPC | Class C | OXA-48 | |||||
| entry | ||||||||
| 128 | 32 | 8 | 256 | 256 | 4 | 128 | 256 | |
| 0.12 | 0.06 | 0.5 | 0.5 | 0.03 | 0.016 | 0.03 | 1 | |
| 0.12 | 0.12 | 0.5 | 1 | 0.016 | 0.03 | 0.25 | 1 | |
| 1 | 0.06 | 1 | 2 | 0.03 | 0.5 | 0.25 | 8 | |
| 0.12 | 0.06 | 0.5 | 2 | 0.03 | 0.03 | 0.12 | 2 | |
| 0.12 | 0.06 | 1 | 2 | 0.03 | 0.06 | 0.06 | 4 | |
| 0.12 | 0.12 | 1 | 2 | 2 | 0.016 | 0.06 | 0.5 | |
| 0.12 | 0.016 | 0.5 | 1 | 0.016 | 0.03 | 0.03 | 2 | |
| 0.25 | 0.06 | 1 | 2 | 1 | 0.06 | 0.5 | 4 | |
| 0.25 | 0.06 | 1 | 2 | 0.12 | 0.03 | 0.12 | 2 | |
| 0.5 | 0.03 | 1 | 4 | 0.03 | 0.12 | 0.25 | 4 | |
Abbreviations: ESBL = extended-spectrum β-lactamase; K. pneumoniae = Klebsiella pneumoniae; E. coli = Escherichia coli; CTB = ceftibuten.
Minimum inhibitory concentration (MIC) of BLIs titrated with ceftibuten fixed at 1 μg/mL.
MIC of ceftibuten titrated alone.
Scheme 2Generalized Synthesis of Cyclic Boronate-Based BLI Ethyl and Pivoxyl Prodrugs
Oral Bioavailability of BLI Esters in Rats
| entry | ester | clog | tPSA | dose (mg/kg) | |
|---|---|---|---|---|---|
| 1.23 | 85 | 3 | <5 | ||
| 1.54 | 111 | 10 | 99 | ||
| 1.76 | 85 | NT | NT | ||
| 2.07 | 111 | 3 | 31 | ||
| 0.69 | 109 | 5 | <5 | ||
| 1.00 | 135 | 10 | 20 | ||
| 0.98 | 102 | 5 | <5 | ||
| 1.29 | 128 | 10 | 95 | ||
| 0.12 | 128 | 3 | <5 | ||
| 0.43 | 154 | 3 | <5 | ||
| 0.50 | 131 | NT | NT | ||
| 0.81 | 157 | 3 | <5 | ||
| –0.16 | 145 | 3 | <5 | ||
| 0.15 | 171 | NT | NT |
F (%) = percent absolute oral bioavailability corrected for MW difference between the prodrug and parent.
Dosed as a cassette with another ester; NT—not tested.
Concentration of BLIs 5 and 9 to Restore the Antibacterial Activity of Ceftibuten (Fixed at 1 μg/mL) against Clinical Isolates of E. coli and K. pneumoniae Expressing Various β-Lactamases by Enzyme Category
| BLI concentration (μg/mL) | |||||
|---|---|---|---|---|---|
| category | strain | designation | β-lactamases | ||
| ESBL | ESBL 5 | CTX-M-15, TEM-1 | 0.12 | 0.12 | |
| ESBL 10 | SHV-12, TEM-1 | 0.06 | 0.06 | ||
| SI LP377 | CTX-M-2 | 0.004 | ≤0.002 | ||
| 3327 | TEM-1, SHV-12 | 0.03 | 0.016 | ||
| 304487 | SHV-12, TEM-1 | 0.016 | 0.016 | ||
| KPC | UMM | SHV-5, KPC-2, TEM-1 | ≤0.002 | ≤0.002 | |
| 233 | AmpC SHV-12, CTX-M-15, TEM-1 | 0.016 | 0.016 | ||
| 136928 | SHV-1, TEM-1, KPC-2 | 1 | 4 | ||
| 137052 | SHV-11, KPC-3, TEM-1 | 0.06 | 0.25 | ||
| 155140 | SHV-12, KPC-2, AmpC, TEM-1 | 0.25 | 0.5 | ||
| 156309 | SHV-11, TEM-1, KPC-2 | 0.5 | 2 | ||
| 166964 #1 | KPC-3, TEM-1, AmpC | 0.5 | 0.5 | ||
| 786978 | KPC | 0.5 | 1 | ||
| 849121 | KPC | ≤0.002 | ≤0.002 | ||
| 845661 | KPC | 2 | 4 | ||
| 845670 | KPC | ≤0.002 | ≤0.002 | ||
| class C | J53 | SHV-5, AmpC, TEM-1 | 0.03 | 0.03 | |
| SI-P026TC | CMY-2, TEM-1 | 0.5 | 0.5 | ||
| 196477 | AmpC, CMY-2, TEM-1, CTX-M-15 | 0.016 | 0.06 | ||
| 217917 | CMY-2, TEM-1 | 0.12 | 0.12 | ||
| OXA-48 | DOV | OXA-48 | 0.016 | 0.06 | |
| SI-C05 | OXA-48 | 0.03 | 0.06 | ||
| SI-C17 | OXA-48 | 1 | 4 | ||
| 664507 | OXA-48 | 0.03 | 0.06 | ||
| 664520 | OXA-48 | 0.03 | 0.5 | ||
| BLI concentration to rescue activity of ceftibuten (fixed at 1 μg/mL) against >90% of tested strains | |||||
Figure 4Chemical structures of compound 5 prodrugs.
Oral Bioavailability of Compound 5 Prodrugs in Rats
| entry | clog | tPSA | dose (mg/kg) | |
|---|---|---|---|---|
| 1.54 | 111 | 10 | 99 | |
| 2.19 | 111 | 5 | 29 | |
| 0.31 | 111 | 10 | 10 | |
| 1.14 | 111 | 10 | 38 | |
| 2.20 | 111 | 5 | 82 | |
| 1.09 | 120 | 10 | 23 | |
| 1.09 | 120 | 10 | 28 | |
| 2.15 | 120 | 10 | 33 | |
| 1.78 | 111 | 10 | 19 | |
| 1.72 | 120 | 10 | 24 |
F (%) = percent absolute oral bioavailability corrected for MW difference between the prodrug and parent.
Oral Bioavailability of 20 and 36 across Species
| rat | mouse | dog | monkey | |||||
|---|---|---|---|---|---|---|---|---|
| entry | dose (mg/kg) | dose (mg/kg) | dose (mg/kg) | dose (mg/kg) | ||||
| 10 | 99 | 5 | 42 | 10 | 42 | 10 | 52 | |
| 5 | 82 | 10 | 72 | 5 | 62 | 5 | 61 | |
F (%) = percent absolute oral bioavailability corrected for MW difference between the prodrug and parent.
Metabolic Stability of 36 across Multiple Speciesa
| intestinal
S9 | liver S9 | ||||
|---|---|---|---|---|---|
| species | +NADPH | –NADPH | +NADPH | –NADPH | plasma |
| CD-1 mouse | 1.1 | 1.1 | 1.2 | 1.3 | 4.6 |
| Sprague-Dawley rat | 3.9 | 4.0 | 2.3 | 2.8 | 1.6 |
| beagle dog | 49.0 | 119 | 0.5 | 0.7 | 43.9 |
| cynomolgus monkey | 11.2 | 10.1 | 0.8 | 0.9 | 22.0 |
| human | 2.9 | 3.3 | 1.0 | 1.1 | 10.7 |
Abbreviations: NADPH = nicotinamide adenine dinucleotide phosphate.
Caco-2 Permeability Results for 36 and 5
| test article | direction | recovery (%) | R1 | R2 | avg | efflux Ratio | absorption
potential classification | significant
efflux |
|---|---|---|---|---|---|---|---|---|
| A-to-B | 90 | 8.25 | 10.2 | 9.22 | 3.2 | high | yes | |
| B-to-A | 98 | 28.3 | 30.5 | 29.4 | ||||
| A-to-B | 103 | 0.10 | 0.11 | 0.11 | 1.4 | low | no | |
| B-to-A | 106 | 0.15 | 0.14 | 0.15 | ||||
Efflux ratio (ER) is Papp (B-to-A)/Papp (A-to-B).
Papp (A-to-B) < 1.0 × 10–6 cm/s: low, Papp (A-to-B) ≥ 1.0 × 10–6 cm/s: high.
ER ≥ 2.0 and Papp (B-to-A) ≥ 1.0 × 10–6 cm/s.