Gwenaëlle Jézéquel, Dominik Kolling, Roya Shafiei, Katharina Rox, Andreas M. Kany, Norbert Sträter, Jesko Koehnke, Jörg Haupenthal, Anna K. H. Hirsch. “Stable phosphonate inhibitors of elastase LasB suppress Pseudomonas aeruginosa virulence via zinc-targeting pyrrolidone scaffolds.” ChemRxiv (). https://doi.org/10.26434/chemrxiv.15007028/v2

3-bromo-1-(3,4-dichlorophenyl)pyrrolidin-2-one
Identifier 5a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 8.05 (d, J = 2.3 Hz, 1H), 7.75 – 7.63 (m, 2H), 4.95 – 4.87 (m, 1H), 3.97 (dt, J = 10.0, 7.0 Hz, 1H), 3.90 (ddd, J = 9.9, 7.7, 3.6 Hz, 1H), 2.77 (dq, J = 14.6, 7.3 Hz, 1H), 2.34 (ddt, J = 14.3, 7.2, 3.7 Hz, 1H)
¹³C NMR (126 MHz, DMSO) δ 170.3, 139.3, 131.7, 131.0, 127.0, 121.4, 120.1, 47.2, 46.7, 29.5
MS (ESI⁺) m/z 306.92 [M+H]⁺
SI, pp. S2, S4
3-bromo-1-phenylpyrrolidin-2-one
Identifier 5b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, CDCl₃) δ 7.62 – 7.53 (m, 2H), 7.38 – 7.27 (m, 2H), 7.13 (ddt, J = 8.6, 7.3, 1.2 Hz, 1H), 4.55 – 4.46 (m, 1H), 4.04 – 3.93 (m, 1H), 3.83 – 3.73 (m, 1H), 2.73 – 2.59 (m, 1H), 2.39 (ddt, J = 14.3, 6.5, 2.7 Hz, 1H)
¹³C NMR (126 MHz, CDCl₃) δ 169.5, 138.9, 129.0 (2C), 125.4, 120.1 (2C), 46.7, 45.4, 30.0
MS (ESI⁺) m/z 240.00 [M+H]⁺
SI, pp. S2, S4
diethyl (1-(4,5-dichlorophenyl)-2-oxopyrrolidin-3-yl)phosphonate
Identifier 6a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.87 (d, J = 1.9 Hz, 1H), 7.42 (d, J = 2.0 Hz, 2H), 4.21 – 4.04 (m, 4H), 3.94 – 3.75 (m, 3H), 2.53 – 2.24 (m, 2H), 1.25 (t, J = 7.0 Hz, 6H)
MS (ESI⁺) m/z 366.04 [M+H]⁺
SI, pp. S2, S4
diethyl (1-phenyl-2-oxopyrrolidin-3-yl)phosphonate
Identifier 6b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 7.66 – 7.60 (m, 2H), 7.45 – 7.35 (m, 2H), 7.17 (td, J = 7.4, 1.2 Hz, 1H), 4.19 – 3.93 (m, 5H), 3.92 – 3.80 (m, 2H), 3.43 (ddd, J = 21.6, 10.0, 6.1 Hz, 1H), 2.50 – 2.19 (m, 1H), 1.25 (td, J = 7.2, 4.0 Hz, 6H)
¹³C NMR (126 MHz, DMSO) δ 169.0, 139.7, 129.2 (2C), 124.9, 120.2 (2C), 62.7, 62.2, 47.4, 42.7, 20.2, 20.2, 16.8, 16.7
MS (ESI⁺) m/z 298.12 [M+H]⁺
SI, pp. S2, S4
(1-(4,5-dichlorophenyl)-2-oxopyrrolidin-3-yl)phosphonic acid
Identifier 7a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 8.02 (d, J = 2.3 Hz, 1H), 7.58 – 7.49 (m, 2H), 3.98 (q, J = 8.1 Hz, 1H), 3.90 (td, J = 8.9, 4.7 Hz, 1H), 3.19 (ddd, J = 22.0, 10.0, 5.9 Hz, 1H), 2.48 (qt, J = 13.0, 9.0 Hz, 2H)
¹³C NMR (126 MHz, MeOD) δ 170.7, 139.0, 132.0, 130.1, 127.4, 121.8, 119.4, 43.9, 42.8, 19.9
HRMS (ESI⁺) calcd for C₁₀H₁₁Cl₂NO₄P⁺ [M+H]⁺ 309.9797, found 307.9795
SI, pp. S2, S4–S5
(1-phenyl-2-oxopyrrolidin-3-yl)phosphonic acid
Identifier 7b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.65 – 7.58 (m, 2H), 7.57 (s, 2H), 7.43 – 7.36 (m, 2H), 7.25 – 7.17 (m, 1H), 4.01 (td, J = 8.7, 6.8 Hz, 1H), 3.92 (td, J = 8.9, 4.9 Hz, 1H), 3.17 (ddd, J = 21.9, 9.8, 5.8 Hz, 1H), 2.50 (dddd, J = 32.0, 21.3, 11.2, 7.2 Hz, 2H)
¹³C NMR (126 MHz, MeOD) δ 170.6, 139.1, 128.4 (2C), 124.9, 120.8 (2C), 43.9, 42.8, 20.1
HRMS (ESI⁺) calcd for C₁₀H₁₃NO₄P⁺ [M+H]⁺ 242.0577, found 242.0577
SI, pp. S2, S5
3-azido-1-(4,5-dichlorophenyl)pyrrolidin-2-one
Identifier 8a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, CDCl₃) δ 7.75 (d, J = 2.6 Hz, 1H), 7.47 (dd, J = 8.9, 2.6 Hz, 1H), 7.37 (d, J = 8.8 Hz, 1H), 4.26 (t, J = 8.4 Hz, 1H), 3.79 – 3.65 (m, 2H), 2.45 (dddd, J = 13.2, 8.4, 7.2, 3.4 Hz, 1H), 1.96 (dq, J = 13.2, 8.3 Hz, 1H)
MS (ESI⁺) m/z 271.01 [M+H]⁺
SI, pp. S2, S5
3-azido-1-phenylpyrrolidin-2-one
Identifier 8b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, CDCl₃) δ 7.60 – 7.53 (m, 2H), 7.36 – 7.29 (m, 2H), 7.14 – 7.09 (m, 1H), 4.27 (t, J = 8.4 Hz, 1H), 3.83 – 3.70 (m, 2H), 2.44 (dddd, J = 13.1, 8.3, 7.1, 3.5 Hz, 1H), 1.96 (dq, J = 13.1, 8.3 Hz, 1H)
¹³C NMR (126 MHz, CDCl₃) δ 162.6, 138.7, 129.0 (2C), 125.3, 119.8 (2C), 60.5, 45.3, 25.2
MS (ESI⁺) m/z 203.09 [M+H]⁺
SI, pp. S2, S5
3-amino-1-(4,5-dichlorophenyl)pyrrolidin-2-one
Identifier 9a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, CDCl₃) δ 7.69 (d, J = 2.5 Hz, 1H), 7.52 – 7.40 (m, 1H), 7.31 (d, J = 8.8 Hz, 1H), 3.79 (dt, J = 26.7, 7.9 Hz, 2H), 3.65 (dd, J = 9.6, 4.0 Hz, 1H), 2.97 (bs, NH₂), 2.54 (m, 1H), 1.95 (m, 1H)
MS (ESI⁺) m/z 245.02 [M+H]⁺
SI, pp. S2, S5
3-amino-1-phenylpyrrolidin-2-one
Identifier 9b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, CDCl₃) δ 7.59 – 7.53 (m, 2H), 7.31 (t, J = 8.0 Hz, 2H), 7.09 (td, J = 7.4, 1.3 Hz, 1H), 4.10 (bs, NH₂), 3.76 – 3.66 (m, 2H), 3.62 (t, J = 9.3 Hz, 1H), 2.50 (m, 1H), 1.80 (m, 1H)
MS (ESI⁺) m/z 177.10 [M+H]⁺
SI, pp. S2, S5
diethyl [1-({[1-(3,4-dichlorophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonate
Identifier 11a
MS (ESI⁺) m/z 479.13 [M+H]⁺
SI, pp. S5–S6
diethyl [1-({[1-phenyl-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonate
Identifier 11b
MS (ESI⁺) m/z 411.20 [M+H]⁺
SI, p. S6
[1-({[1-(3,4-dichlorophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 12a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 8.26 (d, J = 8.2 Hz, 1H, NH), 8.04 (d, J = 1.8 Hz, 1H), 7.64 (d, J = 2.1 Hz, 2H), 4.68 (dt, J = 10.3, 8.4 Hz, 1H), 3.81 (td, J = 9.3, 2.0 Hz, 1H), 3.74 (td, J = 9.4, 6.9 Hz, 1H), 2.70 (ddd, J = 21.8, 11.4, 3.2 Hz, 1H), 2.41 – 2.32 (m, 1H), 1.98 – 1.81 (m, 2H), 1.65 – 1.54 (m, 1H), 1.37 (dtd, J = 13.2, 9.7, 3.2 Hz, 1H), 0.86 (t, J = 7.0 Hz, 6H)
¹³C NMR (126 MHz, DMSO) δ 172.5, 169.9, 139.7, 131.4, 130.8, 126.0, 120.8, 119.3, 51.6, 45.4, 44.7, 36.3, 26.3, 25.2, 23.6, 21.6
HRMS (ESI⁺) calcd for C₁₆H₂₂Cl₂N₂O₅P⁺ [M+H]⁺ 423.0643, found 423.0634
SI, pp. S2, S6
[1-({[1-phenyl-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 12b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 8.30 (d, J = 7.3 Hz, 1H, NH), 7.68 (d, J = 8.2 Hz, 2H), 7.38 (t, J = 7.8 Hz, 2H), 7.14 (t, J = 7.3 Hz, 1H), 4.39 (q, J = 8.8 Hz, 1H), 4.15 (bs, 2H, OH), 3.76 (dtd, J = 16.3, 9.3, 6.9 Hz, 2H), 2.73 (ddd, J = 21.6, 11.5, 3.2 Hz, 1H), 2.39 (dddd, J = 11.8, 9.2, 6.9, 2.4 Hz, 1H), 1.97 (dq, J = 12.2, 9.3 Hz, 1H), 1.83 (tdd, J = 12.1, 7.6, 4.4 Hz, 1H), 1.55 (tt, J = 12.4, 6.1 Hz, 1H), 1.38 (dtd, J = 13.2, 9.7, 3.3 Hz, 1H), 0.85 (d, J = 6.5 Hz, 6H)
¹³C NMR (126 MHz, DMSO) δ 171.9, 170.0, 140.1, 129.2 (2C), 124.5, 119.7 (2C), 52.6, 46.1, 45.1, 36.8, 26.4, 25.7, 23.9, 21.8
HRMS (ESI⁺) calcd for C₁₆H₂₄N₂O₅P⁺ [M+H]⁺ 355.1417, found 355.1416
SI, pp. S2, S6
ethyl 2-({[1-(3,4-dichlorophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-4-methylpentanoate
Identifier 14a
MS (ESI⁺) m/z 415.13 [M+H]⁺
SI, p. S6
ethyl 2-({[1-phenyl-2-oxopyrrolidin-3-yl]amino}carbonyl)-4-methylpentanoate
Identifier 14b
MS (ESI⁺) m/z 347.19 [M+H]⁺
SI, p. S6
N-hydroxy-2-({[1-(3,4-dichlorophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-4-methylpentanamide
Identifier 15a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, Acetone) δ 8.11 (d, J = 2.5 Hz, 1H), 7.68 (dt, J = 9.0, 2.1 Hz, 1H), 7.56 (dd, J = 8.9, 1.6 Hz, 1H), 4.70 – 4.59 (m, 1H), 3.94 – 3.86 (m, 2H), 3.16 (t, J = 7.7 Hz, 1H), 2.60 (s, 1H), 2.14 (d, J = 10.2 Hz, 1H), 1.81 – 1.67 (m, 2H), 1.62 (dt, J = 13.8, 6.9 Hz, 1H), 0.91 (d, J = 6.6 Hz, 6H)
¹³C NMR (126 MHz, Acetone) δ 172.5, 170.3, 167.3, 139.7, 131.1, 126.8, 121.4, 120.6, 119.3, 52.8, 50.1, 45.7, 40.8, 26.6, 25.8, 22.4 (2C)
HRMS (ESI⁺) calcd for C₁₇H₂₂Cl₂N₃O₄⁺ [M+H]⁺ 402.0982, found 402.0989
SI, pp. S2, S6–S7
N-hydroxy-2-({[1-phenyl-2-oxopyrrolidin-3-yl]amino}carbonyl)-4-methylpentanamide
Identifier 15b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 10.50 (d, J = 1.7 Hz, 1H, NH), 8.98 (d, J = 1.6 Hz, 1H, OH), 8.11 (t, J = 7.6 Hz, 1H, NH), 7.67 (d, J = 8.1 Hz, 2H), 7.39 (t, J = 7.9 Hz, 2H), 7.15 (t, J = 7.4 Hz, 1H), 4.55 (dt, J = 10.3, 8.1 Hz, 1H), 3.77 (dd, J = 9.6, 4.2 Hz, 2H), 3.04 (t, J = 7.6 Hz, 1H), 2.39 (ddt, J = 12.9, 8.8, 4.4 Hz, 1H), 2.00 – 1.88 (m, 1H), 1.70 – 1.55 (m, 2H), 1.49 (hept, J = 6.8 Hz, 1H), 0.87 (d, J = 6.5 Hz, 6H)
¹³C NMR (126 MHz, DMSO) δ 170.7, 168.6, 165.9, 138.9, 128.1 (2C), 123.6, 118.6 (2C), 51.1, 48.3, 43.8, 38.0, 24.9, 24.7, 21.9, 21.5
HRMS (ESI⁺) calcd for C₁₇H₂₄N₃O₄⁺ [M+H]⁺ 334.1761, found 334.1754
SI, pp. S2, S7
3-[4-(dimethylaminomethyl)-1,2,3-triazol-1-yl]-1-(3,4-dichlorophenyl)pyrrolidin-2-one
Identifier 17a
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 8.13 (s, 1H), 8.03 (d, J = 2.5 Hz, 1H), 7.62 (dd, J = 8.9, 2.6 Hz, 1H), 7.55 (d, J = 8.8 Hz, 1H), 5.72 (t, J = 9.4 Hz, 1H), 4.06 (dtd, J = 25.3, 9.4, 7.0 Hz, 2H), 3.75 (s, 2H), 2.96 – 2.86 (m, 1H), 2.84 – 2.72 (m, 1H), 2.35 (s, 6H)
¹³C NMR (126 MHz, MeOD) δ 168.7, 142.8, 138.5, 132.2, 130.3, 128.1, 124.7, 121.6, 119.3, 61.7, 52.8, 45.2, 43.3 (2C), 25.4
HRMS (ESI⁺) calcd for C₁₅H₁₈Cl₂N₅O⁺ [M+H]⁺ 354.0883, found 354.0876
SI, pp. S2, S7
3-[4-(dimethylaminomethyl)-1,2,3-triazol-1-yl]-1-phenylpyrrolidin-2-one
Identifier 17b
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 8.14 (s, 1H), 7.72 – 7.63 (m, 2H), 7.47 – 7.39 (m, 2H), 7.24 (t, J = 7.4 Hz, 1H), 5.71 (t, J = 9.3 Hz, 1H), 4.16 – 4.04 (m, 2H), 3.77 (s, 2H), 2.98 – 2.86 (m, 1H), 2.79 (dq, J = 12.8, 9.0 Hz, 1H), 2.37 (s, 6H)
¹³C NMR (126 MHz, MeOD) δ 169.9, 143.9, 140.1, 130.0 (2C), 126.9, 126.1, 121.9 (2C), 63.3, 54.1, 47.1, 44.7 (2C), 27.1
HRMS (ESI⁺) calcd for C₁₅H₂₀N₅O⁺ [M+H]⁺ 286.1662, found 286.1660
SI, pp. S2, S7
[1-({[1-(4-benzamidophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 18a
Diastereomer ratio α:β 70:30
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.96 – 7.90 (m, 2H), 7.78 – 7.72 (m, 2H), 7.67 – 7.62 (m, 2H), 7.62 – 7.55 (m, 1H), 7.55 – 7.48 (m, 2H), 4.78 – 4.70 (m, 1H), 3.88 (dtt, J = 13.0, 9.5, 5.0 Hz, 2H), 2.97 (ddt, J = 22.2, 11.5, 3.8 Hz, 1H), 2.58 (dqd, J = 14.2, 7.1, 3.7 Hz, 1H), 2.19 – 2.01 (m, 2H), 1.75 – 1.65 (m, 1H), 1.58 (ddq, J = 14.0, 9.9, 5.0 Hz, 1H), 1.01 – 0.93 (m, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.5, 172.0, 168.8, 137.2, 136.9, 136.2, 132.9, 129.6 (2C), 128.6 (2C), 122.5 (2C), 122.1 (2C), 53.7, 46.9, 46.3, 37.1, 27.7, 26.8, 23.8, 21.8
HRMS (ESI⁺) calcd for C₂₃H₂₉N₃O₆P⁺ [M+H]⁺ 474.1788, found 474.1785
SI, pp. S2, S7
[1-({[1-(4-benzamidophenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 18b
Diastereomer ratio α:β 0:100
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.96 – 7.90 (m, 2H), 7.75 (dd, J = 8.7, 2.1 Hz, 2H), 7.65 (dd, J = 9.1, 2.1 Hz, 2H), 7.62 – 7.55 (m, 1H), 7.52 (td, J = 7.8, 2.0 Hz, 2H), 4.64 (t, J = 9.5 Hz, 1H), 3.95 – 3.84 (m, 2H), 2.94 (ddd, J = 22.4, 11.6, 3.0 Hz, 1H), 2.62 – 2.53 (m, 1H), 2.21 – 2.12 (m, 1H), 2.08 – 2.04 (m, 1H), 1.71 – 1.67 (m, 1H), 1.64 – 1.54 (m, 1H), 0.96 (td, J = 5.7, 1.8 Hz, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.7, 172.3, 168.8, 137.2, 136.9, 136.2, 132.9, 129.6 (2C), 128.6 (2C), 122.5 (2C), 122.2 (2C), 53.9, 47.1, 46.4, 37.3, 27.8, 26.6, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₃H₂₉N₃O₆P⁺ [M+H]⁺ 474.1788, found 474.1783
SI, pp. S2, S7
[1-({[1-(4-(3-isopropylbenzamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 19
Diastereomer ratio α:β 60:40
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, DMSO) δ 10.18 (s, 1H, NH), 8.32 (d, J = 7.3 Hz, 2H, OH), 8.23 (d, J = 8.2 Hz, 1H, NH), 7.89 (d, J = 7.9 Hz, 2H), 7.81 – 7.75 (m, 2H), 7.66 (d, J = 8.6 Hz, 2H), 7.39 (d, J = 7.9 Hz, 2H), 4.67 (q, J = 9.1 Hz, 1H- α), 4.40 (q, J = 8.8 Hz, 1H- β), 3.77 (hept, J = 8.4 Hz, 2H), 2.97 (h, J = 6.9 Hz, 1H), 2.73 (ddd, J = 22.3, 11.4, 3.2 Hz, 1H), 2.41 – 2.37 (m, 1H), 1.92 – 1.88 (m, 1H), 2.06 – 1.76 (m, 1H), 1.66 – 1.58 (m, 1H), 1.43 – 1.34 (m, 1H), 1.24 (d, J = 6.9 Hz, 6H), 0.90 – 0.83 (m, 6H)
¹³C NMR (126 MHz, DMSO) δ 171.4, 169.3, 165.3, 152.2, 135.5, 135.3, 132.6, 127.8 (2C), 126.3 (2C), 120.5 (2C), 119.4 (2C), 51.3, 44.7, 44.5, 36.1, 33.4, 26.0, 25.5, 23.7 (2C), 23.5, 21.5
HRMS (ESI⁺) calcd for C₂₆H₃₅N₃O₆P⁺ [M+H]⁺ 516.2261, found 516.2255
SI, pp. S2, S7–S8
[1-({[1-(4-(thiophene-2-carboxamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 20a
Diastereomer ratio α:β 88:12
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.93 – 7.86 (m, 1H), 7.74 – 7.68 (m, 3H), 7.67 – 7.56 (m, 2H), 7.18 (t, J = 3.7 Hz, 1H), 4.74 (t, J = 8.6 Hz, 1H), 3.94 – 3.82 (m, 2H), 2.95 (ddd, J = 22.5, 11.5, 3.2 Hz, 1H), 2.63 – 2.53 (m, 1H), 2.19 – 2.08 (m, 1H), 2.08 – 2.02 (m, 1H), 1.76 – 1.66 (m, 1H), 1.64 – 1.52 (m, 1H), 0.97 (dd, J = 6.6, 3.6 Hz, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.6, 172.3, 162.7, 140.8, 136.9, 136.9, 132.5, 130.1, 129.0, 122.4 (2C), 122.1 (2C), 53.7, 47.4, 46.9, 37.2, 27.7, 26.8, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₁H₂₇N₃O₆PS⁺ [M+H]⁺ 480.1353, found 480.1359
SI, pp. S2, S8
[1-({[1-(4-(thiophene-2-carboxamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 20b
Diastereomer ratio α:β 0:100
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.90 (dd, J = 3.8, 1.1 Hz, 1H), 7.75 – 7.69 (m, 3H), 7.68 – 7.61 (m, 2H), 7.18 (dd, J = 5.0, 3.8 Hz, 1H), 4.64 (t, J = 9.5 Hz, 1H), 3.95 – 3.84 (m, 2H), 2.93 (ddd, J = 22.2, 11.6, 3.2 Hz, 1H), 2.62 – 2.52 (m, 1H), 2.21 – 2.00 (m, 1H), 2.07 – 2.04 (m, 1H), 1.73 – 1.64 (m, 1H), 1.66 – 1.54 (m, 1H), 0.95 (dd, J = 6.5, 5.1 Hz, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.7, 172.4, 162.7, 140.8, 136.9, 136.9, 132.5, 130.1, 129.0, 122.4 (2C), 122.2 (2C), 53.9, 47.5, 47.1, 37.3, 27.9, 26.6, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₁H₂₇N₃O₆PS⁺ [M+H]⁺ 480.1353, found 480.1358
SI, pp. S2, S8
[1-({[1-(4-(2-(4-chlorophenyl)acetamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 21a
Diastereomer ratio α:β 70:30
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.58 (s, 4H), 7.33 (s, 4H), 4.71 (t, J = 9.5 Hz, 1H), 3.84 (dtt, J = 13.0, 9.5, 5.0 Hz, 2H), 3.67 (s, 2H), 2.95 (dd, J = 21.6, 10.3 Hz, 1H), 2.60 – 2.50 (m, 1H), 2.18 – 2.00 (m, 2H), 1.73 – 1.65 (m, 1H), 1.62 – 1.54 (m, 1H), 0.96 (dd, J = 6.5, 4.2 Hz, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.5, 172.2, 171.7, 137.1, 136.7, 135.6, 133.9, 131.8 (2C), 129.6 (2C), 122.2 (2C), 121.5 (2C), 53.7, 47.3, 46.9, 43.8, 37.1, 27.7, 26.8, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₄H₃₀ClN₃O₆P⁺ [M+H]⁺ 522.1555, found 522.1568
SI, pp. S2, S8
[1-({[1-(4-(2-(4-chlorophenyl)acetamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 21b
Diastereomer ratio α:β 0:100
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.59 (s, 4H), 7.33 (s, 4H), 4.72 (t, J = 9.5 Hz, 1H), 3.85 (ddt, J = 16.6, 9.7, 5.1 Hz, 2H), 3.67 (s, 2H), 2.94 (ddd, J = 22.3, 11.3, 3.2 Hz, 1H), 2.61 – 2.51 (m, 1H), 2.15 – 2.07 (m, 1H), 2.07 – 1.96 (m, 1H), 1.74 – 1.66 (m, 1H), 1.62 – 1.52 (m, 1H), 1.03 – 0.88 (m, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.5, 172.2, 171.2, 137.1, 136.7, 135.6, 133.9, 131.8 (2C), 129.6 (2C), 122.2 (2C), 121.5 (2C), 53.7, 47.4, 46.9, 43.8, 37.1, 27.7, 26.8, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₄H₃₀ClN₃O₆P⁺ [M+H]⁺ 522.1555, found 522.1566
SI, pp. S2, S8
[1-({[1-(4-(2-phenylacetamido)phenyl)-2-oxopyrrolidin-3-yl]amino}carbonyl)-3-methylbutyl]phosphonic acid
Identifier 22
Diastereomer ratio α:β 75:25
NMR reporting reference Chemical shifts are given in parts per million (ppm) and referenced against the residual proton or carbon resonances of the >99 % deuterated solvents as internal standard
¹H NMR (500 MHz, MeOD) δ 7.63 – 7.55 (m, 4H), 7.38 – 7.29 (m, 4H), 7.28 – 7.21 (m, 1H), 4.71 (t, J = 9.4 Hz, 1H), 3.91 – 3.80 (m, 2H), 3.67 (s, 2H), 2.93 – 2.84 (m, 1H), 2.57 – 2.53 (m, 1H), 2.16 – 2.03 (m, 2H), 1.72 – 1.68 (m, 1H), 1.61 – 1.58 (m, 1H), 0.98 – 0.90 (m, 6H)
¹³C NMR (126 MHz, MeOD) δ 173.6, 172.3 (2C), 137.2, 136.8, 136.6, 130.1 (2C), 129.6 (2C), 128.0, 122.2 (2C), 121.5 (2C), 53.7, 47.8, 46.9, 44.7, 37.4, 27.9, 26.8, 23.8, 21.7
HRMS (ESI⁺) calcd for C₂₄H₃₁N₃O₆P⁺ [M+H]⁺ 488.1945, found 488.1950
SI, pp. S2, S8–S9
Final compounds
LC-MS purity (UV trace, 254 nm; area percentage method) >95 %
SI, p. S2
LasB in complex with inhibitor 15b
PDB entry for final coordinates 9GM4
Single-crystal X-ray diffraction (100 K), resolution 1.5 Å
Single-crystal X-ray diffraction, observed diastereomer Only the (R)-configured pyrrolidone diastereomer was observed in the co-crystal structure
Cα RMSD, LasB–15b versus LasB–thiol-based inhibitor complex (PDB 7NLM) 1.28 Å
Conformation comparison, LasB–15b versus LasB–thiol-based inhibitor complex (PDB 7NLM) In the co-crystal structure with 15b, LasB adopts a distinctly more closed conformation than in the LasB structure with the thiol-based inhibitor
Asn112 side-chain distance, LasB–15b versus LasB–thiol-based inhibitor complex (PDB 7NLM) 2.5 Å
Cα RMSD, LasB–15b versus LasB–phosphonate-based inhibitor complex (PDB 8CC4) 0.64 Å
Cα RMSD, LasB–15b versus LasB–phosphonate-based dipeptide inhibitor complex (PDB 9FQD) 0.52 Å
Reporting qualifier Statistics for the highest resolution shell are shown in parentheses
PDB code in data-collection and refinement statistics 8GM4
Space group P 2₁ 2₁ 2₁
Cell dimensions, a, b, c (Å) 43.5, 52.2, 122.3
Cell dimensions, α, β, γ (°) 90.0, 90.0, 90.0
Wavelength (Å) 0.8856
Data collection, resolution (Å) 33.44 – 1.51 (1.57 – 1.51)
CC₁/₂ 0.994 (0.808)
I/σI 8.0 (2.3)
Completeness (%) 99.8 (99.8)
Redundancy 4.6 (4.7)
Refinement, resolution (Å) 33.44 – 1.51
Refinement, number of reflections 44284 (4348)
Rwork / Rfree 0.152 / 0.170
Number of atoms 2736
Number of atoms, protein 2347
Number of atoms, ligand/ion 155
Number of atoms, water 315
B-factors 16.82
B-factors, protein 15.07
B-factors, ligand/ion 22.65
B-factors, water 28.51
R.m.s. deviations, bond lengths (Å) 0.009
R.m.s. deviations, bond angles (°) 1.00
MolProbity clash score 3.7
Ramachandran, favoured (%) 95.95
Ramachandran, allowed (%) 3.72
Ramachandran, outliers (%) 0.34