Table 1.
Nanobody binding and neutralization characterization; related to Figure 2.
| Group # | Nanobody | wildtype# | Delta | Omicron BA.1 | Omicron BA.4/5 | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Kon (M−1s−1) | Koff (s−1) | KD (M) | PSV IC50 (s.e.m) (nM) | Kon (M−1s−1) | Koff (s−1) | KD (M) | PSV IC50 (s.e.m) (nM) | Kon (M−1s−1) | Koff (s−1) | KD (M) | PSV IC50 (s.e.m) (nM) | Kon (M−1 | Koff (s−1) | KD (M) | IC50 (nM) | ||
| 1 | S1–1 | 6.50E+05 | 5.98E-07 | 9.20E-12 | 6.7(1.0) | 1.27E+06 | 1.00E-06 | 7.87E-13 | 2.3(0.5) | No binding | NA | No binding | |||||
| S1-RBD-9 | 2.85E+05 | 1.23E-04 | 4.30E-10 | 235(97.5) | (1)3.93E+05 (2)1.76E-03 | (1)1.00E-03 (2)5.04E-04 | 5.69E-10* | 85.2 (24.3) | 6.05E+03 | 1.82E-04 | 3.01E-08 | 323 (20.8) | 4.36E+05 | 5.49E-03 | 1.26E-08 | 966 (220) | |
| S1-RBD-15 | 7.52E+06 | 4.95E-04 | 6.58E-11 | 4.6(1.2) | 2.55E+06 | 1.08E-04 | 4.25E-11 | 2(0.9) | 1.95E+06 | 1.32E-02 | 6.79E-09 | 617(87) | No binding | ||||
| S1-RBD-22 | 9.24E+05 | 4.42E-04 | 4.78E-10 | 100(0.1) | (1)1.07E+06 (2)9.10E-04 | (1)6.25E-04 (2)4.15E-04 | 1.83E-10* | 46.4(12) | 7.30E+05 | 1.91E-04 | 2.62E-10 | 179(68) | 1.07E+06 | 1.05E-02 | 9.8E-09 | 976 (285) | |
| S1-RBD-24 | 2.12E+06 | 1.22E-03 | 5.75E-10 | 221(4) | (1)5.74E+05 (2)1.61E-03 | (1)2.62E-03 (2)9.00E-04 | 1.64E-09* | 85.5 (13.5) | (1)2.66E+05 (2)2.63E-03 | (1)1.49E-02 (2)8.24E-04 | 1.34E-08* | 2382 (878) | 9.25E+05 | 1.62E-02 | 1.75E-08 | ||
| 2 | S1–6 | 5.92E+05 | 3.69E-04 | 6.22E-10 | 56.1(20.7) | 3.19E+05 | 2.48E-04 | 7.77E-10 | 37.3 (14.7) | No binding | No binding | ||||||
| S1–35 | 2.70E+06 | 9.77E-05 | 3.62E-11 | 12.5(0.1) | 5.83E+05 | 1.48E-05 | 2.54E-11 | 28(5.2) | 5.20E+05 | 7.56E-05 | 1.45E-10 | 49(13.6) | 1.02E+06 | 4.35E-05 | 4.27E-11 | 182(55) | |
| S1–39 | 1.68E+06 | 1.06E-03 | 6.30E-10 | 111(4.0) | 2.30E+06 | 6.73E-04 | 2.92E-10 | 236(3.8) | (1)1.14E+05 (2)5.04E-03 | (1)5.48E-03 (2)4.12E-04 | 3.62E-09* | 7.59E+04 | 7.3E-04 | 9.61E-09 | |||
| 3 | S1–23 | 1.09E+06 | 1.07E-04 | 9.78E-11 | 5.7(2.2) | 2.33e+5 | 2.85e-3 | 1.23E-08 | NA | No binding | No binding | ||||||
| S1–36 | 7.87E+06 | 1.72E-03 | 2.18E-10 | 48.5(21.1) | (1)7.90E+05 (2)2.11E-03 | (1)2.28E-02 (2)9.57E-04 | 9.00E-09* | 1387 (209) | (1)1.19E+06 (2)2.02E-03 | (1)1.64E-02 (2)6.80E-04 | 3.47E-09* | NA | No binding | ||||
| S1-RBD-40 | 7.47E+05 | 2.77E-05 | 3.71E-11 | 25.6(5.9) | No binding | NA | 2.25E+05 | 3.71E-05 | 1.65E-10 | 46.1 (4.7) | (1)2.54E+04 (2)6.23E-03 | (1)3.07E-01 (2)3.29E-03 | 4.17E-06* | NA<10u M) | |||
| S1–37 | 4.03E+06 | 2.75E-04 | 6.82E-11 | 6.8(0.7) | 1.18E+05 | 1.35E-03 | 1.14E-08 | NA | 1.38E+06 | 1.99E-02 | 1.44E-08 | NA | No binding | ||||
| S1–48 | 2.61E+06 | 6.22E-05 | 2.39E-11 | 5.82(0.5) | 5.74E+05 | 3.54E-03 | 6.18E-09 | No binding | No binding | ||||||||
| 4 | S1-RBD-21 | 3.15E+06 | 1.71E-03 | 5.45E-10 | 17.3(3.1) | (1)1.82E+06 (2)8.40E-04 | (1)1.98E-03 (2)3.48E-04 | 3.18E-10* | 21(1.3) | (1)1.90E+05 (2)2.17E-03 | (1)3.16E-03 (2)1.16E-03 | 5.80E-09* | 113(14) | No binding | |||
| S1-RBD-27 | 6.19E+06 | 1.24E-02 | 2.00E-09 | 163(71.4) | (1)4.06E+05 (2)5.17E-03 | (1)1.48E-02 (2)1.51E-03 | 8.24E-09* | 1390 (198) | No binding | NA | No binding | ||||||
| S1-RBD-29 | 5.36E+05 | 1.35E-03 | 2.51E-09 | 9.53(1.0) | (1)1.80E+05 (2)9.46E-04 | (1)6.99E-03 (2)7.32E-04 | 1.69E-08* | 564(332) | 3.30E+04 | 1.20E-04 | 3.63E-09 | NA | No binding | ||||
| S1-RBD-43 | 6.21E+05 | 1.82E-04 | 2.92E-10 | 33.6(1.3) | 5.39E+06 | 1.19E-03 | 2.21E-10 | NA | 4.79E+05 | 4.23E-04 | 8.83E-10 | 1032(54 3) | No binding | ||||
| S1-RBD-46 | 4.69E+05 | 5.79E-04 | 1.23E-09 | 48.0 | 1.11E+06 | 3.12E-04 | 2.81E-10 | 8.7(3) | No binding | NA | (1)2.17E+05 (2)1.60E-02 | (1)1.38E-01 (2)4.15E-03 | 1.31E-07* | 1020 | |||
| S1-RBD-49 | 3.15E+05 | 5.34E-04 | 1.69E-09 | 37.6(5.6) | No binding | 2.54E+05 | 3.48E-04 | 1.37E-09 | 404 (145) | No binding | |||||||
| 5 | S1-RBD-16 | 1.68E+04 | 6.25E-05 | 3.73E-09 | 79.2(4.2) | 3.13E+04 | 3.04E-04 | 9.74E-09 | 688 (72.6) | No binding | No binding | ||||||
| S1-RBD-23 | 2.89E+06 | 4.61E-05 | 1.59E-11 | 7.31(0.4) | No binding | NA | 7.91E+05 | 5.43E-05 | 6.87E-11 | 91.7 (5.2) | No binding | ||||||
| S1-RBD-38 | 1.12E+06 | 9.84E-04 | 8.79E-10 | 84.6(22.7) | No binding | NA | 2.37E+05 | 7.06E-04 | 2.98E-09 | 790 (146) | No binding | NA<10u M | |||||
| 6 | S1-RBD-35 | 1.33E+06 | 2.50E-04 | 1.88E-10 | 12.3(2.4) | No binding | No binding | No binding | |||||||||
| 7 | S1–46 | 2.22E+05 | 1.70E-04 | 7.66E-10 | 312(14.0) | 6.93E+04 | 4.05E-05 | 5.85E-10 | 210.2 (26) | 2.12E+05 | 1.24E-04 | 5.85E-10 | 412 (116) | 1.27E+05 | 1.07E-04 | 8.46E-10 | NA<10u M |
| 8 | S1–65 | 1.06E+06 | 1.67E-04 | 1.57E-10 | 7.3(6.0) | Not tested | NA | 3.42E+05 | 1.05E-03 | 3.07E-09 | 517 (218) | No binding | |||||
| 1/2 | S1–4 | 1.26E+06 | 1.26E-04 | 1.37E-10 | 41.5(3.7) | 1.38E+06 | 4.83E-05 | 3.51E-11 | 10.7(0.4) | 6.00E+05 | 7.98E-05 | 1.33E-10 | 58.6 (9.2) | 1.32E+06 | 1.32E-03 | 1.00E-09 | 148.6 (37.6) |
| 1/4 | S1-RBD-3 | 5.12E+05 | 1.01E-02 | 1.98E-08 | 384(18.7) | (1)3.27E+05 (2)1.62E-03 | (1)5.54E-03 (2)7.42E-04 | 5.32E-09* | 83.9 | No binding | Not tested | ||||||
| S1-RBD-5 | 7.21E+06 | 1.05E-03 | 1.45E-10 | 174(3.3) | 1.49E+06 | 3.29E-04 | 2.2E-10 | 280 | (1)1.18E+05 (2)2.95E-03 | (1)4.32E-03 (2)7.96E-04 | 7.75E-09* | 204 (24.6) | 1.19E+06 | 9.71E-03 | 8.19E-09 | ||
| S1-RBD-6 | 3.48E+06 | 1.13E-03 | 3.24E-10 | 77.2(21.8) | (1)6.68E+05 (2)1.08E-03 | (1)5.04E-04 (2)3.85E-04 | 1.99E-10* | 542.3 (155.8) | (1)1.43E+05 (2)3.37E-03 | (1)3.44E-03 (2)9.96E-04 | 5.49E-9* | 233.8 (23) | 8.72E+05 | 5.71E-03 | 6.55E-09 | ||
#
Values taken from (Mast, Fridy et al. 2021)
*
Fit to a two-state mode