Table 2. Relative reactivity of nucleosides in the central loop of Domain V of 23S rRNA, when a PA–CAM conjugate (I) binds E. coli ribosomes (R) at the initial (RI) and the final (R*I) binding sitea.
| 23S rRNA residue | Compound 4 | Compound 5 | |||||
|---|---|---|---|---|---|---|---|
| Binding state | R | RI | R*I | R | RI | R*I | |
| A2058 | 1 | 1.00 ± 0.05 | 1.25 ± 0.09b,c | 1 | 1.10 ± 0.09 | 0.95 ± 0.08 | |
| A2059 | 1 | 1.00 ± 0.06 | 0.60 ± 0.03b,c | 1 | 0.90 ± 0.08 | 1.00 ± 0.08 | |
| A2062 | 1 | 1.00 ± 0.05 | 0.52 ± 0.02b,c | 1 | 1.00 ± 0.06 | 1.00 ± 0.09 | |
| A2451 | 1 | 0.48 ± 0.02b | 0.53 ± 0.05b | 1 | 0.65 ± 0.04b | 0.70 ± 0.05b | |
| G2505 | 1 | 0.65 ± 0.05b | 0.35 ± 0.02b,c | 1 | 0.74 ± 0.06b | 0.50 ± 0.15b,c | |
| U2506 | 1 | 0.70 ± 0.05b | 0.65 ± 0.04b | 1 | 0.75 ± 0.05b | 0.70 ± 0.06b | |
| U2585 | 1 | 0.80 ± 0.07b | 0.45 ± 0.02b,c | 1 | 0.92 ± 0.10 | 0.80 ± 0.10b | |
| A2602 | 1 | 1.00 ± 0.10 | 0.88 ± 0.08 | 1 | 1.00 ± 0.06 | 0.89 ± 0.07 | |
| U2609 | 1 | 1.00 ± 0.09 | 1.00 ± 0.07 | 1 | 1.00 ± 0.10 | 0.90 ± 0.08 | |
aRelative reactivity of nucleosides denotes the ratio between the normalized intensity of a band of interest and the normalized intensity of the homologous band in the control lane (R). Only nucleosides that are accessible to DMS, CMCT and kethoxal are indicated, while their accessibility changes upon exposure to a PA–CAM conjugate.
bSignificantly different in relation to R (P < 0.05).
cSignificantly different in relation to RI (P < 0.05).