. Author manuscript; available in PMC: 2022 Sep 5.

Published in final edited form as: Biochemistry. 2022 Apr 28;61(10):833–842. doi: 10.1021/acs.biochem.2c00096

Table 1.

Modified Nucleotide Compositions of 23S rRNA in the Intermediates and Native 50S Large Subunit

		Mutation Rates^c
Modified^a Nucleotide	Enzyme^b	35S	45S	50S
Ψ 748	RluA	0.026 ± 0.009	0.030 ± 0.001	0.029 ± 0.001
Ψ 957	RluC	0.242 ± 0.023	0.247 ± 0.007	0.261 ± 0.012
Ψ 1915	RluD	0.013 ± 0.000	0.011 ± 0.002	0.039 ± 0.005
^dm³ Ψ 1919	RluD/RlmH	0.097 ± 0.005	0.077 ± 0.001	0.605 ± 0.004
Ψ 1921	RluD	0.042 ± 0.003	0.024 ± 0.001	0.156 ± 0.006
Ψ 2461	RluE	0.090 ± 0.004	0.098 ± 0.002	0.108 ± 0.003
OH⁵C 2505	RlhA	0.070 ± 0.002	0.108 ± 0.001	0.265 ± 0.006
m²A 2507	RlmN	0.083 ± 000	0.097 ± 0.001	0.090 ± 0.008
Ψ 2508	RluC	0.105 ± 0.016	0.118 ± 0.006	0.080 ± 0.000
Ψ 2584	RluC	0.324 ± 0.000	0.322 ± 0.001	0.322 ± 0.010
Ψ 2608	RluF	0.0291 ± 0.001	0.025 ± 0.002	0.034 ± 0.001
Ψ 2609	RluB	0.067 ± 0.003	0.055 ± 0.001	0.070 ± 0.000

The modified nucleotides investigated in this study.

Enzymes incorporating the modifications.

Mutation rates were calculated as explained in the Materials and Methods section of the paper (eq 1). The values shown are the averages of two different biological samples. The errors are the standard deviations from the averages (eqs 2 and 3).

The RluD enzyme performs the U 1919 to Ψ isomerization, while the RlmH enzyme methylates Ψ 1919 at position N3. As explained in the manuscript, for nucleotide 1919, the mutation rates were not background corrected, and values shown are averages and standard deviations for uncorrected mutation rates.