The RNA Binding Specificity of Human APOBEC3 Proteins Resembles That of HIV-1 Nucleocapsid
Fig 2
Viral RNA binding by A3F, A3G and A3H in cells and mature virions.
(A) A3-RNA cross-linked complexes were immunoprecipitated from mock infected or HIV-1NL4-3 ΔVif infected HEK 293T cells stably expressing 3×HA-tagged A3F, A3G or A3H proteins that had been fed with 4SU and UV-irradiated. A3-RNA cross-linked complexes were also immunoprecipitated from purified HIV-1NL4-3 ΔVif virions that were derived from the 4SU-fed infected cells. Complexes were visualized by autoradiography (top) and Western blot analysis using a polyclonal anti-HA (bottom). (B) Frequency distribution of nucleotide occurrence (read density) in reads that were mapped to the HIV-1NL4-3 genome (left). A colinear schematic diagram of the HIV-1 genome is presented above. Correlation analyses (see methods) of A3 binding to viral RNA in cells from two independent CLIP experiments are shown (right).