Association of U2 snRNP with the pre-mRNA branch region is
the first ATP-dependent step in spliceosome assembly. The basis
of this energy dependence is not known. Previously, we identified
minimal intron-derived substrates that form complexes with U2
independent of ATP. Here, we identify the intron region linked
to the ATP dependence of this step by comparing these substrates
to longer RNAs that recapitulate the ATP requirement. This region
needed to impose ATP dependence lies immediately 5′ to
the branch site. Sequences ranging from 6 to 14 nt yield a near
linear inhibitory effect on efficiency of complex formation
with U2 snRNP, with 18 nt yielding near maximal ATP dependence.
This region is not protected prior to U2 addition, and RNase
H targeting of the region within nuclear extract converts an
ATP-dependent substrate into an ATP-independent one. Within
this region, there is no sequence specificity linked with the
ATP requirement, as neither a specific sequence is needed, nor
even nucleobases. These data and the results of other modifications
suggest models in which the 18-nt region is a target for
interactions with U2 snRNP in an ATP-bound or -activated conformation.