Analysis of site-specific protein–RNA cross-links in isolated RNP complexes, combining affinity selection and mass spectrometry

TABLE 1.

Summary of affinity selection yields

H complex A complex
Quantities were determined by scintillation counting and are correspondingly approximate. 1Losses are due to adhesion of the sample to the walls of the 24-well plate and tubes. 2This includes a correction for quenching by the elution buffer.
Total input 125 pmole 185 pmole
No. of gradients/pooled fractions 5/20 8/32
Pooled gradient peaks 73 pmole 73 pmole
Percent gradient peak/total input 60% 40%
Input for affinity selection1 60 pmole 57 pmole
Beads after washing 34 pmole 25 pmole
Eluted proteins2 27 pmole 22 pmole
% eluted/gradient peak 37% 30%
Left on beads 7 pmole 3 pmole
Elution efficiency 80% 88%

This Article

  1. RNA 9: 1542-1551