TRANSCRIPTION factor IIH (TFIIH) contains a kinase capable of phosphor
ylating the carboxy-terminal domain (CTD) of the largest subunit of RN
A polymerase II (RNAPII)1-3. Here we report the identification of the
Cdk-activating kinase (Cak) complex (Cdk7 and cyclin H) as a component
of TFIIH after extensive purification of TFIIH by chromatography. We
find that affinity-purified antibodies directed against cyclin H inhib
it TFIIH-dependent transcription and that both cyclin H and Cdk7 antib
odies inhibit phosphorylation of the CTD of the largest subunit of the
RNAPII in the preinitiation complex. Cak is present in at least two d
istinct complexes, TFIIH and a smaller complex that is unable to phosp
horylate RNAPII in the preinitiation complex. Both Cak complexes, as w
ell as recombinant Cak, phosphorylate a CTD peptide. Finally, TFIIH wa
s shown to phosphorylate both Cdc2 and Cdk2, suggesting that there cou
ld be a link between transcription and the cell cycle machinery.