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. Author manuscript; available in PMC: 2015 Feb 20.
Published in final edited form as: Mol Cell. 2014 Jan 30;53(4):606–616. doi: 10.1016/j.molcel.2014.01.003

Figure 6. Structural Details of hDicer PAZ Cassette Bound to 16-mer siRNA and Impact of Phosphate-Pocket Mutants in the hDicer PAZ Cassette on Binding Affinity to a siRNA duplex.

Figure 6

(A) Sequence of the self-complementary 16-mer siRNA containing 5′-p and UU-overhangs at 3′-ends.

(B) Structure of hDicer PAZ cassette bound to a 16-mer siRNA. The platform, PAZ and connector helix are colored in yellow, blue and pink, respectively. The ‘Dicer PAZ-insertion element’ is disordered in this complex. The 5′-phosphate is highlighted in a space-filling representation.

(C) Omit map (1σ) of the protein and RNA in the hDicer PAZ cassette-16-mer siRNA complex.

(D) Sequence of immobilized RNA used for SPR measurements containing accessible 5′-p, UU 3′-overhang and terminal U•U mismatch at one end and biotin attached to the 3′-overhang at the other end.

(E) Measurement of SPR-based RNA-binding affinities for hDicer PAZ cassette mutants located within the phosphate pocket.

See also Table S1.