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. 2008 Nov;14(11):2361–2371. doi: 10.1261/rna.1244308

FIGURE 6.

FIGURE 6.

The shape of the central channel of two archaeal exosomes. (A) A comparison of the central channel of S. solfataricus exosome, in the absence of Rrp4 (left) and in the presence of Rrp4 (right), shows that the channel is narrower when the S1 protein Rrp4 is associated in the complex. The channel was calculated by Hole (Smart et al. 1993) based on the crystal structures of the six-subunit exosome, (Rrp41+Rrp42)3 (PDB entry: 2br2) and the nine-subunit exosome, (Rrp4+Rrp41+Rrp42)3 (PDB entry: 2jea). (B) A comparison of the channels in the A. fulgidus exosomes of (Rrp4+Rrp41+Rrp42)3 (PDB entry:2ba0) (left) and (Csl4+Rrp41+Rrp42)3 (PDB entry: 2ba1) shows that the shape of the central channel is different. The region of the channel colored in red indicates that the diameter is smaller than 10 Å, in green is 10–20 Å, and in blue is 20–30 Å. (C) The RNA-binding channel in the Streptomyces antibioticus PNPase (PDB entry: 1e3p) and human exosome (PDB entry: 2nn6).