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. Author manuscript; available in PMC: 2009 May 11.
Published in final edited form as: J Mol Biol. 2008 Feb 12;377(5):1460–1473. doi: 10.1016/j.jmb.2008.01.096

Figure 5.

Figure 5

The Tex S1 domain. (A) Two orthogonal cartoon representations with conserved residues R718, H683, F668, and F671 shown in green. Right, a close-up view of an alignment of conserved residues from structurally related S1domains: green=Tex, orange= PNPaseS1 (PDB 1SRO), yellow= archealRPB4/7 (PDB 1GO3), blue=archealIFα (PDB 1ZY6). (B) A hypothetical model for RNA binding to the S1 domain binding cleft. The crystal structures of S1 domains with bound RNA from RNaseE (PDB 2COB, red) and RNaseII (PDB 2IX1, blue) were aligned with Tex S1 using DALI.33 As illustrated, ssRNA binds the same face of the different S1 domains but considerable differences in detail are apparent. (C) Surface representation showing primary sequence conservation as assigned by the CONSURF server.37 Conservation is indicated as a gradient from magenta (high) to white (low). In contrast to the view shown here, minimal conservation is observed on the opposite face of the S1 domain.