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. Author manuscript; available in PMC: 2011 Apr 9.
Published in final edited form as: J Mol Biol. 2010 Feb 6;397(4):1106–1118. doi: 10.1016/j.jmb.2010.01.070

Figure 6. Structural Comparison between Aa1 VHH and the available VHH structures in the PDB databank.

Figure 6

(A) Structural alignment of the available VHH fragment structures in the PDB colored gray with Aa1 VHH colored yellow with the CDRs 1, 2, 3, colored blue, red and green, respectively. The unique CDR1 of Aa1 VHH forms an extended loop with a small α-helix at the tip. All structural alignments were performed using the combinatorial extension (CE) method 70 and the PDB codes are listed in the amino acid sequence alignment of Supplemental Figure S2. (B) 180° rotation (along the Y-axis) of the superposition shown in panel (A). (C) CE structural alignment of the VHH fragment from PDB code 1F2X colored gray and Aa1 VHH colored the same as in panels (A) and (B) with an RMSD of 2.0 Å.