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. Author manuscript; available in PMC: 2013 Apr 3.
Published in final edited form as: Curr Pharm Des. 2009;15(28):3249–3261. doi: 10.2174/138161209789105171

Figure 4.

Figure 4

Pockets in the HLA-DR binding site.. HLA-DR1 surface shown in tan (A,B) or cyan (C). Bound influenza peptide shown in CPK ball (A,C) or stick (B) representation. (B) Peptide side chains accessible to TCR interaction are visible in this top view, at positions P-1, P2, P5, and P8, with partially buried side chains at P3, P7, and P10. (B) Peptide side chains bound into MHC pockets at the P1, P4, P6, and P9 pockets are evident when the peptide is represented by sticks. Peptide side chains at P3, P7, and P10 are partially buried. (C) Side cut-away view of the same complex, with side chain preferences of the P1, P4, P6, and P9 pockets indicated.