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. 2011 Sep 1;121(10):4150–4160. doi: 10.1172/JCI58414

Figure 3. Structure of PSMB8.

Figure 3

(A) The mouse subunits β1i, β2i, and β5i (i.e., PSMB8) were modeled by the corresponding constitutive subunits using Spanner software (see Methods). G197 is depicted in space-filling representation using CPK coloring. (B) β1i, β2i, and β5i were modeled by the corresponding constitutive subunits using Spanner software. Molecular surfaces of β4 and β5i were colored according to electrostatic potential: red, white, and blue represent negative, neutral, and positive electrostatic values, respectively. The location of the S1 substrate pocket (yellow circle) and the position of G197 (arrow) are indicated. (C) The cross-section of 2 β rings of PSMB8 (pink and cyan), shown using jV software ( http://www.pdbj.org/jv/index.html). G197 (green space-filling representation) was located outside the β ring–β ring interface. (D) Sequences of PSMB8 and 83 related proteins were obtained by running BLAST against the protein data bank. These sequences were aligned using MAFFT software, after removing several short fragments that did not cover the entire aligned region. The sequence conservation was computed and plotted, demonstrating that G197 was the most conserved position (100%) in the 84 related sequences.