Modeling a 3D structure on 8a4a_A_1_B_1_C_1_D_1 by the Modeller program (TEMPLATE: 8a4a) assembly_id:1)

If you install the Modeller program in your computer, you can model a full-atom 3D structure of the complex using following files.

Modeller scripts for complex

  1. Download modeller python script: model_complex.py

  2. Download alignment file: alignment_complex.ali

  3. Download template PDB file: 8a4a.pdb

  4. execute command:

    mod10 model_complex.py

Modeller scripts for each subunit

    Subunit 1

  1. Download template PDB file: 8a4a_A_1.pdb

    Subunit 2

  2. Download modeller script: model2.py

  3. Download alignment: alignment2.ali

  4. Download template PDB file: 8a4a_B_1.pdb

  5. execute command:

    mod10 model2.py

    Subunit 3

  6. Download template PDB file: 8a4a_C_1.pdb

    Subunit 4

  7. Download template PDB file: 8a4a_D_1.pdb

    Merge all the subunit models

  8. execute command:

    cat 8a4a_A_1.pdb query2.B99990001.pdb 8a4a_C_1.pdb 8a4a_D_1.pdb > model.pdb

Alignment for protein A:local for query, global for template[=>global both for query and template]