Modeling a 3D structure on 1p9m_A_1_A_2_B_1_B_2_C_1_C_2 by the Modeller program (TEMPLATE: 1p9m) 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: 1p9m.pdb

  4. execute command:

    mod9 model_complex.py

Modeller scripts for each subunit

    Subunit 1

  1. Download template PDB file: 1p9m_A_1.pdb

    Subunit 2

  2. Download template PDB file: 1p9m_A_2.pdb

    Subunit 3

  3. Download modeller script: model3.py

  4. Download alignment: alignment3.ali

  5. Download template PDB file: 1p9m_B_1.pdb

  6. execute command:

    mod9 model3.py

    Subunit 4

  7. Download template PDB file: 1p9m_B_2.pdb

    Subunit 5

  8. Download template PDB file: 1p9m_C_1.pdb

    Subunit 6

  9. Download template PDB file: 1p9m_C_2.pdb

    Merge all the subunit models

  10. execute command:

    cat 1p9m_A_1.pdb 1p9m_A_2.pdb query3.B99990001.pdb 1p9m_B_2.pdb 1p9m_C_1.pdb 1p9m_C_2.pdb > model.pdb


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