Modeling a 3D structure on 2bme_C_1_L_1_M_1_N_1_O_1 by the Modeller program (TEMPLATE: 2bme) assembly_id:3)

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: 2bme.pdb

  4. execute command:

    mod10 model_complex.py

Modeller scripts for each subunit

    Subunit 1

  1. Download modeller script: model1.py

  2. Download alignment: alignment1.ali

  3. Download template PDB file: 2bme_C_1.pdb

  4. execute command:

    mod10 model1.py

    Subunit 2

  5. Download template PDB file: 2bme_L_1.pdb

    Subunit 3

  6. Download template PDB file: 2bme_M_1.pdb

    Subunit 4

  7. Download template PDB file: 2bme_N_1.pdb

    Subunit 5

  8. Download template PDB file: 2bme_O_1.pdb

    Merge all the subunit models

  9. execute command:

    cat query1.B99990001.pdb 2bme_L_1.pdb 2bme_M_1.pdb 2bme_N_1.pdb 2bme_O_1.pdb > model.pdb

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