#WARNING:no index is registered index "YP_009725304.1" in "https://rest.uniprot.org/uniprotkb/" url "https://rest.uniprot.org/uniprotkb/YP_009725304.1.txt".
Please visit the UniProt website(https://www.uniprot.org), and get a proper ID/AC for your query protein. Modeling a 3D structure on 7thm_A_1_B_1_C_1_D_1_E_1_F_1_G_1_H_1_I_1 by the Modeller program

Modeling a 3D structure on 7thm_A_1_B_1_C_1_D_1_E_1_F_1_G_1_H_1_I_1 by the Modeller program (TEMPLATE: 7thm) 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: 7thm.pdb

  4. execute command:

    mod10 model_complex.py

Modeller scripts for each subunit

    Subunit 1

  1. Download template PDB file: 7thm_A_1.pdb

    Subunit 2

  2. Download template PDB file: 7thm_B_1.pdb

    Subunit 3

  3. Download template PDB file: 7thm_C_1.pdb

    Subunit 4

  4. Download modeller script: model4.py

  5. Download alignment: alignment4.ali

  6. Download template PDB file: 7thm_D_1.pdb

  7. execute command:

    mod10 model4.py

    Subunit 5

  8. Download template PDB file: 7thm_E_1.pdb

    Subunit 6

  9. Download template PDB file: 7thm_F_1.pdb

    Subunit 7

  10. Download template PDB file: 7thm_G_1.pdb

    Subunit 8

  11. Download template PDB file: 7thm_H_1.pdb

    Subunit 9

  12. Download template PDB file: 7thm_I_1.pdb

    Merge all the subunit models

  13. execute command:

    cat 7thm_A_1.pdb 7thm_B_1.pdb 7thm_C_1.pdb query4.B99990001.pdb 7thm_E_1.pdb 7thm_F_1.pdb 7thm_G_1.pdb 7thm_H_1.pdb 7thm_I_1.pdb > model.pdb

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