#WARNING:no index is registered index 'YP_009725295.1' in 'http://www.uniprot.org/uniprot/' Modeling a 3D structure on 5rgu_A_1_A_2_B_1_B_2_C_1_C_2_D_1_D_2_E_1_E_2_F_1_F_2 by the Modeller program

Modeling a 3D structure on 5rgu_A_1_A_2_B_1_B_2_C_1_C_2_D_1_D_2_E_1_E_2_F_1_F_2 by the Modeller program (TEMPLATE: 5rgu) 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: 5rgu.pdb

  4. execute command:

    mod9 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: 5rgu_A_1.pdb

  4. execute command:

    mod9 model1.py

    Subunit 2

  5. Download template PDB file: 5rgu_A_2.pdb

    Subunit 3

  6. Download template PDB file: 5rgu_B_1.pdb

    Subunit 4

  7. Download template PDB file: 5rgu_B_2.pdb

    Subunit 5

  8. Download template PDB file: 5rgu_C_1.pdb

    Subunit 6

  9. Download template PDB file: 5rgu_C_2.pdb

    Subunit 7

  10. Download template PDB file: 5rgu_D_1.pdb

    Subunit 8

  11. Download template PDB file: 5rgu_D_2.pdb

    Subunit 9

  12. Download template PDB file: 5rgu_E_1.pdb

    Subunit 10

  13. Download template PDB file: 5rgu_E_2.pdb

    Subunit 11

  14. Download template PDB file: 5rgu_F_1.pdb

    Subunit 12

  15. Download template PDB file: 5rgu_F_2.pdb

    Merge all the subunit models

  16. execute command:

    cat query1.B99990001.pdb 5rgu_A_2.pdb 5rgu_B_1.pdb 5rgu_B_2.pdb 5rgu_C_1.pdb 5rgu_C_2.pdb 5rgu_D_1.pdb 5rgu_D_2.pdb 5rgu_E_1.pdb 5rgu_E_2.pdb 5rgu_F_1.pdb 5rgu_F_2.pdb > model.pdb


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