#WARNING:no index is registered index "YP_009725301.1" in "https://rest.uniprot.org/uniprotkb/" url "https://rest.uniprot.org/uniprotkb/YP_009725301.1.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 8sk4_A_1_A_2_B_1_B_2_C_1_C_2 by the Modeller program

Modeling a 3D structure on 8sk4_A_1_A_2_B_1_B_2_C_1_C_2 by the Modeller program (TEMPLATE: 8sk4) 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: 8sk4.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: 8sk4_A_1.pdb

  4. execute command:

    mod10 model1.py

    Subunit 2

  5. Download template PDB file: 8sk4_A_2.pdb

    Subunit 3

  6. Download template PDB file: 8sk4_B_1.pdb

    Subunit 4

  7. Download template PDB file: 8sk4_B_2.pdb

    Subunit 5

  8. Download template PDB file: 8sk4_C_1.pdb

    Subunit 6

  9. Download template PDB file: 8sk4_C_2.pdb

    Merge all the subunit models

  10. execute command:

    cat query1.B99990001.pdb 8sk4_A_2.pdb 8sk4_B_1.pdb 8sk4_B_2.pdb 8sk4_C_1.pdb 8sk4_C_2.pdb > model.pdb

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