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March 2025

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Protein specified in ALIGN_CODES(i) was not found in the alignment file; ALIGN_CODES( 1)
by Fred Pontes 01 Apr '25

01 Apr '25

Hi! Sorry for the very basic question, but again I'm facing issues with MODELLER. When I run MODELLER I got the following error: "*_modeller.ModellerError: read_al_373E> Protein specified in ALIGN_CODES(i) was not found in the alignment file; ALIGN_CODES( 1) = 6KG7.pdb*" But my structure file is present in my directory: *(base) [medfpo@uol-pc-301925 hPIEZO2_structure]$ ls -l 6KG7.pdb -rw-r--r--. 1 medfpo Domain Users 1177728 Mar 31 13:25 6KG7.pdb* I don't have any idea what's … [View More]

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(no subject)
by Fred Pontes 27 Mar '25

27 Mar '25

Hi everyone, I'm a beginner in using MODELLER and I need help to fix my files in my modelling. I'm trying to build a homology model using two templates. I'd like to select different regions of each template to build my model. I attached the script below, In my alignment.pir file I include the sequence of my template in the following way: >P1;template1 structureX:protA.pdb:8:A:2822:A:::-1.00:-1.00 --------------------------------------------------------------------------- ... >P1;… [View More]

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