Hello,
I have recently watched a Youtube video (https://www.youtube.com/watch?v=GV6jHhxR5T4) about completing loops with Modeller in ChimeraX. However, the structure I want to model is only a part of the actual molecule, and I want to replace one unresolved segment (300 residues long) with 11 glycines.
When I upload both, the FASTA file with the sequence as it should look after completion of the loops, and the PDB file of the incomplete structure, I am not able to align them together in order to perform the modelling.
- If I use the original PDB file containing the SEQRES part, the association is performed but produces mismatches after the start of the unresolved sequence.
- If I use the PDB file without the SEQRES part, I am not able to perform the association.
Can anybody help me?
Thanks in advance
Sasha
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Alexandra Zahradníková, PhD
Department of Cell Cardiology
Institute of Experimental Endocrinology
Biomedical Research Centre SAS
Dúbravská cesta 9
845 05 Bratislava
Slovakia
Mobile: +421 908 069 796