Question About Batch Nucleic Acid Mutagenesis

[rimonparves]

Hi there,

I'm wondering if it's possible to mutate multiple residues at once, rather than doing it one by one. Mutating residues individually is quite time-consuming and inefficient, especially for nucleic acid mutagenesis.

Many Cryo-EM researchers use protein–DNA complex structures from the PDB database and manually mutate the nucleic acid residues one by one to build their initial models for fitting into the Cryo-EM density map.

For example, someone working with protein X and a 30 bp DNA segment might find a similar complex in the PDB with a different DNA sequence. They would then mutate the nucleic acids and save the model before proceeding to fitting and refinement. While the mutagenesis plugin is helpful, the current bottleneck lies in the need to handle each mutation manually.

Is there a way to select a range of residues and replace them with a custom sequence, allowing the program to iterate through and perform the mutagenesis automatically?

Thanks!