multiple protein sequence similarity tool

Question

[sankarithirumal]

Any software to find the protein sequence similarity and heatmap construction based on blast.

[Joe]

There are lots of tools for this sort of thing. You need to be much more specific in terms of your aims.

[sankarithirumal]

I have around 50 protein sequence files belonging to particular pathway of 50 bacteria. Each protein sequence file of particular pathway contains around 97 to 113 protein sequence. I want to calculate the distance and find is there any clustering pattern. Since multiple protein sequences are there in a file and they need to compared against multiple similar proteins i would like to know the software for this. In genenees only nucleotide is working and amino acid is not working. Any tool to find amino acid sequence similarity and calculate the distance for heatmap and phylogeny.

[Ram]

What have you tried? Where exactly did you run into problems?

Answer 1

[yl759]

Have you tried Clustal Omega? Or you can try to search multiple sequence alignment tools, for example, in BioPython.

[sankarithirumal]

Yes, i was just thinking about clustal omega. I will try now. thank you . But there is some error with my biopython, so i couldn't do. thanks

[sankarithirumal]

i have 50 files containing multiple proteins sequences. So clustal omega could not be done. ANy otehr tool which is windows based would be of great help

[GenoMax]

Please use ADD REPLY/ADD COMMENT when responding to existing posts. SUBMIT ANSWER is for new answers to the parent question in this thread.

[Ram]

Do you at least have WSL installed? Windows is a bad OS for bioinformatics.

[Joe]

Could not be done why?

We can't help you if you don't explain the errors you're encountering.