Hey all, I'm looking at several proteins involved with each other in a cellular function and I have one main target gene and several others that seem to be associated with it. I am looking at binned assemblies and published on NCBI. I have a Biopython script that can pull the protein hits associated contig and assembly. Now I need to search for the two associated proteins but their annotations are inconsistent so I need to run an HMM on that contig. When I download the contig using "ncbi-acc-download" only nucleotide sequences are available. I am looking to run an analysis where It can search the genomic loci for the two associated proteins (like a customizable antiSMASH), is there a program like this? or should I write a script up in Biopython?
