Collecting all proteins related to a non-model species

Question

[Farbod]

Dear friends, Hi . (I am not native in English/be ready for mistakes)

I intend to collect all previously discovered proteins (and/or nucleotides) related to a (non-model)species that I have done RNA-seq project for it.

This is my approach and I want you to kindly check if it is a good one or not :

I use NCBI Taxonomy -----> then enter my species name (e.g Acipenser persicus) -----> then select Protein ----> Send to file -----> format FASTA -----> create file

Then I will make the created protein FASTA file a blastable database (via -makeblastdb) and then perform blastX of my de novo assembly transcriptom fasta file against this Acipenser persicus protein database.

Can I be sure that this NCBI Taxonomy site will offer an acceptable protein collection for each species or not?

Thank you in advance

[microfuge]

I don't see any problems with this approach.