Entering edit mode
5.2 years ago
yonatanam
•
0
Hi all , part of my HW i should implement a software to Predicting Protein Secondary Structure . I am looking for database of protein sequence and their Secondary Structure. i tried to look in PDB but i didn't find there. can anyone help please? thanks.
is it possible to download multiple sequence in one shoot? i am not familiar with the protein's name and thanks for your answer
Yes it is possible to download multiple PDB ID's. Use the download tool here or their FTP site.
should i use"Download: Sequences"? moreover i am not familiar with protein's names. I meant if is there any groups of proteins that i can download thanks again for the quick response
What does your assignment exactly ask you to do? Do you have a method you are going to use to do the sec structure predictions with or are you just going to parse the information already there in 140K+ proteins in PDB. Or you are going to learn (ML?) from known PDB structures and then predict for any other sequence?
i need to create Predicting Protein Secondary Structure by a SVM. basically i have a paper (http://airccse.org/journal/ijsc/papers/2112ijsc06.pdf) that describing how they did it and i need to implement their solution to practice SVM algorithm.
This is a pretty poor discription of how the sequences were selected
You could go to the FTP site and download randomly from folders there and stop after you have enough candidates?
they used The RS 126 data set -i didn't saw this line before. i will search this specific data set and i will try to figure how the prediction is working. thank you very much for your time!!!!!