How to predict the 3-D structure with the sequence of protein? - (Feb/02/2005 )
I try to predict the 3-D structure of a protein with the sequence. Are there someone knowing a good software? Thank in advance!
I guess you could check the EMBL site for their structure prediction tools. They have quite a few of them and you could choose depending on your requirements.
Hope it helps!
You could try
One way is to use swiss pdb viewer http://us.expasy.org/spdbv/ to predict, but you must have a protein structure available with at lease 80% of sequence similarity.
I also recommend Deep View and Swiss Model for this job. The Swiss model can give you a good structural model if there is a known structure with more than 30% sequence identical to your protein.
You can also get a compromised model with less homology if higher homology is not available by doing a 'stand-alone' modeling with the same software.
BTW, I got a model published using Deep View and the active site image was chosen as cover image in BBRC last yr.