bigc wrote:
> Hi Gurus,
>> I'm a newbee to bioinfomatics. It seems that via the secondary
> structure we can roughly predict the protein's 3D structure.
We can't. We can not even predict secondary structures very well.
> Then is
> there free software (better open source) can display a file like this:
> 70 80 90 100 110 120
> .....:....x....:....x....:....x....:....x....:....x....:....x
> VTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLG
> 1236136_1236137
> EEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCEECEEEEECCCCCCCCCCCCCCCCCC BPS
> EEEHHHHHHCCCCEEEHHHHHHHHEHEECCECCCEECCECCEEEECCCCCCCCCHHHCHC D_R
> EEEECCCCCCCHHHHHHHHHHHHHEEEECCCCCEEEECEEEEEEECCCCCCCCEEECCCC DSC
> HHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCEEEEECCCCCCCCCEEEECC GGR
> HHHHHHHCCCHHHHHHHHHHHHHHHEEEECCCEEEEEEEEEEEEECCCCCCCCEEEECHC GOR
> ECCCCCCCCCCCCCCCHHHHHHHHEEEECCCCCEEEECCCCEEEECCCCCCCCCCCCCCC H_K
> EEEEECCCCCCCEEEEEEEEECEEEEEEEEEEEEEEEEEEEEEEEECCCCCCCEEECCCC K_S
> EEECCCCCCCCCCCCHHHHHHHHHEEEECCCCCEEEECEEEEEEECCCCCCCCCEECCCC JOI
If you want to look at protein 3D structures, get a program like protein
explorer, Swiss-PDB or rasmol. Then download the 3D-coordinates of your
protein from the PDB database (protein explorer contains an easy
interface for searching).
If you just started, protein explorer is good enough for you, the other
programs you only need to make publication quality pictures.
