User:Wayne Decatur/1ig8 to 3b8a (hexokinase) morph methods: Difference between revisions
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According to help page for the Yale Morph server this task was submitted, this shouldn't matter because it will do a ClustalW alignment. Frustratingly, though it does seem to matter because they always seem to need to be identical to me for anything to work at the Yale Morph server. And unfortunately when it fails, it doesn't tell you why it failed or even that it failed. A lot of stuff they talk about never got implemented and maybe the alignment was part of it? | According to help page for the Yale Morph server this task was submitted, this shouldn't matter because it will do a ClustalW alignment. Frustratingly, though it does seem to matter because they always seem to need to be identical to me for anything to work at the Yale Morph server. And unfortunately when it fails, it doesn't tell you why it failed or even that it failed. A lot of stuff they talk about never got implemented and maybe the alignment was part of it? | ||
*To get so they were the same two proteins, I submitted sequence of 3b8a (without amino acids 15-17) to | *To get so they were the same two proteins, I submitted the FASTA sequence of 3b8a (without amino acids 15-17) (that i got from PDBsum) to SwissModel and told it to homology model it to 1ig8. Got that result and called 3b8amodeledto1ig8.pdb | ||
** Submitted 3b8amodeledto1ig8.pdb and the 3b8achainA file to every version of the Yale Morph server I could find. However, I got nothing back for any attempt and when I looked at the new file I realized it had renumbered to start at 1, and so to get equal chains, I submitted the FASTA sequence of 3b8a (without amino acids 15-17) (that i got from PDBsum) to SwissModel and told it to model it to 3b8a. This should renumber like it did when I submitted it to model against 1ig8. | |||
