Lab journal task 5

We used the structure of 1A6Z chain A as target. The templates were selected based on the structures assembled for task 4 and also the Blast alignment from task 2. Unfortunatels, we could not find a sequence with a higher sequence identity than 39%.

-selection of template structures

Modeller

-creation of alignments: sdt and 2d

- computation of GDT score: how did we calculate id? where is the programm from, how did we use it?

TMscore model.pdb 1a6z_a.pdb

- computation of RMSD: how?

We searched the Blast hits from task 2 to create sets with close and distant homology. We could not find a structure with a higher sequence identity than 39%.

- computation of MSA: how?