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tutorials:eccb_t2_badasp [2012/09/08 16:47] romainstuder |
tutorials:eccb_t2_badasp [2012/09/08 17:15] (current) romainstuder |
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| We want to identify the residues making differences between the **isoforms 1** and **isoforms 4** of the V-type proton ATPase 116 kDa subunit a. | We want to identify the residues making differences between the **isoforms 1** and **isoforms 4** of the V-type proton ATPase 116 kDa subunit a. | ||
| + | |||
| + | First, visualise briefly the multiple alignment in Jalview. (File "badasp_eg.fas" in the badasp folder. | ||
| Line 69: | Line 71: | ||
| => Press enter | => Press enter | ||
| - | # We need to split the tree on the node 21, so we need to define two groups from the children nodes 20 (= VPP1 subfamily) and 19 (= VPP4 subfamily) . | + | # We need to split the tree on the node 21, |
| + | # so we need to define two groups from the children nodes 20 (= VPP1 subfamily) and 19 (= VPP4 subfamily) . | ||
| => Press M, then enter. # Manual grouping | => Press M, then enter. # Manual grouping | ||
| (Tree displayed) | (Tree displayed) | ||
| - | Choice? [default=Q]: c # We collapse node | + | Choice? [default=Q]: c # We collapse nodes |
| Node [default=0]: 20 | Node [default=0]: 20 | ||
| => Type VPP1, then Press enter | => Type VPP1, then Press enter | ||
| - | Choice? [default=Q]: c # We collapse node | + | Choice? [default=Q]: c # We collapse nodes |
| Node [default=0]: 19 | Node [default=0]: 19 | ||
| => Type VPP4, then Press enter | => Type VPP4, then Press enter | ||
