Tutorial 10 with 1HHO

Note: To perform Tutorial 10 with 1HHO use the following ammended instructions at the appropriate point.


With all groups in the new layer (3HHBA'B') selected, click the file icon on the graphics window (beside the little earth icon) to display the PDB file. Scroll down to the beginning of the lines labeled REMARK 350. The last three lines, labeled BIOMT(1,2,and3),  give the information that DeepView needs to transform the coordinates of your CD dimer into the coordinates of the second, or A'B' pair. All you need to do is click anywhere in these three lines, and click OK on the dialog box. Then close the file window, and you will find the current layer in its new orientation, with the original layer in the old orientation. Together, they make a full tetramer.


You will be looking for these lines

REMARK 350   BIOMT1   2 -1.000000  0.000000  0.000000

REMARK 350   BIOMT2   2  0.000000  1.000000  0.000000

REMARK 350   BIOMT3   2  0.000000  0.000000 -1.000000           

Clicking will fill in the transformation matrix with the appropriate values so you do not have to enter them manually.