Hi All,
I tried to prepare my ligand (extracted from a pdb) using XLEAP module. I
corrected the bond order and added the hydrogen. After saving the file in
pdb format gives me some atomtype followed *by asterisk (*)*. The pdb seems
ok when I visualize it in PYMOL.
Before moving to next step of preparing and inserting it into the protein
complex, I want to just confirm that there is nothing wrong with this atom
type.
*ATOM 1 C5* HAK 1 8.652 1.367 93.970 1.00 0.00
ATOM 2 O5* HAK 1 7.418 1.157 94.648 1.00 0.00
ATOM 3 C4* HAK 1 8.386 1.353 92.509 1.00 0.00
ATOM 4 N4* HAK 1 7.444 2.356 92.140 1.00 0.00
ATOM 5 C3* HAK 1 9.640 1.600 91.726 1.00 0.00
ATOM 6 O3* HAK 1 9.581 0.713 90.602 1.00 0.00
ATOM 7 C2* HAK 1 9.516 3.041 91.348 1.00 0.00
ATOM 8 O2* HAK 1 9.998 3.254 90.016 1.00 0.00
ATOM 9 C1* HAK 1 8.036 3.455 91.463 1.00 0.00*
ATOM 10 N1 HAK 1 10.011 7.473 94.452 1.00 0.00
ATOM 11 C2 HAK 1 10.744 6.504 93.753 1.00 0.00
ATOM 12 N3 HAK 1 10.143 5.514 93.018 1.00 0.00
ATOM 13 C4 HAK 1 8.746 5.557 93.025 1.00 0.00
ATOM 14 C5 HAK 1 7.965 6.499 93.709 1.00 0.00
ATOM 15 C6 HAK 1 8.601 7.539 94.479 1.00 0.00
Kindly give your opinion.
Thanks,
Hirdesh
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Received on Wed Feb 16 2011 - 23:00:04 PST
