[gmx-users] Fatal Error: 1 molecule of MeOH in 9 molecules of H2O
Amol D. Atre
ssb4 at udct.org
Wed Oct 5 08:11:34 CEST 2005
Hello all,
Trying to solvate one molecule of Methanol in 9 molecules of Water using
genbox. The Methanol.gro and Water.gro files look like following,
Pure Methanol
648
1MeOH Me1 1 1.090 1.374 0.894 -0.2255 0.0272 -0.0476
1MeOH O2 2 1.205 1.439 0.863 0.3805 -0.9040 0.2153
1MeOH H3 3 1.174 1.533 0.851 0.7376 -0.5702 1.7130
Water
216H2O,WATJP01,SPC216,SPC-MODEL,300K,BOX(M)=1.86206NM,WFVG,MAR. 1984
648
1SOL OW 1 .230 .628 .113
1SOL HW1 2 .137 .626 .150
1SOL HW2 3 .231 .589 .021
2SOL OW 4 .225 .275 -.866
2SOL HW1 5 .260 .258 -.774
2SOL HW2 6 .137 .230 -.878
3SOL OW 7 .019 .368 .647
3SOL HW1 8 -.063 .411 .686
3SOL HW2 9 -.009 .295 .584
4SOL OW 10 .569 -.587 -.697
4SOL HW1 11 .476 -.594 -.734
4SOL HW2 12 .580 -.498 -.653
5SOL OW 13 -.307 -.351 .703
5SOL HW1 14 -.364 -.367 .784
5SOL HW2 15 -.366 -.341 .623
6SOL OW 16 -.119 .618 .856
6SOL HW1 17 -.086 .712 .856
6SOL HW2 18 -.068 .564 .922
7SOL OW 19 -.727 .703 .717
7SOL HW1 20 -.670 .781 .692
7SOL HW2 21 -.787 .729 .793
8SOL OW 22 -.107 .607 .231
8SOL HW1 23 -.119 .594 .132
8SOL HW2 24 -.137 .526 .280
9SOL OW 25 .768 -.718 -.839
9SOL HW1 26 .690 -.701 -.779
9SOL HW2 27 .802 -.631 -.875
Command line: genbox -cp Methanol.gro -cs Water.gro -o conf.gro -p topol.top
Fatal error: Invalid line in Methanol.gro for atom 4:
Can anybody please help?
Thanks in advance.
Regards,
Amol D. Atre.
Lab No.A002,
Chemical Engineering Department,
Mumbai University Institute of Chemical Technology,
Matunga(E), Mumbai-400019.
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