Wall clock time and date at job start Tue Mar 31 2020 23:40:50
AMSOL-version 7.1
by G. D. Hawkins, D. J. Giesen, G. C. Lynch, C. C. Chambers,
I. Rossi, J. W. Storer, J. Li, J. D. Thompson, P. Winget,
B. J. Lynch, D. Rinaldi, D. A. Liotard, C. J. Cramer, and D. G. Truhlar
Copyright 2004 by Regents of the University of Minnesota.
All rights reserved.
Notice: recipients of this code are asked to comply
with the user agreement in Section 1 of the documentation file.
*******************************************************************************
* 1SCF - SCF CALCULATION WITHOUT GEOMETRY OPTIMIZATION
* - USE EF ROUTINE FOR MINIMUM SEARCH (DEFAULT)
* GEO-OK - OVERRIDE INTERATOMIC DISTANCE CHECK
* TLIMIT= - A TIME OF 15. SECONDS REQUESTED
* CHARGE - CHARGE ON SYSTEM= -1
* AM1 - THE AM1 HAMILTONIAN TO BE USED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS WATER
*******************************************************************************
Atom NO. Chemical Bond length Bond angle Dihedral angle
number (k) symbol (angstroms) (degrees) (degrees)
(I) NA:I NB:NA:I NC:NB:NA:I NA NB NC
1 1 C
2 2 C 1.52996 * 1
3 3 H 1.08997 * 109.58756 * 2 1
4 4 C 1.53190 * 109.70389 * 239.64509 * 2 1 3
5 5 C 1.53039 * 109.34133 * 185.52633 * 4 2 1
6 6 C 1.53044 * 109.53775 * 61.31457 * 5 4 2
7 7 H 1.08998 * 109.49806 * 58.65216 * 6 5 4
8 8 N 1.46503 * 109.49684 * 178.71771 * 6 5 4
9 9 C 1.34771 * 120.00183 * 205.21395 * 8 6 5
10 10 O 1.21282 * 120.00042 * 359.71807 * 9 8 6
11 11 C 1.50699 * 120.00095 * 179.72537 * 9 8 6
12 12 C 1.52996 * 109.47096 * 179.97438 * 11 9 8
13 13 C 1.53003 * 109.47495 * 180.02562 * 12 11 9
14 14 C 1.52996 * 109.47495 * 179.97438 * 13 12 11
15 15 C 1.50699 * 109.47096 * 179.97438 * 14 13 12
16 16 C 1.35346 * 126.91558 * 85.00043 * 15 14 13
17 17 N 1.33771 * 106.49858 * 179.97438 * 16 15 14
18 18 N 1.28629 * 108.88619 * 359.97438 * 17 16 15
19 19 N 1.28716 * 110.17925 * 359.76220 * 18 17 16
20 20 H 0.97005 * 125.87233 * 180.23629 * 19 18 17
21 21 C 1.53185 * 109.34008 * 298.68368 * 6 5 4
22 22 N 1.46926 * 108.77690 * 54.61978 * 21 6 5
23 23 C 1.36936 * 120.63288 * 126.41608 * 22 21 6
24 24 H 1.08001 * 120.00012 * 209.02763 * 23 22 21
25 25 C 1.38809 * 119.99840 * 29.01430 * 23 22 21
26 26 N 1.31619 * 120.00258 * 15.02013 * 25 23 22
27 27 Si 1.86805 * 119.99930 * 195.01519 * 25 23 22
28 28 H 1.48497 * 109.47362 * 90.00688 * 27 25 23
29 29 H 1.48510 * 109.46944 * 210.00312 * 27 25 23
30 30 H 1.48499 * 109.47135 * 330.00264 * 27 25 23
31 31 H 1.09002 * 109.46872 * 299.72097 * 1 2 3
32 32 H 1.09000 * 109.47327 * 59.71358 * 1 2 3
33 33 H 1.08999 * 109.47369 * 179.71980 * 1 2 3
34 34 H 1.09003 * 109.49834 * 305.45839 * 4 2 1
35 35 H 1.08996 * 109.49801 * 65.52210 * 4 2 1
36 36 H 1.09001 * 109.43417 * 301.30982 * 5 4 2
37 37 H 1.08997 * 109.48795 * 181.34880 * 5 4 2
38 38 H 0.97001 * 119.99582 * 24.93012 * 8 6 5
39 39 H 1.09004 * 109.46934 * 299.99158 * 11 9 8
40 40 H 1.08999 * 109.47221 * 59.99397 * 11 9 8
41 41 H 1.09008 * 109.47415 * 299.99447 * 12 11 9
42 42 H 1.08999 * 109.47408 * 59.99720 * 12 11 9
43 43 H 1.09008 * 109.46761 * 299.99909 * 13 12 11
44 44 H 1.08999 * 109.47106 * 59.99431 * 13 12 11
45 45 H 1.09004 * 109.46711 * 299.99399 * 14 13 12
46 46 H 1.08999 * 109.47408 * 59.99616 * 14 13 12
47 47 H 1.08003 * 126.75170 * 359.97438 * 16 15 14
48 48 H 1.09001 * 109.58842 * 174.40995 * 21 6 5
49 49 H 1.09001 * 109.58796 * 294.69230 * 21 6 5
50 50 H 0.97002 * 120.00251 * 179.97438 * 26 25 23
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 1 1.8954 1.0269 0.0000
4 6 2.0465 -0.7288 -1.2445
5 6 3.5705 -0.8451 -1.1678
6 6 3.9601 -1.6609 0.0671
7 1 3.5040 -2.6491 0.0090
8 7 5.4177 -1.7975 0.1229
9 6 5.9723 -2.8409 0.7710
10 8 5.2649 -3.6640 1.3124
11 6 7.4715 -2.9849 0.8231
12 6 7.8359 -4.2432 1.6135
13 6 9.3580 -4.3891 1.6670
14 6 9.7223 -5.6471 2.4579
15 6 11.2215 -5.7910 2.5100
16 6 12.0635 -5.2110 3.3969
17 7 13.2963 -5.6148 3.0703
18 7 13.2225 -6.3936 2.0493
19 7 11.9961 -6.5313 1.6835
20 1 11.6814 -7.0708 0.9413
21 6 3.4653 -0.9426 1.3264
22 7 2.0225 -0.6981 1.1954
23 6 1.1534 -1.1125 2.1690
24 1 0.1364 -1.3693 1.9114
25 6 1.5794 -1.2027 3.4870
26 7 2.7011 -0.6221 3.8573
27 14 0.5607 -2.1480 4.7353
28 1 0.9974 -3.5671 4.7578
29 1 0.7489 -1.5508 6.0819
30 1 -0.8740 -2.0775 4.3586
31 1 -0.3633 0.5095 0.8925
32 1 -0.3634 0.5183 -0.8874
33 1 -0.3634 -1.0276 -0.0050
34 1 1.6079 -1.7257 -1.2905
35 1 1.7683 -0.1675 -2.1365
36 1 4.0071 0.1512 -1.0975
37 1 3.9428 -1.3421 -2.0636
38 1 5.9834 -1.1393 -0.3101
39 1 7.8642 -3.0657 -0.1905
40 1 7.9036 -2.1115 1.3117
41 1 7.4432 -4.1620 2.6272
42 1 7.4037 -5.1167 1.1253
43 1 9.7510 -4.4701 0.6535
44 1 9.7897 -3.5155 2.1554
45 1 9.3293 -5.5655 3.4714
46 1 9.2905 -6.5208 1.9699
47 1 11.7933 -4.5518 4.2086
48 1 3.6523 -1.5666 2.2003
49 1 3.9904 0.0063 1.4359
50 1 2.9986 -0.6848 4.7784
RHF calculation, no. of doubly occupied orbitals= 64
REFERENCES FOR PARAMETERS IN GAS-PHASE HAMILTONIAN:
H: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
C: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
N: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
O: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987).
REFERENCE FOR CHARGE MODEL 2:
J. Li, J. Xing, C. J. Cramer, and D. G. Truhlar, J. Chem. Phys. 111 (1999) 885.
REFERENCE FOR THE PARAMETERIZATION OF THE SM5.42R SOLVATION MODEL:
J. Li, T. Zhu, G. D. Hawkins, P. Winget, D. A. Liotard, C. J. Cramer, and
D. G. Truhlar, Theor. Chem. Acc. 103 (1999) 9-63
P. Winget, J. D. Thompson C. J. Cramer,and D. G. Truhlar, J. Phys. Chem. B. submitted.
CHARGE=-1 AM1 1SCF TLIMIT=15 GEO-OK SM5.42R
& SOLVNT=WATER
ZINC001132212421.mol2 50
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Tue Mar 31 2020 23:40:50
Heat of formation + Delta-G solvation = 26.886530 kcal
Electronic energy + Delta-G solvation = -28652.867514 eV
Core-core repulsion = 24715.705513 eV
Total energy + Delta-G solvation = -3937.162001 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 335.206 amu
Computer time = 1.20 seconds
Orbital eigenvalues (eV)
-44.27281 -40.89527 -39.25875 -36.85789 -35.90016 -34.63763 -34.36861 -33.39427
-32.17118 -31.70256 -29.97851 -27.76522 -26.90418 -25.68198 -24.02262 -23.94771
-23.00762 -22.22692 -21.84876 -21.28803 -20.72545 -19.14592 -18.32869 -17.90559
-17.30399 -17.02258 -16.85947 -16.60268 -15.84603 -15.59133 -15.46108 -15.37716
-15.14429 -15.00367 -14.83363 -14.45071 -14.11769 -13.75744 -13.56007 -13.52139
-13.08499 -13.00163 -12.74282 -12.72810 -12.56989 -12.50752 -12.26793 -12.23005
-12.10873 -12.07310 -11.95603 -11.80671 -11.64526 -11.58766 -11.41942 -11.38781
-11.12596 -10.68909 -10.53167 -10.10748 -9.97520 -8.61105 -7.83988 -5.30126
0.58865 1.41257 1.45735 1.51438 1.54032 1.81832 1.89677 2.34851
2.52316 3.31833 3.49103 3.67794 3.75298 3.89029 3.98090 4.00959
4.08006 4.10689 4.19246 4.28364 4.39016 4.41875 4.52232 4.60122
4.63786 4.70158 4.72212 4.79914 4.84279 4.90625 4.91574 5.00251
5.01191 5.07881 5.13476 5.19848 5.22490 5.32517 5.38351 5.38779
5.50088 5.54671 5.58418 5.63473 5.71166 5.85330 6.01070 6.42823
6.75712 7.17463 7.43556 7.48626 7.91604 8.40309 9.20822
Molecular weight = 335.21amu
Principal moments of inertia in cm(-1)
A = 0.015005 B = 0.002160 C = 0.001950
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1865.613633 B =12958.900407 C =14358.413689
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.129 4.129
2 C 0.153 3.847
3 H 0.021 0.979
4 C -0.118 4.118
5 C -0.107 4.107
6 C 0.131 3.869
7 H 0.046 0.954
8 N -0.713 5.713
9 C 0.496 3.504
10 O -0.594 6.594
11 C -0.128 4.128
12 C -0.101 4.101
13 C -0.103 4.103
14 C -0.047 4.047
15 C 0.013 3.987
16 C -0.063 4.063
17 N -0.305 5.305
18 N -0.116 5.116
19 N -0.376 5.376
20 H 0.462 0.538
21 C 0.179 3.821
22 N -0.604 5.604
23 C -0.249 4.249
24 H 0.074 0.926
25 C -0.055 4.055
26 N -0.933 5.933
27 Si 0.956 3.044
28 H -0.295 1.295
29 H -0.294 1.294
30 H -0.263 1.263
31 H 0.037 0.963
32 H 0.078 0.922
33 H 0.045 0.955
34 H 0.050 0.950
35 H 0.094 0.906
36 H 0.072 0.928
37 H 0.085 0.915
38 H 0.413 0.587
39 H 0.124 0.876
40 H 0.110 0.890
41 H 0.050 0.950
42 H 0.062 0.938
43 H 0.078 0.922
44 H 0.076 0.924
45 H 0.102 0.898
46 H 0.095 0.905
47 H 0.209 0.791
48 H 0.043 0.957
49 H -0.004 1.004
50 H 0.245 0.755
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 13.534 -5.625 -12.300 19.133
Note: The Mulliken population analysis charges presented below were not
used in the solvation calculation but are provided for completeness.
The chosen solvation model uses CM2 partial charges for calculating
solvation energies.
Net atomic charges, atomic populations, and dipole contributions
using Mulliken population analysis
Atom NO. Type Charge No. of electrons
1 C -0.187 4.187
2 C 0.047 3.953
3 H 0.039 0.961
4 C -0.158 4.158
5 C -0.145 4.145
6 C 0.024 3.976
7 H 0.065 0.935
8 N -0.365 5.365
9 C 0.285 3.715
10 O -0.474 6.474
11 C -0.168 4.168
12 C -0.140 4.140
13 C -0.141 4.141
14 C -0.086 4.086
15 C -0.122 4.122
16 C -0.221 4.221
17 N -0.171 5.171
18 N -0.096 5.096
19 N -0.099 5.099
20 H 0.311 0.689
21 C 0.052 3.948
22 N -0.328 5.328
23 C -0.380 4.380
24 H 0.091 0.909
25 C -0.250 4.250
26 N -0.580 5.580
27 Si 0.785 3.215
28 H -0.223 1.223
29 H -0.220 1.220
30 H -0.188 1.188
31 H 0.056 0.944
32 H 0.097 0.903
33 H 0.064 0.936
34 H 0.069 0.931
35 H 0.113 0.887
36 H 0.091 0.909
37 H 0.103 0.897
38 H 0.250 0.750
39 H 0.142 0.858
40 H 0.128 0.872
41 H 0.068 0.932
42 H 0.080 0.920
43 H 0.096 0.904
44 H 0.094 0.906
45 H 0.120 0.880
46 H 0.114 0.886
47 H 0.225 0.775
48 H 0.062 0.938
49 H 0.014 0.986
50 H 0.054 0.946
Dipole moment (debyes) X Y Z Total
from point charges 14.622 -6.511 -11.954 19.978
hybrid contribution -1.562 -0.150 1.008 1.865
sum 13.060 -6.661 -10.946 18.296
Atomic orbital electron populations
1.21732 0.94843 1.01092 1.01021 1.20805 0.94234 0.93389 0.86830
0.96122 1.21945 0.94848 1.00752 0.98237 1.21635 0.96867 0.99992
0.95992 1.21435 0.80118 0.98715 0.97343 0.93524 1.45979 1.07259
1.27424 1.55845 1.21677 0.92690 0.80320 0.76830 1.90719 1.65680
1.44277 1.46709 1.21712 0.88633 1.01590 1.04868 1.21270 0.95815
0.96769 1.00111 1.21511 0.94002 0.97488 1.01092 1.20267 0.84122
1.00197 1.04049 1.22571 0.97306 0.98022 0.94278 1.23916 0.88165
1.05920 1.04049 1.75058 1.24131 1.10014 1.07890 1.78222 1.01518
1.18160 1.11669 1.45173 1.05196 1.33940 1.25610 0.68925 1.20781
0.83540 0.95241 0.95208 1.44334 1.02629 1.65705 1.20122 1.19480
0.95228 1.36479 0.86787 0.90879 1.25789 0.99124 1.01127 0.98949
1.70154 1.25115 1.46296 1.16420 0.85417 0.79258 0.78078 0.78699
1.22285 1.22044 1.18769 0.94385 0.90297 0.93606 0.93080 0.88735
0.90940 0.89681 0.75019 0.85779 0.87184 0.93156 0.91954 0.90382
0.90575 0.88012 0.88645 0.77466 0.93803 0.98608 0.94643
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 16.
Note: The number of geometries may not
correspond to the number of cycles due to rejected geometry changes.
In the following table subtotal= G_P + SS G_CDS.
Atom Chem. CM2 G_P Area Sigma k SS G_CDS Subtotal M
number symbol chg. (kcal) (Ang**2) cal/(Ang**2) (kcal) (kcal) value
1 C -0.13 -4.61 7.95 71.98 0.57 -4.04 16
2 C 0.15 5.98 3.49 44.97 0.16 6.14 16
3 H 0.02 0.84 8.14 -2.39 -0.02 0.82 16
4 C -0.12 -3.59 5.38 30.67 0.16 -3.43 16
5 C -0.11 -3.02 5.36 30.62 0.16 -2.85 16
6 C 0.13 4.89 2.60 45.07 0.12 5.01 16
7 H 0.05 2.07 7.57 -2.39 -0.02 2.06 16
8 N -0.71 -20.85 5.08 -442.17 -2.25 -23.10 16
9 C 0.50 15.49 7.80 87.66 0.68 16.17 16
10 O -0.59 -25.70 15.64 -3.04 -0.05 -25.75 16
11 C -0.13 -2.30 5.70 29.85 0.17 -2.13 16
12 C -0.10 -1.79 4.50 30.59 0.14 -1.65 16
13 C -0.10 -1.05 5.20 30.59 0.16 -0.89 16
14 C -0.05 -0.43 5.78 29.85 0.17 -0.26 16
15 C 0.01 0.17 6.56 41.35 0.27 0.44 16
16 C -0.06 -1.05 11.99 83.73 1.00 -0.05 16
17 N -0.30 -7.08 12.41 -58.26 -0.72 -7.80 16
18 N -0.12 -2.42 13.38 37.02 0.50 -1.92 16
19 N -0.38 -4.78 6.98 -47.79 -0.33 -5.11 16
20 H 0.46 2.29 8.96 -219.95 -1.97 0.32 16
21 C 0.18 8.82 4.87 86.36 0.42 9.24 16
22 N -0.60 -30.26 2.99 -675.25 -2.02 -32.28 16
23 C -0.25 -13.89 8.60 84.03 0.72 -13.16 16
24 H 0.07 3.94 6.21 -2.91 -0.02 3.92 16
25 C -0.05 -3.19 4.96 84.86 0.42 -2.77 16
26 N -0.93 -57.32 11.14 21.65 0.24 -57.08 16
27 Si 0.96 47.18 29.58 68.60 2.03 49.20 16
28 H -0.30 -14.83 7.11 99.48 0.71 -14.12 16
29 H -0.29 -14.46 7.11 99.48 0.71 -13.75 16
30 H -0.26 -12.14 7.11 99.48 0.71 -11.43 16
31 H 0.04 1.50 7.62 -2.39 -0.02 1.48 16
32 H 0.08 2.15 8.14 -2.39 -0.02 2.13 16
33 H 0.04 1.68 7.44 -2.39 -0.02 1.66 16
34 H 0.05 1.66 8.14 -2.39 -0.02 1.64 16
35 H 0.09 2.18 8.14 -2.39 -0.02 2.16 16
36 H 0.07 1.89 8.14 -2.39 -0.02 1.87 16
37 H 0.08 1.89 8.14 -2.39 -0.02 1.87 16
38 H 0.41 8.43 8.60 -92.71 -0.80 7.63 16
39 H 0.12 1.36 8.14 -2.39 -0.02 1.34 16
40 H 0.11 1.64 8.14 -2.39 -0.02 1.62 16
41 H 0.05 1.15 8.10 -2.38 -0.02 1.14 16
42 H 0.06 1.20 8.10 -2.39 -0.02 1.19 16
43 H 0.08 0.60 8.14 -2.38 -0.02 0.58 16
44 H 0.08 0.76 8.14 -2.39 -0.02 0.75 16
45 H 0.10 0.96 8.14 -2.39 -0.02 0.94 16
46 H 0.10 0.64 8.14 -2.39 -0.02 0.62 16
47 H 0.21 2.44 8.06 -2.91 -0.02 2.41 16
48 H 0.04 2.61 6.06 -2.39 -0.01 2.59 16
49 H 0.00 -0.21 8.14 -2.39 -0.02 -0.23 16
50 H 0.24 14.72 8.31 -92.71 -0.77 13.95 16
Total: -1.00 -83.85 400.14 0.91 -82.94
By element:
Atomic # 1 Polarization: 16.95 SS G_CDS: -1.82 Total: 15.13 kcal
Atomic # 6 Polarization: 0.44 SS G_CDS: 5.34 Total: 5.78 kcal
Atomic # 7 Polarization: -122.72 SS G_CDS: -4.59 Total: -127.30 kcal
Atomic # 8 Polarization: -25.70 SS G_CDS: -0.05 Total: -25.75 kcal
Atomic # 14 Polarization: 47.18 SS G_CDS: 2.03 Total: 49.20 kcal
Total: -83.85 0.91 -82.94 kcal
The number of atoms in the molecule is 50
The average number of expansion shells was 16.00
The maximum number of expansion shells was 16
The minimum number of expansion shells was 16
**** NOTA BENE ****
This is the net solvation energy for this exact molecular structure
(nuclear and electronic)! The standard-state solvation energy should be
obtained as the difference between the heat of formation plus delta-G solvation
for the relaxed solvated system and that for the relaxed gas-phase system.
ZINC001132212421.mol2 50
1SCF run
This is a breakdown of the solvation energy calculated
without geometric relaxation in solution:
(1) E-EN(sol) electronic-nuclear energy of solute 109.825 kcal
(2) G-P(sol) polarization free energy of solvation -83.852 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 25.974 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.913 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -82.939 kcal
(6) G-S(sol) free energy of system = (1) + (5) 26.887 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.20 seconds