Wall clock time and date at job start Sat Apr 11 2020 06:36:36
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 N
2 2 C 1.31512 * 1
3 3 Si 1.86798 * 119.99720 * 2 1
4 4 H 1.48496 * 109.47176 * 269.99611 * 3 2 1
5 5 H 1.48496 * 109.47395 * 29.99764 * 3 2 1
6 6 H 1.48503 * 109.46988 * 149.99820 * 3 2 1
7 7 C 1.37881 * 120.00051 * 179.97438 * 2 1 3
8 8 H 1.07997 * 119.99661 * 0.02562 * 7 2 1
9 9 C 1.50699 * 119.99822 * 180.02562 * 7 2 1
10 10 C 1.52998 * 109.47031 * 180.02562 * 9 7 2
11 11 H 1.08994 * 109.47080 * 54.99898 * 10 9 7
12 12 N 1.46500 * 109.47169 * 295.00144 * 10 9 7
13 13 C 1.34779 * 120.00165 * 154.99751 * 12 10 9
14 14 O 1.21346 * 119.99870 * 0.02562 * 13 12 10
15 15 C 1.49452 * 120.00089 * 179.97438 * 13 12 10
16 16 O 1.21353 * 119.99678 * 0.02562 * 15 13 12
17 17 N 1.34769 * 120.00161 * 179.97438 * 15 13 12
18 18 C 1.46500 * 120.00237 * 180.02562 * 17 15 13
19 19 C 1.50706 * 109.46949 * 180.02562 * 18 17 15
20 20 C 1.30528 * 124.44598 * 94.70006 * 19 18 17
21 21 C 1.51097 * 111.10279 * 179.87578 * 20 19 18
22 22 C 1.54634 * 104.78240 * 343.93324 * 21 20 19
23 23 C 1.51092 * 124.44730 * 274.99770 * 19 18 17
24 24 C 1.50697 * 109.47139 * 175.00224 * 10 9 7
25 25 C 1.38239 * 120.00097 * 79.72608 * 24 10 9
26 26 C 1.38239 * 119.99890 * 179.78962 * 25 24 10
27 27 C 1.38236 * 119.99660 * 0.43653 * 26 25 24
28 28 C 1.38232 * 120.00525 * 359.82143 * 27 26 25
29 29 C 1.38232 * 119.99808 * 359.96553 * 28 27 26
30 30 H 0.97003 * 120.00473 * 0.02562 * 1 2 3
31 31 H 1.09004 * 109.46720 * 60.00407 * 9 7 2
32 32 H 1.09000 * 109.47092 * 300.00203 * 9 7 2
33 33 H 0.97004 * 120.00364 * 334.99651 * 12 10 9
34 34 H 0.97010 * 119.99854 * 0.02562 * 17 15 13
35 35 H 1.09000 * 109.46609 * 60.00363 * 18 17 15
36 36 H 1.09000 * 109.47175 * 300.00158 * 18 17 15
37 37 H 1.07997 * 124.44921 * 0.02562 * 20 19 18
38 38 H 1.09000 * 110.52949 * 225.01972 * 21 20 19
39 39 H 1.09000 * 110.19468 * 102.68141 * 21 20 19
40 40 H 1.08998 * 111.03849 * 266.40439 * 22 21 20
41 41 H 1.09004 * 111.04060 * 142.46896 * 22 21 20
42 42 H 1.09005 * 110.39123 * 315.23123 * 23 19 18
43 43 H 1.09003 * 110.39088 * 77.60506 * 23 19 18
44 44 H 1.07992 * 120.00068 * 0.02562 * 25 24 10
45 45 H 1.08000 * 119.99787 * 180.27584 * 26 25 24
46 46 H 1.08008 * 119.99445 * 179.83602 * 27 26 25
47 47 H 1.07995 * 120.00141 * 180.02562 * 28 27 26
48 48 H 1.08003 * 119.99979 * 180.02562 * 29 28 27
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 7 0.0000 0.0000 0.0000
2 6 1.3151 0.0000 0.0000
3 14 2.2490 1.6178 0.0000
4 1 2.4966 2.0464 -1.4000
5 1 1.4465 2.6527 0.7000
6 1 3.5466 1.4402 0.7001
7 6 2.0045 -1.1941 0.0005
8 1 1.4645 -2.1293 0.0005
9 6 3.5115 -1.1940 0.0011
10 6 4.0216 -2.6365 0.0010
11 1 3.5873 -3.1753 -0.8410
12 7 3.6335 -3.2918 1.2525
13 6 3.5066 -4.6327 1.2999
14 8 3.7143 -5.2973 0.3061
15 6 3.1113 -5.3013 2.5768
16 8 2.9041 -4.6366 3.5707
17 7 2.9839 -6.6421 2.6241
18 6 2.5959 -7.2974 3.8756
19 6 2.5257 -8.7875 3.6616
20 6 3.5014 -9.6166 3.9154
21 6 3.1047 -11.0385 3.5933
22 6 1.5631 -11.0015 3.4775
23 6 1.3190 -9.5171 3.1190
24 6 5.5235 -2.6382 -0.1222
25 6 6.3084 -2.3916 0.9887
26 6 7.6862 -2.3976 0.8765
27 6 8.2789 -2.6411 -0.3483
28 6 7.4939 -2.8824 -1.4603
29 6 6.1163 -2.8809 -1.3473
30 1 -0.4851 0.8400 -0.0004
31 1 3.8744 -0.6800 0.8912
32 1 3.8752 -0.6803 -0.8888
33 1 3.4679 -2.7606 2.0471
34 1 3.1492 -7.1733 1.8294
35 1 1.6198 -6.9289 4.1911
36 1 3.3344 -7.0757 4.6460
37 1 4.4648 -9.3249 4.3067
38 1 3.4091 -11.7113 4.3951
39 1 3.5492 -11.3481 2.6474
40 1 1.0931 -11.2571 4.4271
41 1 1.2146 -11.6588 2.6809
42 1 0.4092 -9.1554 3.5983
43 1 1.2545 -9.3932 2.0380
44 1 5.8453 -2.1982 1.9449
45 1 8.2995 -2.2093 1.7454
46 1 9.3554 -2.6431 -0.4365
47 1 7.9570 -3.0731 -2.4171
48 1 5.5029 -3.0698 -2.2159
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
ZINC001328149347.mol2 48
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Sat Apr 11 2020 06:36:36
Heat of formation + Delta-G solvation = -56.567367 kcal
Electronic energy + Delta-G solvation = -28995.002753 eV
Core-core repulsion = 25013.751896 eV
Total energy + Delta-G solvation = -3981.250857 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 342.173 amu
Computer time = 0.82 seconds
Orbital eigenvalues (eV)
-41.83035 -40.51202 -39.70677 -39.18424 -37.10243 -35.87229 -34.70003 -32.73237
-31.72075 -31.20780 -31.00742 -29.32982 -27.61772 -26.50632 -24.49786 -23.63608
-23.25470 -21.79795 -21.68664 -21.26927 -20.05585 -19.09012 -18.76165 -18.08429
-17.66061 -17.07228 -16.88266 -16.72796 -16.36213 -16.27919 -16.06172 -15.70903
-15.32528 -15.20529 -14.85314 -14.60798 -14.40075 -14.20032 -14.08432 -13.85589
-13.60493 -13.58433 -13.09330 -12.88815 -12.80727 -12.59834 -12.56235 -12.42202
-12.22275 -12.04841 -11.96068 -11.94425 -11.78976 -11.75154 -11.46704 -10.84224
-10.74787 -10.38575 -10.21698 -9.78614 -9.77825 -9.58138 -8.29307 -6.34609
0.32800 0.45454 0.54032 0.85636 1.36655 1.38247 1.49139 1.59927
2.13889 2.34948 2.71640 2.95801 3.06955 3.46011 3.51895 3.63063
3.85777 3.99326 4.12837 4.19181 4.20311 4.28459 4.33297 4.34606
4.45036 4.52336 4.56274 4.69858 4.74209 4.84169 4.86120 4.93509
4.99256 5.01627 5.08700 5.10642 5.16048 5.18606 5.19500 5.36602
5.38171 5.53606 5.53839 5.62979 5.63483 5.73942 5.85719 5.95529
6.15491 6.22497 6.36265 6.70046 6.72484 6.94333 7.29464 8.87122
Molecular weight = 342.17amu
Principal moments of inertia in cm(-1)
A = 0.009599 B = 0.002985 C = 0.002439
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2916.180411 B = 9376.843721 C =11477.588624
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.947 5.947
2 C 0.011 3.989
3 Si 0.946 3.054
4 H -0.267 1.267
5 H -0.286 1.286
6 H -0.243 1.243
7 C -0.523 4.523
8 H 0.032 0.968
9 C -0.006 4.006
10 C 0.203 3.797
11 H 0.072 0.928
12 N -0.668 5.668
13 C 0.503 3.497
14 O -0.548 6.548
15 C 0.511 3.489
16 O -0.542 6.542
17 N -0.684 5.684
18 C 0.168 3.832
19 C -0.175 4.175
20 C -0.124 4.124
21 C -0.103 4.103
22 C -0.121 4.121
23 C -0.098 4.098
24 C -0.103 4.103
25 C -0.123 4.123
26 C -0.124 4.124
27 C -0.124 4.124
28 C -0.121 4.121
29 C -0.124 4.124
30 H 0.266 0.734
31 H 0.034 0.966
32 H 0.039 0.961
33 H 0.413 0.587
34 H 0.417 0.583
35 H 0.073 0.927
36 H 0.082 0.918
37 H 0.135 0.865
38 H 0.087 0.913
39 H 0.085 0.915
40 H 0.077 0.923
41 H 0.083 0.917
42 H 0.069 0.931
43 H 0.072 0.928
44 H 0.117 0.883
45 H 0.144 0.856
46 H 0.152 0.848
47 H 0.147 0.853
48 H 0.121 0.879
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 14.251 -18.101 6.181 23.853
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 N -0.587 5.587
2 C -0.187 4.187
3 Si 0.769 3.231
4 H -0.193 1.193
5 H -0.212 1.212
6 H -0.166 1.166
7 C -0.561 4.561
8 H 0.050 0.950
9 C -0.044 4.044
10 C 0.098 3.902
11 H 0.090 0.910
12 N -0.318 5.318
13 C 0.284 3.716
14 O -0.427 6.427
15 C 0.291 3.709
16 O -0.419 6.419
17 N -0.337 5.337
18 C 0.046 3.954
19 C -0.176 4.176
20 C -0.143 4.143
21 C -0.140 4.140
22 C -0.159 4.159
23 C -0.135 4.135
24 C -0.104 4.104
25 C -0.142 4.142
26 C -0.142 4.142
27 C -0.142 4.142
28 C -0.139 4.139
29 C -0.142 4.142
30 H 0.075 0.925
31 H 0.053 0.947
32 H 0.057 0.943
33 H 0.250 0.750
34 H 0.254 0.746
35 H 0.091 0.909
36 H 0.101 0.899
37 H 0.152 0.848
38 H 0.105 0.895
39 H 0.103 0.897
40 H 0.095 0.905
41 H 0.101 0.899
42 H 0.088 0.912
43 H 0.090 0.910
44 H 0.135 0.865
45 H 0.162 0.838
46 H 0.169 0.831
47 H 0.165 0.835
48 H 0.139 0.861
Dipole moment (debyes) X Y Z Total
from point charges 14.070 -17.987 6.198 23.663
hybrid contribution -0.693 1.034 -0.115 1.250
sum 13.377 -16.953 6.083 22.436
Atomic orbital electron populations
1.70061 1.08329 1.28134 1.52221 1.25918 0.95491 1.03232 0.94028
0.85730 0.79656 0.78510 0.79209 1.19254 1.21235 1.16642 1.21203
0.91052 0.93078 1.50806 0.95001 1.19763 0.94624 0.91718 0.98287
1.19790 0.90077 0.94534 0.85752 0.91038 1.45751 1.65533 1.05829
1.14686 1.20254 0.78751 0.83705 0.88917 1.90689 1.50929 1.64440
1.36597 1.20072 0.78675 0.83942 0.88168 1.90749 1.49951 1.64713
1.36479 1.45812 1.67260 1.05162 1.15452 1.20143 1.01363 0.88846
0.85063 1.21896 0.98442 0.92993 1.04238 1.23593 0.98136 0.95921
0.96652 1.21451 0.95812 0.94027 1.02691 1.22458 0.95771 0.95083
1.02560 1.21350 0.96178 0.95224 1.00734 1.20291 0.94687 1.00318
0.95120 1.21093 0.94720 1.00367 0.97989 1.21420 0.93926 0.99798
0.99053 1.21501 1.01153 0.99218 0.92286 1.21415 0.92711 0.99572
1.00163 1.21194 0.96159 1.00134 0.96748 0.92495 0.94737 0.94300
0.75033 0.74554 0.90912 0.89942 0.84758 0.89475 0.89668 0.90473
0.89856 0.91223 0.90982 0.86537 0.83786 0.83070 0.83523 0.86126
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 15.
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 N -0.95 -59.17 13.96 21.45 0.30 -58.87 16
2 C 0.01 0.62 5.47 84.66 0.46 1.08 16
3 Si 0.95 43.51 27.47 68.60 1.88 45.39 16
4 H -0.27 -11.88 7.11 99.48 0.71 -11.18 16
5 H -0.29 -13.09 7.11 99.48 0.71 -12.38 16
6 H -0.24 -10.27 6.54 99.48 0.65 -9.62 16
7 C -0.52 -29.45 9.39 25.60 0.24 -29.21 16
8 H 0.03 2.02 7.99 -2.91 -0.02 1.99 16
9 C -0.01 -0.29 3.56 29.85 0.11 -0.18 16
10 C 0.20 8.25 2.11 44.24 0.09 8.34 16
11 H 0.07 3.21 7.44 -2.39 -0.02 3.20 16
12 N -0.67 -26.32 4.03 -447.44 -1.81 -28.13 16
13 C 0.50 19.16 7.85 87.27 0.68 19.84 16
14 O -0.55 -22.22 16.14 -3.24 -0.05 -22.27 16
15 C 0.51 17.35 7.89 87.27 0.69 18.04 16
16 O -0.54 -20.56 16.48 -3.26 -0.05 -20.61 16
17 N -0.68 -18.06 5.54 -468.14 -2.59 -20.65 16
18 C 0.17 3.64 6.10 85.63 0.52 4.16 16
19 C -0.18 -3.01 5.53 -15.88 -0.09 -3.10 16
20 C -0.12 -1.76 10.59 26.26 0.28 -1.48 16
21 C -0.10 -1.13 6.81 30.53 0.21 -0.92 16
22 C -0.12 -1.40 7.19 31.71 0.23 -1.17 16
23 C -0.10 -1.53 6.76 30.53 0.21 -1.33 16
24 C -0.10 -3.58 4.91 -19.86 -0.10 -3.68 16
25 C -0.12 -3.80 9.32 22.27 0.21 -3.60 16
26 C -0.12 -3.06 10.05 22.27 0.22 -2.84 16
27 C -0.12 -2.74 10.05 22.27 0.22 -2.51 16
28 C -0.12 -2.96 10.05 22.27 0.22 -2.74 16
29 C -0.12 -3.85 9.67 22.27 0.22 -3.63 16
30 H 0.27 15.55 8.31 -92.71 -0.77 14.78 16
31 H 0.03 1.52 7.20 -2.38 -0.02 1.50 16
32 H 0.04 1.73 7.57 -2.39 -0.02 1.71 16
33 H 0.41 16.17 8.07 -92.71 -0.75 15.42 16
34 H 0.42 10.26 7.94 -92.70 -0.74 9.52 16
35 H 0.07 1.70 8.14 -2.39 -0.02 1.68 16
36 H 0.08 1.73 8.12 -2.39 -0.02 1.71 16
37 H 0.13 1.66 8.06 -2.91 -0.02 1.64 16
38 H 0.09 0.74 8.14 -2.39 -0.02 0.72 16
39 H 0.09 0.87 8.14 -2.39 -0.02 0.85 16
40 H 0.08 0.81 8.14 -2.39 -0.02 0.79 16
41 H 0.08 0.81 8.14 -2.38 -0.02 0.79 16
42 H 0.07 1.11 8.14 -2.38 -0.02 1.09 16
43 H 0.07 1.19 8.14 -2.39 -0.02 1.17 16
44 H 0.12 3.53 7.73 -2.91 -0.02 3.51 16
45 H 0.14 2.71 8.06 -2.91 -0.02 2.68 16
46 H 0.15 2.27 8.06 -2.91 -0.02 2.25 16
47 H 0.15 2.69 8.06 -2.91 -0.02 2.67 16
48 H 0.12 3.66 8.04 -2.91 -0.02 3.64 16
Total: -1.00 -71.67 405.29 1.75 -69.92
By element:
Atomic # 1 Polarization: 40.70 SS G_CDS: -0.56 Total: 40.14 kcal
Atomic # 6 Polarization: -9.55 SS G_CDS: 4.63 Total: -4.92 kcal
Atomic # 7 Polarization: -103.55 SS G_CDS: -4.10 Total: -107.65 kcal
Atomic # 8 Polarization: -42.78 SS G_CDS: -0.11 Total: -42.88 kcal
Atomic # 14 Polarization: 43.51 SS G_CDS: 1.88 Total: 45.39 kcal
Total: -71.67 1.75 -69.92 kcal
The number of atoms in the molecule is 48
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.
ZINC001328149347.mol2 48
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 13.357 kcal
(2) G-P(sol) polarization free energy of solvation -71.670 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -58.313 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.745 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.925 kcal
(6) G-S(sol) free energy of system = (1) + (5) -56.567 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.82 seconds