Wall clock time and date at job start Wed Apr 1 2020 05:11:20
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 1.31513 * 1
3 3 Si 1.86804 * 120.00162 * 2 1
4 4 H 1.48496 * 109.47048 * 180.02562 * 3 2 1
5 5 H 1.48501 * 109.47228 * 300.00561 * 3 2 1
6 6 H 1.48503 * 109.47075 * 60.00226 * 3 2 1
7 7 C 1.37881 * 119.99961 * 180.02562 * 2 1 3
8 8 H 1.08000 * 119.99559 * 172.03596 * 7 2 1
9 9 C 1.50694 * 119.99961 * 352.04027 * 7 2 1
10 10 C 1.53003 * 115.55139 * 89.33420 * 9 7 2
11 11 S 1.81404 * 109.47289 * 40.12661 * 10 9 7
12 12 O 1.42098 * 110.54189 * 283.93179 * 11 10 9
13 13 O 1.42101 * 110.54123 * 60.68272 * 11 10 9
14 14 N 1.65596 * 104.45011 * 172.30579 * 11 10 9
15 15 C 1.46506 * 119.99925 * 64.99974 * 14 11 10
16 16 C 1.52997 * 109.47289 * 164.99625 * 15 14 11
17 17 C 1.52995 * 109.47110 * 180.02562 * 16 15 14
18 18 O 1.42905 * 109.46906 * 180.02562 * 17 16 15
19 19 C 1.42900 * 114.00051 * 179.97438 * 18 17 16
20 20 H 1.09005 * 109.48247 * 310.03002 * 19 18 17
21 21 C 1.53083 * 109.48352 * 189.99881 * 19 18 17
22 22 C 1.53174 * 109.16540 * 182.41096 * 21 19 18
23 23 C 1.53181 * 109.03899 * 56.98289 * 22 21 19
24 24 C 1.53091 * 109.15832 * 303.02184 * 23 22 21
25 25 O 1.42899 * 109.41914 * 57.60465 * 24 23 22
26 26 C 1.52997 * 117.51712 * 235.03155 * 9 7 2
27 27 C 1.52997 * 117.50039 * 303.66110 * 9 7 2
28 28 H 0.96993 * 119.99712 * 5.00712 * 1 2 3
29 29 H 1.08995 * 109.47298 * 160.12964 * 10 9 7
30 30 H 1.08998 * 109.47078 * 280.12846 * 10 9 7
31 31 H 0.96996 * 120.00353 * 245.00476 * 14 11 10
32 32 H 1.08995 * 109.47468 * 285.00371 * 15 14 11
33 33 H 1.09001 * 109.46805 * 44.99694 * 15 14 11
34 34 H 1.09004 * 109.47283 * 300.00834 * 16 15 14
35 35 H 1.09006 * 109.46451 * 60.00120 * 16 15 14
36 36 H 1.09002 * 109.47277 * 299.99706 * 17 16 15
37 37 H 1.08997 * 109.47300 * 60.00463 * 17 16 15
38 38 H 1.08997 * 109.52617 * 302.32006 * 21 19 18
39 39 H 1.09001 * 109.52096 * 62.50343 * 21 19 18
40 40 H 1.09006 * 109.54547 * 176.84711 * 22 21 19
41 41 H 1.09007 * 109.54712 * 297.11535 * 22 21 19
42 42 H 1.09000 * 109.52066 * 62.92133 * 23 22 21
43 43 H 1.08998 * 109.52502 * 183.11471 * 23 22 21
44 44 H 1.09005 * 109.48110 * 177.59240 * 24 23 22
45 45 H 1.09001 * 109.48303 * 297.61137 * 24 23 22
46 46 H 1.09006 * 117.50002 * 214.97200 * 26 9 7
47 47 H 1.08999 * 117.49899 * 359.97438 * 26 9 7
48 48 H 1.09007 * 117.49625 * 359.97438 * 27 9 7
49 49 H 1.09001 * 117.50106 * 144.97312 * 27 9 7
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 2.2492 1.6177 0.0000
4 1 3.7091 1.3463 -0.0006
5 1 1.8904 2.3965 -1.2124
6 1 1.8905 2.3964 1.2126
7 6 2.0045 -1.1941 -0.0005
8 1 3.0767 -1.1985 -0.1301
9 6 1.2619 -2.4929 0.1796
10 6 0.7574 -3.1486 -1.1074
11 16 2.0144 -2.9810 -2.4045
12 8 2.0242 -1.6573 -2.9213
13 8 3.2202 -3.6250 -2.0165
14 7 1.4430 -3.9035 -3.6554
15 6 0.2030 -3.5252 -4.3377
16 6 0.0930 -4.2910 -5.6576
17 6 -1.2017 -3.8955 -6.3704
18 8 -1.3047 -4.6113 -7.6030
19 6 -2.4853 -4.3137 -8.3511
20 1 -3.3572 -4.3955 -7.7020
21 6 -2.6176 -5.3035 -9.5113
22 6 -3.8517 -4.9411 -10.3432
23 6 -3.7211 -3.4934 -10.8263
24 6 -3.5461 -2.5734 -9.6152
25 8 -2.3992 -2.9843 -8.8683
26 6 1.7172 -3.4164 1.3113
27 6 0.4010 -2.6462 1.4350
28 1 -0.4849 0.8368 -0.0733
29 1 0.5626 -4.2053 -0.9247
30 1 -0.1626 -2.6597 -1.4278
31 1 1.9292 -4.6944 -3.9363
32 1 -0.6495 -3.7691 -3.7039
33 1 0.2113 -2.4539 -4.5388
34 1 0.9456 -4.0470 -6.2915
35 1 0.0847 -5.3623 -5.4564
36 1 -2.0545 -4.1393 -5.7368
37 1 -1.1930 -2.8243 -6.5716
38 1 -1.7275 -5.2511 -10.1382
39 1 -2.7277 -6.3139 -9.1173
40 1 -3.9204 -5.6076 -11.2030
41 1 -4.7473 -5.0415 -9.7299
42 1 -2.8532 -3.4044 -11.4797
43 1 -4.6204 -3.2092 -11.3727
44 1 -3.4098 -1.5468 -9.9553
45 1 -4.4320 -2.6323 -8.9829
46 1 1.6572 -4.4910 1.1390
47 1 2.5543 -3.0847 1.9256
48 1 0.3720 -1.8077 2.1309
49 1 -0.5252 -3.2138 1.3440
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).
S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990)
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
ZINC000451484255.mol2 49
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 05:11:20
Heat of formation + Delta-G solvation = -184.254101 kcal
Electronic energy + Delta-G solvation = -28841.406839 eV
Core-core repulsion = 24701.888307 eV
Total energy + Delta-G solvation = -4139.518532 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 347.165 amu
Computer time = 0.99 seconds
Orbital eigenvalues (eV)
-40.65714 -38.52499 -38.42060 -37.84602 -36.82806 -36.56579 -34.67202 -34.08445
-32.57844 -30.89925 -29.86647 -27.50194 -26.40656 -25.25427 -24.17640 -22.93360
-22.76946 -21.48376 -21.19725 -20.15147 -18.53643 -18.50216 -18.09975 -17.82649
-17.22917 -16.89939 -16.75453 -16.55607 -16.31297 -15.79932 -15.72021 -15.40026
-15.16386 -14.88630 -14.71965 -14.55630 -13.91660 -13.80347 -13.73121 -13.68985
-13.51613 -13.03933 -12.90126 -12.85767 -12.82452 -12.64736 -12.49819 -12.43500
-12.33984 -12.15192 -12.05840 -12.00704 -11.85624 -11.82806 -11.54889 -11.46392
-10.87010 -10.80906 -10.53080 -10.48067 -10.39213 -9.87176 -8.22935 -6.39583
-0.42064 1.34198 1.39371 1.48309 2.07320 2.35246 2.39104 2.97012
3.04833 3.09368 3.37580 3.60178 3.78684 3.84477 3.89383 3.94109
3.98825 3.99322 4.05602 4.12287 4.25916 4.35306 4.42735 4.49217
4.55936 4.59959 4.62312 4.62675 4.66981 4.75822 4.80960 4.85305
4.87441 5.01353 5.01663 5.08581 5.10699 5.13158 5.21712 5.25246
5.33606 5.43558 5.64367 5.69074 6.00267 6.20526 6.22093 6.29765
6.69663 7.37249 8.83860
Molecular weight = 347.16amu
Principal moments of inertia in cm(-1)
A = 0.015517 B = 0.002220 C = 0.002095
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1804.079038 B =12611.418856 C =13363.681502
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.882 5.882
2 C 0.056 3.944
3 Si 0.927 3.073
4 H -0.273 1.273
5 H -0.278 1.278
6 H -0.267 1.267
7 C -0.555 4.555
8 H 0.046 0.954
9 C 0.010 3.990
10 C -0.554 4.554
11 S 2.634 3.366
12 O -0.992 6.992
13 O -1.003 7.003
14 N -1.119 6.119
15 C 0.112 3.888
16 C -0.114 4.114
17 C 0.061 3.939
18 O -0.383 6.383
19 C 0.246 3.754
20 H 0.066 0.934
21 C -0.139 4.139
22 C -0.118 4.118
23 C -0.158 4.158
24 C 0.062 3.938
25 O -0.434 6.434
26 C -0.191 4.191
27 C -0.137 4.137
28 H 0.267 0.733
29 H 0.139 0.861
30 H 0.125 0.875
31 H 0.422 0.578
32 H 0.088 0.912
33 H 0.064 0.936
34 H 0.070 0.930
35 H 0.095 0.905
36 H 0.073 0.927
37 H 0.050 0.950
38 H 0.067 0.933
39 H 0.090 0.910
40 H 0.088 0.912
41 H 0.077 0.923
42 H 0.064 0.936
43 H 0.097 0.903
44 H 0.102 0.898
45 H 0.063 0.937
46 H 0.102 0.898
47 H 0.078 0.922
48 H 0.063 0.937
49 H 0.088 0.912
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -12.840 -12.537 -18.689 25.910
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 -0.517 5.517
2 C -0.149 4.149
3 Si 0.753 3.247
4 H -0.198 1.198
5 H -0.204 1.204
6 H -0.192 1.192
7 C -0.593 4.593
8 H 0.065 0.935
9 C 0.008 3.992
10 C -0.687 4.687
11 S 2.732 3.268
12 O -0.981 6.981
13 O -0.993 6.993
14 N -0.880 5.880
15 C -0.014 4.014
16 C -0.153 4.153
17 C -0.016 4.016
18 O -0.302 6.302
19 C 0.151 3.849
20 H 0.083 0.917
21 C -0.177 4.177
22 C -0.155 4.155
23 C -0.195 4.195
24 C -0.014 4.014
25 O -0.357 6.357
26 C -0.228 4.228
27 C -0.176 4.176
28 H 0.076 0.924
29 H 0.158 0.842
30 H 0.144 0.856
31 H 0.258 0.742
32 H 0.106 0.894
33 H 0.083 0.917
34 H 0.089 0.911
35 H 0.114 0.886
36 H 0.091 0.909
37 H 0.069 0.931
38 H 0.085 0.915
39 H 0.109 0.891
40 H 0.107 0.893
41 H 0.096 0.904
42 H 0.083 0.917
43 H 0.116 0.884
44 H 0.120 0.880
45 H 0.081 0.919
46 H 0.120 0.880
47 H 0.096 0.904
48 H 0.082 0.918
49 H 0.106 0.894
Dipole moment (debyes) X Y Z Total
from point charges -11.988 -11.775 -18.642 25.097
hybrid contribution -0.086 0.785 0.257 0.830
sum -12.073 -10.990 -18.385 24.588
Atomic orbital electron populations
1.69993 1.06536 1.27847 1.47344 1.25438 0.95553 1.01424 0.92444
0.85974 0.79662 0.80957 0.78131 1.19772 1.20374 1.19161 1.20762
0.93139 0.90993 1.54388 0.93543 1.18351 1.00839 0.94076 0.85908
1.29853 1.16555 1.08484 1.13795 1.03970 0.75404 0.72751 0.74716
1.93467 1.87033 1.39433 1.78197 1.93439 1.44875 1.76869 1.84147
1.55515 1.37202 1.44325 1.50956 1.21282 0.85995 0.99800 0.94360
1.21562 0.97465 1.01957 0.94286 1.22472 0.98400 0.96098 0.84587
1.87950 1.44669 1.63909 1.33715 1.23214 0.87281 0.82989 0.91414
0.91690 1.22046 1.00118 0.99250 0.96248 1.21622 0.96817 0.96735
1.00316 1.22240 1.03654 0.95489 0.98124 1.22757 0.87223 0.99285
0.92156 1.87801 1.43725 1.32433 1.71709 1.23230 0.98277 0.97191
1.04137 1.22430 0.93206 1.00584 1.01343 0.92408 0.84249 0.85636
0.74202 0.89363 0.91717 0.91096 0.88622 0.90920 0.93125 0.91466
0.89141 0.89321 0.90394 0.91680 0.88412 0.88016 0.91856 0.87974
0.90356 0.91844 0.89370
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 18.
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 -0.88 -48.93 12.78 21.45 0.27 -48.66 16
2 C 0.06 3.15 5.35 84.66 0.45 3.60 16
3 Si 0.93 45.30 29.55 68.60 2.03 47.33 16
4 H -0.27 -13.44 7.11 99.48 0.71 -12.73 16
5 H -0.28 -13.51 7.11 99.48 0.71 -12.80 16
6 H -0.27 -12.23 7.11 99.48 0.71 -11.52 16
7 C -0.56 -31.06 7.00 25.60 0.18 -30.88 16
8 H 0.05 2.73 7.83 -2.91 -0.02 2.71 16
9 C 0.01 0.49 1.71 -52.93 -0.09 0.40 16
10 C -0.55 -21.99 6.18 71.98 0.44 -21.54 16
11 S 2.63 109.25 4.60 -56.49 -0.26 108.99 16
12 O -0.99 -50.15 16.74 -127.65 -2.14 -52.29 16
13 O -1.00 -46.29 18.08 -127.65 -2.31 -48.59 16
14 N -1.12 -32.44 5.89 -187.49 -1.10 -33.55 16
15 C 0.11 2.81 6.13 86.38 0.53 3.34 16
16 C -0.11 -2.37 5.73 30.59 0.18 -2.20 16
17 C 0.06 1.28 5.81 71.98 0.42 1.70 16
18 O -0.38 -8.67 10.25 -126.21 -1.29 -9.97 16
19 C 0.25 4.60 3.16 72.01 0.23 4.83 16
20 H 0.07 1.02 8.09 -2.38 -0.02 1.00 16
21 C -0.14 -1.94 5.79 30.68 0.18 -1.77 16
22 C -0.12 -1.07 6.03 30.71 0.19 -0.89 16
23 C -0.16 -1.56 6.14 30.69 0.19 -1.37 16
24 C 0.06 0.84 6.84 72.01 0.49 1.33 16
25 O -0.43 -9.39 10.25 -126.21 -1.29 -10.69 16
26 C -0.19 -7.99 9.88 30.59 0.30 -7.69 16
27 C -0.14 -6.06 9.25 30.59 0.28 -5.77 16
28 H 0.27 14.05 8.32 -92.71 -0.77 13.28 16
29 H 0.14 4.26 7.95 -2.39 -0.02 4.24 16
30 H 0.13 4.98 8.14 -2.39 -0.02 4.96 16
31 H 0.42 10.04 8.62 -96.75 -0.83 9.21 16
32 H 0.09 1.80 8.14 -2.39 -0.02 1.79 16
33 H 0.06 1.89 7.69 -2.39 -0.02 1.87 16
34 H 0.07 1.61 8.14 -2.38 -0.02 1.59 16
35 H 0.10 1.64 8.14 -2.38 -0.02 1.62 16
36 H 0.07 1.22 8.14 -2.39 -0.02 1.20 16
37 H 0.05 1.19 7.89 -2.39 -0.02 1.17 16
38 H 0.07 1.12 8.14 -2.39 -0.02 1.10 16
39 H 0.09 1.07 8.14 -2.39 -0.02 1.05 16
40 H 0.09 0.59 8.14 -2.38 -0.02 0.57 16
41 H 0.08 0.55 8.14 -2.38 -0.02 0.53 16
42 H 0.06 0.77 8.14 -2.39 -0.02 0.75 16
43 H 0.10 0.57 8.14 -2.39 -0.02 0.55 16
44 H 0.10 1.23 8.14 -2.38 -0.02 1.21 16
45 H 0.06 0.69 8.14 -2.39 -0.02 0.67 16
46 H 0.10 3.56 8.09 -2.38 -0.02 3.54 16
47 H 0.08 3.33 8.14 -2.39 -0.02 3.31 16
48 H 0.06 3.07 8.14 -2.38 -0.02 3.05 16
49 H 0.09 3.44 8.14 -2.39 -0.02 3.42 16
Total: -1.00 -74.95 409.19 -2.04 -76.99
By element:
Atomic # 1 Polarization: 27.24 SS G_CDS: 0.09 Total: 27.33 kcal
Atomic # 6 Polarization: -60.87 SS G_CDS: 3.97 Total: -56.90 kcal
Atomic # 7 Polarization: -81.37 SS G_CDS: -0.83 Total: -82.20 kcal
Atomic # 8 Polarization: -114.50 SS G_CDS: -7.03 Total: -121.53 kcal
Atomic # 14 Polarization: 45.30 SS G_CDS: 2.03 Total: 47.33 kcal
Atomic # 16 Polarization: 109.25 SS G_CDS: -0.26 Total: 108.99 kcal
Total: -74.95 -2.04 -76.99 kcal
The number of atoms in the molecule is 49
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.
ZINC000451484255.mol2 49
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 -107.268 kcal
(2) G-P(sol) polarization free energy of solvation -74.946 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -182.214 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.040 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.986 kcal
(6) G-S(sol) free energy of system = (1) + (5) -184.254 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.99 seconds