Wall clock time and date at job start Tue Mar 31 2020 22:32:52
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 1.50695 * 1
3 3 C 1.34334 * 126.44449 * 2 1
4 4 N 1.34474 * 107.67182 * 180.02562 * 3 2 1
5 5 C 1.30262 * 108.69802 * 359.97438 * 4 3 2
6 6 C 1.50701 * 125.61925 * 179.97438 * 5 4 3
7 7 N 1.46895 * 109.47042 * 90.02788 * 6 5 4
8 8 C 1.46847 * 110.99982 * 189.99790 * 7 6 5
9 9 C 1.53034 * 109.51345 * 185.84805 * 8 7 6
10 10 C 1.53123 * 109.27992 * 300.80438 * 9 8 7
11 11 N 1.46500 * 109.57501 * 177.60191 * 10 9 8
12 12 C 1.34774 * 119.99952 * 85.29823 * 11 10 9
13 13 O 1.21280 * 119.99968 * 0.02562 * 12 11 10
14 14 C 1.50704 * 120.00154 * 179.97438 * 12 11 10
15 15 S 1.80999 * 109.47013 * 180.02562 * 14 12 11
16 16 C 1.76203 * 99.99508 * 180.02562 * 15 14 12
17 17 H 1.07991 * 120.00570 * 359.97438 * 16 15 14
18 18 C 1.38803 * 119.99816 * 180.02562 * 16 15 14
19 19 N 1.31634 * 120.00091 * 0.02562 * 18 16 15
20 20 Si 1.86799 * 120.00033 * 179.97438 * 18 16 15
21 21 H 1.48488 * 109.47222 * 0.02562 * 20 18 16
22 22 H 1.48502 * 109.46917 * 120.00215 * 20 18 16
23 23 H 1.48499 * 109.47013 * 239.99824 * 20 18 16
24 24 C 1.53127 * 109.15019 * 57.67185 * 10 9 8
25 25 C 1.46843 * 110.99970 * 314.21155 * 7 6 5
26 26 O 1.33971 * 108.76185 * 0.23576 * 5 4 3
27 27 H 1.09003 * 109.47413 * 89.96987 * 1 2 3
28 28 H 1.08997 * 109.47302 * 209.97629 * 1 2 3
29 29 H 1.09004 * 109.47051 * 329.97567 * 1 2 3
30 30 H 1.07996 * 126.16584 * 359.97438 * 3 2 1
31 31 H 1.08997 * 109.47013 * 330.02615 * 6 5 4
32 32 H 1.09001 * 109.47015 * 210.03489 * 6 5 4
33 33 H 1.09002 * 109.46481 * 305.85957 * 8 7 6
34 34 H 1.08994 * 109.46283 * 65.83811 * 8 7 6
35 35 H 1.08997 * 109.50952 * 60.75924 * 9 8 7
36 36 H 1.08998 * 109.50459 * 180.87821 * 9 8 7
37 37 H 1.09003 * 109.53012 * 297.76758 * 10 9 8
38 38 H 0.96998 * 120.00140 * 265.29622 * 11 10 9
39 39 H 1.09003 * 109.46994 * 300.00480 * 14 12 11
40 40 H 1.08997 * 109.46431 * 60.00087 * 14 12 11
41 41 H 0.96992 * 120.00296 * 180.02562 * 19 18 16
42 42 H 1.08997 * 109.49981 * 182.39822 * 24 10 9
43 43 H 1.08998 * 109.53089 * 62.30397 * 24 10 9
44 44 H 1.08993 * 109.46313 * 294.17341 * 25 7 6
45 45 H 1.09000 * 109.46480 * 54.15451 * 25 7 6
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 1.5070 0.0000 0.0000
3 6 2.3050 1.0806 0.0000
4 7 3.5782 0.6479 -0.0006
5 6 3.5765 -0.6547 -0.0004
6 6 4.8004 -1.5340 -0.0014
7 7 5.1989 -1.8200 1.3832
8 6 6.5141 -2.4718 1.4283
9 6 6.8307 -2.8850 2.8674
10 6 6.8251 -1.6430 3.7629
11 7 7.0710 -2.0383 5.1520
12 6 8.3346 -2.1862 5.5969
13 8 9.2680 -1.9915 4.8475
14 6 8.5876 -2.5923 7.0260
15 16 10.3709 -2.7048 7.3144
16 6 10.3768 -3.1824 9.0105
17 1 9.4436 -3.3141 9.5377
18 6 11.5811 -3.3885 9.6692
19 7 12.7187 -3.2266 9.0271
20 14 11.5874 -3.8941 11.4675
21 1 10.1894 -4.0075 11.9547
22 1 12.2689 -5.2058 11.6104
23 1 12.3093 -2.8716 12.2666
24 6 5.4604 -0.9560 3.6604
25 6 5.1833 -0.5987 2.1983
26 8 2.3074 -1.0840 -0.0049
27 1 -0.3634 0.0005 -1.0277
28 1 -0.3634 -0.8902 0.5134
29 1 -0.3633 0.8898 0.5142
30 1 1.9822 2.1112 -0.0004
31 1 5.6143 -1.0231 -0.5157
32 1 4.5759 -2.4686 -0.5154
33 1 6.5035 -3.3557 0.7906
34 1 7.2758 -1.7774 1.0739
35 1 6.0769 -3.5900 3.2179
36 1 7.8136 -3.3547 2.9032
37 1 7.6048 -0.9548 3.4365
38 1 6.3245 -2.1937 5.7515
39 1 8.1576 -1.8484 7.6967
40 1 8.1267 -3.5617 7.2151
41 1 13.5602 -3.3709 9.4873
42 1 5.4643 -0.0475 4.2626
43 1 4.6848 -1.6301 4.0237
44 1 5.9512 0.0868 1.8401
45 1 4.2060 -0.1223 2.1200
RHF calculation, no. of doubly occupied orbitals= 61
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
ZINC001226145771.mol2 45
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 22:32:52
Heat of formation + Delta-G solvation = -39.661101 kcal
Electronic energy + Delta-G solvation = -26186.080803 eV
Core-core repulsion = 22330.204054 eV
Total energy + Delta-G solvation = -3855.876749 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 339.140 amu
Computer time = 0.70 seconds
Orbital eigenvalues (eV)
-44.37889 -41.07616 -39.65241 -36.44222 -35.70195 -34.58444 -33.92724 -32.77864
-31.93196 -30.68751 -28.83735 -27.66246 -26.36339 -24.35864 -24.00558 -23.15062
-21.94597 -21.61924 -21.00877 -19.78399 -18.23857 -17.96285 -17.75114 -17.46810
-16.88132 -16.56243 -16.36658 -16.12293 -15.93010 -15.81691 -15.32578 -14.95460
-14.71322 -14.55414 -14.42029 -14.31234 -13.89768 -13.81369 -13.55750 -13.39735
-13.23113 -13.15842 -13.01982 -12.91246 -12.64810 -12.44719 -12.34726 -12.22470
-11.89079 -11.72435 -11.58353 -11.56156 -11.15722 -10.90197 -10.26946 -10.08671
-9.75940 -9.41507 -8.66291 -8.34756 -6.12608 0.38684 1.27287 1.41471
1.47269 1.57907 1.58904 1.62159 1.67366 2.24924 2.29223 2.77280
2.99471 3.06062 3.31986 3.62632 3.80905 3.84396 3.94161 4.01511
4.06679 4.10613 4.22774 4.29018 4.31581 4.38228 4.43822 4.50894
4.52780 4.60212 4.65417 4.68546 4.69916 4.82838 4.87406 4.97881
5.04873 5.10355 5.18955 5.23428 5.31871 5.42379 5.51461 5.80767
5.88980 6.20231 6.52685 6.70618 7.06731 7.26044 8.74748
Molecular weight = 339.14amu
Principal moments of inertia in cm(-1)
A = 0.033998 B = 0.001728 C = 0.001689
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 823.373430 B =16198.149342 C =16575.166387
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.068 4.068
2 C -0.045 4.045
3 C -0.064 4.064
4 N -0.502 5.502
5 C 0.182 3.818
6 C 0.149 3.851
7 N -0.534 5.534
8 C 0.065 3.935
9 C -0.121 4.121
10 C 0.145 3.855
11 N -0.709 5.709
12 C 0.536 3.464
13 O -0.564 6.564
14 C -0.130 4.130
15 S -0.151 6.151
16 C -0.546 4.546
17 H 0.083 0.917
18 C 0.013 3.987
19 N -0.911 5.911
20 Si 0.999 3.001
21 H -0.257 1.257
22 H -0.274 1.274
23 H -0.274 1.274
24 C -0.110 4.110
25 C 0.065 3.935
26 O -0.206 6.206
27 H 0.099 0.901
28 H 0.083 0.917
29 H 0.113 0.887
30 H 0.203 0.797
31 H 0.085 0.915
32 H 0.126 0.874
33 H 0.104 0.896
34 H 0.038 0.962
35 H 0.083 0.917
36 H 0.055 0.945
37 H 0.060 0.940
38 H 0.416 0.584
39 H 0.109 0.891
40 H 0.110 0.890
41 H 0.271 0.729
42 H 0.079 0.921
43 H 0.089 0.911
44 H 0.033 0.967
45 H 0.073 0.927
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -28.790 4.756 -18.954 34.796
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 -0.124 4.124
2 C -0.098 4.098
3 C -0.203 4.203
4 N -0.232 5.232
5 C -0.024 4.024
6 C 0.022 3.978
7 N -0.261 5.261
8 C -0.062 4.062
9 C -0.160 4.160
10 C 0.041 3.959
11 N -0.362 5.362
12 C 0.322 3.678
13 O -0.442 6.442
14 C -0.281 4.281
15 S 0.076 5.924
16 C -0.694 4.694
17 H 0.101 0.899
18 C -0.192 4.192
19 N -0.548 5.548
20 Si 0.821 3.179
21 H -0.180 1.180
22 H -0.199 1.199
23 H -0.199 1.199
24 C -0.148 4.148
25 C -0.063 4.063
26 O -0.093 6.093
27 H 0.117 0.883
28 H 0.102 0.898
29 H 0.131 0.869
30 H 0.220 0.780
31 H 0.103 0.897
32 H 0.144 0.856
33 H 0.122 0.878
34 H 0.056 0.944
35 H 0.102 0.898
36 H 0.074 0.926
37 H 0.078 0.922
38 H 0.253 0.747
39 H 0.127 0.873
40 H 0.128 0.872
41 H 0.080 0.920
42 H 0.098 0.902
43 H 0.107 0.893
44 H 0.052 0.948
45 H 0.091 0.909
Dipole moment (debyes) X Y Z Total
from point charges -26.887 5.067 -20.012 33.898
hybrid contribution -0.721 -0.159 1.696 1.849
sum -27.607 4.908 -18.316 33.492
Atomic orbital electron populations
1.20502 0.81119 1.05703 1.05096 1.24289 0.96634 0.83899 1.05019
1.23521 0.87241 1.01755 1.07749 1.70480 1.24611 1.09762 1.18371
1.26190 0.84772 0.90067 1.01397 1.20582 0.87941 0.98089 0.91218
1.62176 1.29405 1.25554 1.08962 1.22048 0.87577 0.99644 0.96960
1.21900 1.01822 0.97712 0.94570 1.21027 0.97687 0.96334 0.80891
1.45816 1.06803 1.70443 1.13119 1.20055 0.83258 0.75980 0.88545
1.90685 1.44224 1.51018 1.58322 1.23382 1.02354 1.05924 0.96460
1.85568 1.01576 1.90419 1.14810 1.23247 0.96131 1.53783 0.96241
0.89920 1.26131 0.94005 0.94602 1.04423 1.70188 0.98283 1.47340
1.38983 0.84899 0.79013 0.77922 0.76073 1.18039 1.19898 1.19947
1.21777 0.95311 1.01378 0.96378 1.21998 1.01108 0.90537 0.92680
1.84418 1.17973 1.37360 1.69530 0.88296 0.89842 0.86870 0.77970
0.89721 0.85569 0.87776 0.94383 0.89788 0.92582 0.92162 0.74735
0.87327 0.87196 0.91995 0.90204 0.89287 0.94846 0.90901
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 C -0.07 -0.32 10.43 71.23 0.74 0.42 16
2 C -0.05 -0.62 7.39 24.79 0.18 -0.44 16
3 C -0.06 -1.01 11.80 83.40 0.98 -0.02 16
4 N -0.50 -10.28 10.35 -303.82 -3.14 -13.43 16
5 C 0.18 3.37 6.13 88.34 0.54 3.91 16
6 C 0.15 2.17 5.90 85.56 0.51 2.67 16
7 N -0.53 -8.95 4.80 -900.96 -4.32 -13.28 16
8 C 0.07 1.11 5.42 86.32 0.47 1.58 16
9 C -0.12 -2.60 5.68 30.65 0.17 -2.43 16
10 C 0.15 3.41 2.52 45.07 0.11 3.53 16
11 N -0.71 -18.19 5.08 -442.13 -2.25 -20.44 16
12 C 0.54 19.87 7.82 87.66 0.69 20.55 16
13 O -0.56 -26.25 15.52 -3.03 -0.05 -26.30 16
14 C -0.13 -5.17 6.16 71.24 0.44 -4.74 16
15 S -0.15 -8.43 20.57 -56.49 -1.16 -9.60 16
16 C -0.55 -31.36 9.50 67.96 0.65 -30.72 16
17 H 0.08 4.41 7.80 -2.92 -0.02 4.39 16
18 C 0.01 0.75 5.49 84.86 0.47 1.21 16
19 N -0.91 -56.26 13.22 21.65 0.29 -55.97 16
20 Si 1.00 43.79 29.55 68.60 2.03 45.81 16
21 H -0.26 -10.50 7.11 99.48 0.71 -9.80 16
22 H -0.27 -11.62 7.11 99.48 0.71 -10.91 16
23 H -0.27 -11.66 7.11 99.48 0.71 -10.95 16
24 C -0.11 -1.98 5.57 30.65 0.17 -1.81 16
25 C 0.07 1.23 4.94 86.33 0.43 1.65 16
26 O -0.21 -3.77 10.78 -3.75 -0.04 -3.81 16
27 H 0.10 0.22 8.14 -2.39 -0.02 0.20 16
28 H 0.08 0.37 8.14 -2.39 -0.02 0.35 16
29 H 0.11 0.09 8.14 -2.38 -0.02 0.07 16
30 H 0.20 1.98 8.06 -2.91 -0.02 1.96 16
31 H 0.08 1.16 8.08 -2.39 -0.02 1.14 16
32 H 0.13 1.28 8.14 -2.39 -0.02 1.26 16
33 H 0.10 1.36 8.12 -2.39 -0.02 1.34 16
34 H 0.04 0.70 8.14 -2.39 -0.02 0.68 16
35 H 0.08 1.65 8.14 -2.39 -0.02 1.63 16
36 H 0.06 1.50 8.14 -2.39 -0.02 1.48 16
37 H 0.06 1.77 7.58 -2.39 -0.02 1.75 16
38 H 0.42 7.81 8.61 -92.71 -0.80 7.02 16
39 H 0.11 3.90 8.14 -2.39 -0.02 3.88 16
40 H 0.11 3.93 8.14 -2.40 -0.02 3.91 16
41 H 0.27 15.47 8.31 -92.71 -0.77 14.70 16
42 H 0.08 1.38 8.14 -2.39 -0.02 1.36 16
43 H 0.09 1.41 8.14 -2.39 -0.02 1.39 16
44 H 0.03 0.70 8.14 -2.39 -0.02 0.68 16
45 H 0.07 1.48 5.97 -2.39 -0.01 1.47 16
Total: -1.00 -80.73 386.17 -1.90 -82.63
By element:
Atomic # 1 Polarization: 18.78 SS G_CDS: 0.20 Total: 18.98 kcal
Atomic # 6 Polarization: -11.16 SS G_CDS: 6.55 Total: -4.62 kcal
Atomic # 7 Polarization: -93.68 SS G_CDS: -9.43 Total: -103.11 kcal
Atomic # 8 Polarization: -30.02 SS G_CDS: -0.09 Total: -30.11 kcal
Atomic # 14 Polarization: 43.79 SS G_CDS: 2.03 Total: 45.81 kcal
Atomic # 16 Polarization: -8.43 SS G_CDS: -1.16 Total: -9.60 kcal
Total: -80.73 -1.90 -82.63 kcal
The number of atoms in the molecule is 45
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.
ZINC001226145771.mol2 45
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 42.970 kcal
(2) G-P(sol) polarization free energy of solvation -80.727 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -37.757 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.904 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -82.631 kcal
(6) G-S(sol) free energy of system = (1) + (5) -39.661 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.70 seconds