Wall clock time and date at job start Wed Apr 1 2020 04:37:28
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 1.31624 * 1
3 3 Si 1.86800 * 119.99950 * 2 1
4 4 H 1.48501 * 109.46758 * 90.00140 * 3 2 1
5 5 H 1.48499 * 109.47026 * 209.99987 * 3 2 1
6 6 H 1.48496 * 109.47474 * 330.00023 * 3 2 1
7 7 C 1.38811 * 119.99540 * 180.27867 * 2 1 3
8 8 H 1.08001 * 119.99999 * 359.71854 * 7 2 1
9 9 N 1.36936 * 119.99842 * 179.72505 * 7 2 1
10 10 C 1.46493 * 120.00314 * 180.02562 * 9 7 2
11 11 C 1.52996 * 109.47400 * 179.97438 * 10 9 7
12 12 H 1.09003 * 112.85123 * 45.33209 * 11 10 9
13 13 C 1.53781 * 113.61494 * 176.52847 * 11 10 9
14 14 C 1.53781 * 87.08219 * 139.98040 * 13 11 10
15 15 H 1.08998 * 113.61569 * 219.93152 * 14 13 11
16 16 N 1.46498 * 113.61687 * 89.11614 * 14 13 11
17 17 C 1.34775 * 120.00345 * 155.00344 * 16 14 13
18 18 O 1.21586 * 120.00005 * 359.97438 * 17 16 14
19 19 C 1.47527 * 120.00352 * 180.02562 * 17 16 14
20 20 C 1.39858 * 120.70809 * 359.71548 * 19 17 16
21 21 C 1.38621 * 118.63993 * 179.81530 * 20 19 17
22 22 C 1.38098 * 119.52581 * 0.34848 * 21 20 19
23 23 N 1.32429 * 120.63791 * 359.91453 * 22 21 20
24 24 C 1.31998 * 122.28840 * 359.93327 * 23 22 21
25 25 O 1.35430 * 119.83802 * 179.97438 * 24 23 22
26 26 C 1.50917 * 121.01519 * 180.11809 * 22 21 20
27 27 C 1.52931 * 109.78287 * 342.73720 * 26 22 21
28 28 O 1.43205 * 108.52037 * 49.54479 * 27 26 22
29 29 C 1.42742 * 113.07033 * 289.24478 * 28 27 26
30 30 C 1.53781 * 113.61137 * 274.13357 * 11 10 9
31 31 H 0.96999 * 119.99889 * 359.97438 * 1 2 3
32 32 H 0.97000 * 119.99646 * 359.97438 * 9 7 2
33 33 H 1.09004 * 109.46794 * 299.99871 * 10 9 7
34 34 H 1.09000 * 109.47559 * 59.99394 * 10 9 7
35 35 H 1.09000 * 113.61251 * 254.52895 * 13 11 10
36 36 H 1.08999 * 113.61627 * 25.42900 * 13 11 10
37 37 H 0.97003 * 119.99886 * 334.99585 * 16 14 13
38 38 H 1.08004 * 120.68386 * 0.03353 * 20 19 17
39 39 H 0.96703 * 113.99713 * 270.02559 * 25 24 23
40 40 H 1.09004 * 109.42303 * 102.83868 * 26 22 21
41 41 H 1.09010 * 109.41820 * 222.70193 * 26 22 21
42 42 H 1.09006 * 109.62695 * 169.25075 * 27 26 22
43 43 H 1.09001 * 109.62804 * 289.83164 * 27 26 22
44 44 H 1.09003 * 109.33608 * 171.79255 * 29 28 27
45 45 H 1.09001 * 109.34078 * 291.46404 * 29 28 27
46 46 H 1.08997 * 113.61804 * 334.56581 * 30 11 10
47 47 H 1.09006 * 113.61234 * 105.47618 * 30 11 10
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 1.3162 0.0000 0.0000
3 14 2.2502 1.6177 0.0000
4 1 2.4977 2.0463 1.4001
5 1 3.5478 1.4402 -0.7000
6 1 1.4478 2.6527 -0.7000
7 6 2.0102 -1.2022 -0.0058
8 1 1.4701 -2.1375 -0.0058
9 7 3.3795 -1.2022 -0.0115
10 6 4.1120 -2.4709 -0.0183
11 6 5.6162 -2.1914 -0.0244
12 1 5.9066 -1.4217 0.6908
13 6 6.4792 -3.4618 0.0536
14 6 7.4152 -2.7939 -0.9675
15 1 7.7971 -3.4798 -1.7237
16 7 8.4678 -1.9801 -0.3543
17 6 9.6188 -1.7552 -1.0184
18 8 9.7838 -2.2281 -2.1263
19 6 10.6789 -0.9362 -0.4007
20 6 10.5030 -0.3810 0.8709
21 6 11.5287 0.3783 1.4121
22 6 12.6873 0.5730 0.6863
23 7 12.8266 0.0405 -0.5182
24 6 11.8827 -0.6927 -1.0785
25 8 12.0777 -1.2130 -2.3136
26 6 13.8261 1.3914 1.2440
27 6 13.3268 2.2461 2.4098
28 8 12.5954 1.4056 3.3095
29 6 11.3406 0.9780 2.7803
30 6 6.1968 -1.9752 -1.4318
31 1 -0.4850 0.8400 0.0004
32 1 3.8645 -0.3622 -0.0119
33 1 3.8524 -3.0450 0.8712
34 1 3.8450 -3.0400 -0.9087
35 1 6.9384 -3.6184 1.0297
36 1 5.9805 -4.3526 -0.3285
37 1 8.3362 -1.6030 0.5297
38 1 9.5881 -0.5434 1.4214
39 1 11.7848 -0.6376 -3.0334
40 1 14.6138 0.7246 1.5947
41 1 14.2221 2.0408 0.4632
42 1 14.1767 2.6876 2.9304
43 1 12.6749 3.0342 2.0331
44 1 10.9041 0.2320 3.4445
45 1 10.6691 1.8335 2.7076
46 1 5.6209 -2.4587 -2.2208
47 1 6.4286 -0.9333 -1.6533
RHF calculation, no. of doubly occupied orbitals= 65
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
ZINC001675813618.mol2 47
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 04:37:28
Heat of formation + Delta-G solvation = -74.658393 kcal
Electronic energy + Delta-G solvation = -29919.330100 eV
Core-core repulsion = 25681.412794 eV
Total energy + Delta-G solvation = -4237.917305 eV
No. of doubly occupied orbitals = 65
Molecular weight
(most abundant/longest-lived isotopes) = 347.168 amu
Computer time = 1.02 seconds
Orbital eigenvalues (eV)
-42.32960 -41.12852 -39.89840 -39.04995 -37.82901 -36.47859 -35.14149 -34.13774
-33.14932 -32.83797 -31.49698 -28.85153 -26.65970 -26.63712 -26.26169 -24.94722
-24.01097 -23.31308 -22.80408 -21.54232 -20.53437 -19.75958 -19.49186 -18.70301
-18.46675 -17.38188 -17.29172 -16.90535 -16.62917 -16.27459 -16.13439 -15.88281
-15.85366 -15.74758 -15.31882 -15.02722 -14.86169 -14.76623 -14.47844 -14.29880
-13.91964 -13.80524 -13.50766 -13.38518 -13.15621 -13.00726 -12.90401 -12.73077
-12.65622 -12.17505 -11.94489 -11.87388 -11.72171 -11.46240 -11.41862 -11.20419
-11.06712 -10.89406 -10.73796 -10.56338 -10.14795 -9.80955 -9.26992 -8.02394
-5.35440 -0.65817 -0.14027 1.36699 1.41658 1.49105 1.61728 1.90249
2.28114 2.48871 2.53616 2.87972 3.21832 3.28302 3.33119 3.46892
3.47764 3.57630 3.62414 3.85348 3.92183 3.94022 4.08661 4.12419
4.13620 4.26973 4.38301 4.52554 4.54939 4.57160 4.69126 4.72110
4.77806 4.85559 4.87066 4.89479 4.90753 4.99379 5.03663 5.12374
5.24283 5.24790 5.31962 5.63063 5.77072 6.06680 6.21991 6.35460
6.45315 6.66816 7.07930 7.09363 7.86497 8.05577 9.19428
Molecular weight = 347.17amu
Principal moments of inertia in cm(-1)
A = 0.011331 B = 0.002446 C = 0.002163
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2470.544974 B =11442.492855 C =12939.563946
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.986 5.986
2 C -0.069 4.069
3 Si 0.960 3.040
4 H -0.273 1.273
5 H -0.252 1.252
6 H -0.299 1.299
7 C -0.235 4.235
8 H 0.054 0.946
9 N -0.757 5.757
10 C 0.161 3.839
11 C -0.114 4.114
12 H 0.100 0.900
13 C -0.118 4.118
14 C 0.125 3.875
15 H 0.094 0.906
16 N -0.692 5.692
17 C 0.566 3.434
18 O -0.556 6.556
19 C -0.218 4.218
20 C -0.009 4.009
21 C -0.188 4.188
22 C 0.176 3.824
23 N -0.530 5.530
24 C 0.359 3.641
25 O -0.478 6.478
26 C -0.107 4.107
27 C 0.058 3.942
28 O -0.387 6.387
29 C 0.105 3.895
30 C -0.145 4.145
31 H 0.257 0.743
32 H 0.366 0.634
33 H 0.027 0.973
34 H 0.021 0.979
35 H 0.096 0.904
36 H 0.104 0.896
37 H 0.413 0.587
38 H 0.180 0.820
39 H 0.417 0.583
40 H 0.101 0.899
41 H 0.109 0.891
42 H 0.129 0.871
43 H 0.070 0.930
44 H 0.130 0.870
45 H 0.091 0.909
46 H 0.085 0.915
47 H 0.059 0.941
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 32.088 3.389 6.246 32.865
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 -0.637 5.637
2 C -0.260 4.260
3 Si 0.787 3.213
4 H -0.199 1.199
5 H -0.176 1.176
6 H -0.226 1.226
7 C -0.366 4.366
8 H 0.072 0.928
9 N -0.403 5.403
10 C 0.035 3.965
11 C -0.132 4.132
12 H 0.118 0.882
13 C -0.156 4.156
14 C 0.020 3.980
15 H 0.112 0.888
16 N -0.344 5.344
17 C 0.353 3.647
18 O -0.435 6.435
19 C -0.225 4.225
20 C -0.034 4.034
21 C -0.191 4.191
22 C 0.039 3.961
23 N -0.250 5.250
24 C 0.178 3.822
25 O -0.287 6.287
26 C -0.144 4.144
27 C -0.019 4.019
28 O -0.306 6.306
29 C 0.028 3.972
30 C -0.183 4.183
31 H 0.066 0.934
32 H 0.199 0.801
33 H 0.045 0.955
34 H 0.039 0.961
35 H 0.114 0.886
36 H 0.122 0.878
37 H 0.251 0.749
38 H 0.197 0.803
39 H 0.279 0.721
40 H 0.119 0.881
41 H 0.128 0.872
42 H 0.147 0.853
43 H 0.089 0.911
44 H 0.148 0.852
45 H 0.109 0.891
46 H 0.104 0.896
47 H 0.078 0.922
Dipole moment (debyes) X Y Z Total
from point charges 33.038 2.502 5.408 33.571
hybrid contribution -1.339 1.185 -0.410 1.835
sum 31.699 3.688 4.999 32.302
Atomic orbital electron populations
1.69902 1.07269 1.26705 1.59836 1.25582 0.96181 1.01523 1.02720
0.85338 0.78525 0.79219 0.78260 1.19900 1.17621 1.22580 1.19069
0.83023 0.93387 1.41148 0.92833 1.42706 1.02288 1.04395 1.90884
1.20818 0.90445 0.87161 0.98046 1.22775 0.93230 0.99485 0.97726
0.88207 1.23232 0.95126 0.97167 1.00067 1.21834 0.86195 0.93095
0.96908 0.88826 1.45437 1.14952 1.52832 1.21216 1.17971 0.81882
0.79884 0.84937 1.90805 1.80445 1.51570 1.20709 1.20986 0.95881
1.06682 0.98956 1.21894 0.99403 0.90369 0.91776 1.21380 0.95131
1.01985 1.00587 1.21467 0.94956 0.92313 0.87365 1.67132 1.32363
1.11478 1.14011 1.19258 0.86880 0.88345 0.87759 1.84673 1.85820
1.45216 1.13018 1.21315 0.94786 0.98884 0.99460 1.22884 0.97617
0.91542 0.89822 1.88113 1.32324 1.68270 1.41848 1.21609 0.86593
1.00143 0.88809 1.23491 0.96768 1.00548 0.97531 0.93381 0.80080
0.95509 0.96056 0.88594 0.87782 0.74910 0.80296 0.72079 0.88103
0.87238 0.85282 0.91124 0.85250 0.89136 0.89623 0.92235
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -0.99 -63.24 13.97 21.65 0.30 -62.93 16
2 C -0.07 -4.04 5.50 84.86 0.47 -3.58 16
3 Si 0.96 44.54 27.74 68.60 1.90 46.45 16
4 H -0.27 -12.12 7.11 99.48 0.71 -11.41 16
5 H -0.25 -10.45 6.51 99.48 0.65 -9.80 16
6 H -0.30 -14.20 7.11 99.48 0.71 -13.49 16
7 C -0.24 -13.35 10.47 84.03 0.88 -12.47 16
8 H 0.05 3.35 8.06 -2.91 -0.02 3.33 16
9 N -0.76 -34.15 5.41 -343.47 -1.86 -36.00 16
10 C 0.16 5.65 6.08 86.38 0.53 6.17 16
11 C -0.11 -2.74 3.62 -10.27 -0.04 -2.78 16
12 H 0.10 2.17 8.14 -2.39 -0.02 2.15 16
13 C -0.12 -2.10 7.39 31.12 0.23 -1.87 16
14 C 0.13 2.55 4.33 45.58 0.20 2.74 16
15 H 0.09 2.18 7.46 -2.39 -0.02 2.16 16
16 N -0.69 -12.20 5.22 -442.93 -2.31 -14.51 16
17 C 0.57 12.93 7.77 86.69 0.67 13.60 16
18 O -0.56 -16.98 14.81 16.76 0.25 -16.73 16
19 C -0.22 -4.27 5.90 -19.94 -0.12 -4.39 16
20 C -0.01 -0.11 9.27 22.75 0.21 0.10 16
21 C -0.19 -2.38 5.80 -19.85 -0.12 -2.49 16
22 C 0.18 2.82 6.68 42.50 0.28 3.10 16
23 N -0.53 -11.37 10.23 -295.97 -3.03 -14.39 16
24 C 0.36 8.19 7.77 85.16 0.66 8.85 16
25 O -0.48 -11.46 11.68 -66.51 -0.78 -12.24 16
26 C -0.11 -1.06 6.23 29.89 0.19 -0.87 16
27 C 0.06 0.39 6.84 71.96 0.49 0.88 16
28 O -0.39 -4.25 10.81 -148.98 -1.61 -5.86 16
29 C 0.11 0.84 6.65 71.19 0.47 1.31 16
30 C -0.14 -3.55 7.44 31.18 0.23 -3.32 16
31 H 0.26 15.69 8.31 -92.71 -0.77 14.92 16
32 H 0.37 15.54 5.52 -92.71 -0.51 15.03 16
33 H 0.03 0.96 8.14 -2.38 -0.02 0.94 16
34 H 0.02 0.79 7.87 -2.39 -0.02 0.77 16
35 H 0.10 1.31 8.14 -2.39 -0.02 1.29 16
36 H 0.10 1.81 8.10 -2.39 -0.02 1.79 16
37 H 0.41 4.68 6.81 -92.71 -0.63 4.05 16
38 H 0.18 0.89 6.51 -2.91 -0.02 0.88 16
39 H 0.42 6.82 9.06 -74.06 -0.67 6.15 16
40 H 0.10 0.99 8.14 -2.39 -0.02 0.97 16
41 H 0.11 0.89 8.14 -2.38 -0.02 0.87 16
42 H 0.13 0.32 8.14 -2.38 -0.02 0.30 16
43 H 0.07 0.35 8.07 -2.39 -0.02 0.33 16
44 H 0.13 0.58 8.14 -2.39 -0.02 0.56 16
45 H 0.09 0.45 8.14 -2.39 -0.02 0.43 16
46 H 0.09 2.26 7.92 -2.39 -0.02 2.24 16
47 H 0.06 1.55 8.14 -2.38 -0.02 1.53 16
Total: -1.00 -82.52 385.33 -2.72 -85.23
By element:
Atomic # 1 Polarization: 26.81 SS G_CDS: -0.84 Total: 25.97 kcal
Atomic # 6 Polarization: -0.23 SS G_CDS: 5.24 Total: 5.02 kcal
Atomic # 7 Polarization: -120.95 SS G_CDS: -6.89 Total: -127.84 kcal
Atomic # 8 Polarization: -32.69 SS G_CDS: -2.14 Total: -34.83 kcal
Atomic # 14 Polarization: 44.54 SS G_CDS: 1.90 Total: 46.45 kcal
Total: -82.52 -2.72 -85.23 kcal
The number of atoms in the molecule is 47
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.
ZINC001675813618.mol2 47
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 10.575 kcal
(2) G-P(sol) polarization free energy of solvation -82.515 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -71.940 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.718 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -85.233 kcal
(6) G-S(sol) free energy of system = (1) + (5) -74.658 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.02 seconds