Wall clock time and date at job start Tue Mar 31 2020 11:29:50
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.
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* 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 1.31295 * 1
3 3 Si 1.86799 * 120.00028 * 2 1
4 4 H 1.48496 * 109.47340 * 274.97903 * 3 2 1
5 5 H 1.48507 * 109.47183 * 34.97470 * 3 2 1
6 6 H 1.48496 * 109.47342 * 154.97484 * 3 2 1
7 7 C 1.38989 * 120.00245 * 179.97438 * 2 1 3
8 8 H 1.07998 * 119.99724 * 174.04394 * 7 2 1
9 9 N 1.37314 * 119.99795 * 354.31613 * 7 2 1
10 10 C 1.36496 * 126.06526 * 185.48951 * 9 7 2
11 11 C 1.35709 * 107.50394 * 180.02562 * 10 9 7
12 12 N 1.40508 * 126.08456 * 180.02562 * 11 10 9
13 13 C 1.34774 * 119.99780 * 180.02562 * 12 11 10
14 14 O 1.21745 * 120.00315 * 359.97438 * 13 12 11
15 15 C 1.46530 * 119.99965 * 179.97438 * 13 12 11
16 16 C 1.37752 * 125.96092 * 179.70725 * 15 13 12
17 17 C 1.39907 * 106.76247 * 179.90721 * 16 15 13
18 18 C 1.36458 * 107.09399 * 0.35537 * 17 16 15
19 19 C 1.47811 * 125.65351 * 179.81070 * 18 17 16
20 20 N 1.34241 * 126.70761 * 0.02562 * 19 18 17
21 21 N 1.28978 * 107.24859 * 179.97438 * 20 19 18
22 22 N 1.28717 * 109.00839 * 0.02562 * 21 20 19
23 23 H 0.96998 * 125.31567 * 179.97438 * 22 21 20
24 24 N 1.28876 * 109.37190 * 359.74581 * 22 21 20
25 25 O 1.34352 * 108.69653 * 359.78229 * 18 17 16
26 26 C 1.40675 * 107.82566 * 359.97438 * 11 10 9
27 27 N 1.30901 * 108.38773 * 359.72164 * 26 11 10
28 28 H 0.96997 * 120.00151 * 0.02562 * 1 2 3
29 29 H 1.08001 * 126.24944 * 359.97438 * 10 9 7
30 30 H 0.97004 * 120.00273 * 359.97438 * 12 11 10
31 31 H 1.08003 * 126.61881 * 0.02562 * 16 15 13
32 32 H 1.07996 * 126.45451 * 180.13751 * 17 16 15
33 33 H 1.07999 * 125.80353 * 179.97438 * 26 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 1.3129 0.0000 0.0000
3 14 2.2469 1.6177 0.0000
4 1 2.3892 2.1072 -1.3947
5 1 1.5009 2.6201 0.8026
6 1 3.5931 1.4121 0.5922
7 6 2.0079 -1.2037 0.0005
8 1 3.0836 -1.2061 -0.0965
9 7 1.3264 -2.3899 0.1188
10 6 1.8855 -3.6293 0.2390
11 6 0.8720 -4.5272 0.3293
12 7 1.0090 -5.9189 0.4659
13 6 -0.0869 -6.6994 0.5443
14 8 -1.1956 -6.1987 0.4973
15 6 0.0560 -8.1508 0.6861
16 6 -0.9747 -9.0596 0.7827
17 6 -0.3880 -10.3242 0.9009
18 6 0.9642 -10.1425 0.8805
19 6 1.9790 -11.2123 0.9832
20 7 1.7473 -12.5283 1.1120
21 7 2.8945 -13.1151 1.1668
22 7 3.8235 -12.2284 1.0790
23 1 4.7760 -12.4108 1.0953
24 7 3.2905 -11.0610 0.9613
25 8 1.2205 -8.8300 0.7509
26 6 -0.3402 -3.8165 0.2631
27 7 -0.0657 -2.5421 0.1440
28 1 -0.4850 0.8400 -0.0004
29 1 2.9416 -3.8544 0.2578
30 1 1.8924 -6.3180 0.5029
31 1 -2.0318 -8.8386 0.7680
32 1 -0.9075 -11.2663 0.9945
33 1 -1.3291 -4.2484 0.3075
RHF calculation, no. of doubly occupied orbitals= 56
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
ZINC001606354885.mol2 33
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 11:29:50
Heat of formation + Delta-G solvation = 175.385148 kcal
Electronic energy + Delta-G solvation = -23916.739070 eV
Core-core repulsion = 19984.115069 eV
Total energy + Delta-G solvation = -3932.624001 eV
No. of doubly occupied orbitals = 56
Molecular weight
(most abundant/longest-lived isotopes) = 315.087 amu
Computer time = 0.55 seconds
Orbital eigenvalues (eV)
-45.63187 -43.81037 -41.71883 -40.13293 -36.10710 -35.68194 -35.07600 -34.65835
-34.14436 -32.31897 -31.21387 -29.56454 -27.12582 -25.99573 -25.71557 -23.65969
-22.82661 -22.81785 -21.64903 -21.23425 -20.35443 -19.69229 -19.01583 -18.41396
-17.79373 -17.48462 -17.41654 -16.96104 -15.97816 -15.95816 -15.41915 -15.25446
-15.04617 -14.90155 -14.23099 -14.14598 -14.11214 -13.54241 -13.49020 -13.35114
-12.94592 -12.85730 -12.60766 -12.34778 -12.32974 -12.07658 -11.94900 -11.23884
-11.13975 -11.05674 -10.83635 -10.12566 -9.68154 -8.58461 -8.48304 -6.25269
-0.63883 0.00117 0.61574 0.87848 1.27942 1.39992 1.41938 1.56469
1.59128 1.71090 1.95092 1.97657 2.20716 2.53467 2.58563 2.87554
3.07695 3.16670 3.69840 3.76713 3.94954 4.17845 4.39673 4.41365
4.55560 4.56917 4.83652 4.99071 5.00830 5.20537 5.24742 5.32468
5.48496 5.60471 5.93952 6.26464 6.54999 6.70481 6.92846 7.11345
7.43379 7.64534 8.51338
Molecular weight = 315.09amu
Principal moments of inertia in cm(-1)
A = 0.028958 B = 0.002400 C = 0.002219
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 966.676142 B =11664.160393 C =12617.388782
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.822 5.822
2 C -0.006 4.006
3 Si 1.019 2.981
4 H -0.264 1.264
5 H -0.277 1.277
6 H -0.244 1.244
7 C -0.353 4.353
8 H 0.142 0.858
9 N -0.165 5.165
10 C -0.076 4.076
11 C -0.051 4.051
12 N -0.601 5.601
13 C 0.585 3.415
14 O -0.544 6.544
15 C -0.053 4.053
16 C -0.113 4.113
17 C -0.129 4.129
18 C 0.066 3.934
19 C 0.237 3.763
20 N -0.263 5.263
21 N -0.041 5.041
22 N -0.191 5.191
23 H 0.499 0.501
24 N -0.285 5.285
25 O -0.151 6.151
26 C -0.051 4.051
27 N -0.309 5.309
28 H 0.277 0.723
29 H 0.188 0.812
30 H 0.420 0.580
31 H 0.185 0.815
32 H 0.199 0.801
33 H 0.174 0.826
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 9.257 -22.462 2.265 24.400
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 -0.449 5.449
2 C -0.218 4.218
3 Si 0.838 3.162
4 H -0.189 1.189
5 H -0.202 1.202
6 H -0.167 1.167
7 C -0.484 4.484
8 H 0.159 0.841
9 N 0.067 4.933
10 C -0.226 4.226
11 C -0.157 4.157
12 N -0.244 5.244
13 C 0.373 3.627
14 O -0.424 6.424
15 C -0.107 4.107
16 C -0.134 4.134
17 C -0.151 4.151
18 C 0.011 3.989
19 C -0.043 4.043
20 N -0.137 5.137
21 N -0.036 5.036
22 N -0.043 5.043
23 H 0.359 0.641
24 N -0.138 5.138
25 O -0.046 6.046
26 C -0.227 4.227
27 N -0.140 5.140
28 H 0.087 0.913
29 H 0.205 0.795
30 H 0.257 0.743
31 H 0.202 0.798
32 H 0.216 0.784
33 H 0.190 0.810
Dipole moment (debyes) X Y Z Total
from point charges 8.353 -21.263 2.163 22.947
hybrid contribution 1.159 0.065 0.007 1.160
sum 9.511 -21.198 2.169 23.335
Atomic orbital electron populations
1.70388 1.08429 1.29234 1.36896 1.26889 0.96471 1.04337 0.94072
0.84580 0.78485 0.74129 0.79029 1.18936 1.20176 1.16689 1.20636
0.93449 0.80944 1.53416 0.84111 1.44860 1.03648 1.05134 1.39707
1.21985 0.98795 0.84555 1.17294 1.17269 0.93289 0.83101 1.22077
1.42301 1.09435 1.03694 1.68965 1.16632 0.84426 0.83104 0.78571
1.90791 1.26285 1.72606 1.52711 1.22208 0.84007 0.91721 1.12812
1.22448 1.01056 0.90353 0.99497 1.22063 0.90440 1.00326 1.02279
1.18344 0.91357 0.79592 1.09625 1.21850 0.87552 0.90526 1.04329
1.76173 1.16562 1.02884 1.18078 1.78911 0.91431 1.18649 1.14615
1.47779 1.13787 0.99917 1.42827 0.64138 1.75189 1.09150 1.08738
1.20763 1.84050 1.32815 1.17397 1.70331 1.24226 0.98943 0.90969
1.08535 1.78162 0.92077 1.16450 1.27350 0.91273 0.79474 0.74277
0.79774 0.78418 0.80965
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 N -0.82 -47.07 11.83 21.66 0.26 -46.82 16
2 C -0.01 -0.29 5.50 84.95 0.47 0.17 16
3 Si 1.02 38.19 29.56 68.60 2.03 40.22 16
4 H -0.26 -9.54 7.11 99.48 0.71 -8.84 16
5 H -0.28 -10.31 7.11 99.48 0.71 -9.60 16
6 H -0.24 -8.28 7.11 99.48 0.71 -7.57 16
7 C -0.35 -18.55 10.24 84.01 0.86 -17.69 16
8 H 0.14 6.39 7.84 -2.91 -0.02 6.37 16
9 N -0.17 -9.12 3.74 -189.99 -0.71 -9.83 16
10 C -0.08 -3.50 11.50 83.38 0.96 -2.54 16
11 C -0.05 -2.36 6.90 37.76 0.26 -2.10 16
12 N -0.60 -21.70 5.46 -307.60 -1.68 -23.37 16
13 C 0.59 20.97 7.75 86.40 0.67 21.64 16
14 O -0.54 -23.20 14.01 -4.49 -0.06 -23.27 16
15 C -0.05 -1.47 7.16 24.32 0.17 -1.30 16
16 C -0.11 -2.51 10.65 22.56 0.24 -2.27 16
17 C -0.13 -2.36 10.78 22.26 0.24 -2.12 16
18 C 0.07 1.42 7.24 24.39 0.18 1.59 16
19 C 0.24 4.73 8.20 137.06 1.12 5.85 16
20 N -0.26 -4.97 12.53 -52.44 -0.66 -5.62 16
21 N -0.04 -0.60 13.46 37.02 0.50 -0.11 16
22 N -0.19 -1.93 7.90 37.02 0.29 -1.64 16
23 H 0.50 -0.08 8.96 -347.50 -3.11 -3.20 16
24 N -0.28 -4.91 12.41 -52.40 -0.65 -5.56 16
25 O -0.15 -3.80 10.42 -9.54 -0.10 -3.90 16
26 C -0.05 -2.77 10.85 85.43 0.93 -1.84 16
27 N -0.31 -18.48 10.41 -56.45 -0.59 -19.07 16
28 H 0.28 14.57 8.31 -92.71 -0.77 13.80 16
29 H 0.19 6.84 8.06 -2.91 -0.02 6.82 16
30 H 0.42 12.07 8.58 -92.71 -0.80 11.27 16
31 H 0.18 3.58 8.06 -2.91 -0.02 3.55 16
32 H 0.20 2.40 8.06 -2.91 -0.02 2.38 16
33 H 0.17 9.22 5.91 -2.91 -0.02 9.21 16
Total: -1.00 -77.43 313.57 2.06 -75.38
By element:
Atomic # 1 Polarization: 26.86 SS G_CDS: -2.67 Total: 24.19 kcal
Atomic # 6 Polarization: -6.70 SS G_CDS: 6.10 Total: -0.61 kcal
Atomic # 7 Polarization: -108.78 SS G_CDS: -3.24 Total: -112.01 kcal
Atomic # 8 Polarization: -27.00 SS G_CDS: -0.16 Total: -27.16 kcal
Atomic # 14 Polarization: 38.19 SS G_CDS: 2.03 Total: 40.22 kcal
Total: -77.43 2.06 -75.38 kcal
The number of atoms in the molecule is 33
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.
ZINC001606354885.mol2 33
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 250.764 kcal
(2) G-P(sol) polarization free energy of solvation -77.434 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 173.330 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.056 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.379 kcal
(6) G-S(sol) free energy of system = (1) + (5) 175.385 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.55 seconds