Wall clock time and date at job start Tue Mar 31 2020 03:06:12
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 O 1.42893 * 1
3 3 C 1.35508 * 117.00528 * 2 1
4 4 C 1.39634 * 120.49594 * 179.97438 * 3 2 1
5 5 C 1.39149 * 118.20735 * 180.02562 * 4 3 2
6 6 C 1.48445 * 120.51848 * 179.97438 * 5 4 3
7 7 O 1.21482 * 120.00349 * 342.70751 * 6 5 4
8 8 N 1.34774 * 120.00073 * 162.69572 * 6 5 4
9 9 C 1.46966 * 120.59889 * 176.86796 * 8 6 5
10 10 C 1.53817 * 108.39983 * 124.75952 * 9 8 6
11 11 N 1.46965 * 108.57295 * 49.64101 * 10 9 8
12 12 C 1.36938 * 120.58863 * 124.66912 * 11 10 9
13 13 H 1.07996 * 119.99965 * 215.29457 * 12 11 10
14 14 C 1.38808 * 120.00104 * 35.30102 * 12 11 10
15 15 N 1.31618 * 120.00055 * 4.07731 * 14 12 11
16 16 Si 1.86807 * 120.00075 * 184.07867 * 14 12 11
17 17 H 1.48493 * 109.47237 * 59.99807 * 16 14 12
18 18 H 1.48497 * 109.46926 * 180.02562 * 16 14 12
19 19 H 1.48509 * 109.46948 * 299.99618 * 16 14 12
20 20 C 1.46965 * 118.81517 * 304.64576 * 11 10 9
21 21 C 1.46970 * 120.59234 * 357.15744 * 8 6 5
22 22 N 1.33279 * 118.96338 * 0.02562 * 5 4 3
23 23 C 1.31526 * 120.88671 * 359.97438 * 22 5 4
24 24 N 1.31887 * 121.98998 * 359.71360 * 23 22 5
25 25 H 1.08998 * 109.47643 * 299.99741 * 1 2 3
26 26 H 1.09005 * 109.47528 * 59.99958 * 1 2 3
27 27 H 1.09000 * 109.47315 * 180.02562 * 1 2 3
28 28 H 1.08001 * 120.89885 * 0.02861 * 4 3 2
29 29 H 1.08995 * 109.61196 * 244.54870 * 9 8 6
30 30 H 1.09004 * 109.60178 * 5.06180 * 9 8 6
31 31 H 1.08996 * 109.73916 * 289.85823 * 10 9 8
32 32 H 1.08993 * 109.53118 * 169.30476 * 10 9 8
33 33 H 0.97001 * 119.99806 * 179.97438 * 15 14 12
34 34 H 1.08996 * 109.60989 * 295.48025 * 20 11 10
35 35 H 1.09002 * 109.60905 * 174.97491 * 20 11 10
36 36 H 1.08993 * 109.60896 * 354.93740 * 21 8 6
37 37 H 1.09003 * 109.60920 * 115.45668 * 21 8 6
38 38 H 1.08003 * 119.00397 * 180.02562 * 23 22 5
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 8 1.4289 0.0000 0.0000
3 6 2.0442 1.2073 0.0000
4 6 3.4380 1.2923 0.0005
5 6 4.0198 2.5563 0.0011
6 6 5.4966 2.7064 0.0022
7 8 6.2023 1.7685 0.3154
8 7 6.0547 3.8832 -0.3445
9 6 7.5114 4.0675 -0.2822
10 6 8.0017 4.5312 -1.6644
11 7 7.1638 5.6551 -2.1055
12 6 7.7308 6.8508 -2.4576
13 1 7.2209 7.7765 -2.2353
14 6 8.9609 6.8731 -3.1004
15 7 9.5447 5.7444 -3.4434
16 14 9.7877 8.5049 -3.4787
17 1 10.0311 9.2417 -2.2127
18 1 11.0813 8.2571 -4.1645
19 1 8.9075 9.3131 -4.3605
20 6 5.7066 5.4727 -2.1624
21 6 5.2168 5.0072 -0.7855
22 7 3.2304 3.6302 0.0016
23 6 1.9210 3.5057 0.0010
24 7 1.3314 2.3260 -0.0056
25 1 -0.3634 0.5138 0.8900
26 1 -0.3634 0.5138 -0.8900
27 1 -0.3634 -1.0276 0.0005
28 1 4.0480 0.4011 0.0005
29 1 7.7531 4.8217 0.4666
30 1 7.9887 3.1229 -0.0210
31 1 7.9195 3.7115 -2.3782
32 1 9.0400 4.8549 -1.5930
33 1 10.4041 5.7600 -3.8929
34 1 5.4612 4.7201 -2.9117
35 1 5.2294 6.4182 -2.4200
36 1 4.1785 4.6835 -0.8569
37 1 5.2990 5.8269 -0.0717
38 1 1.3103 4.3964 0.0010
RHF calculation, no. of doubly occupied orbitals= 54
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
ZINC000933235978.mol2 38
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 03:06:12
Heat of formation + Delta-G solvation = 11.469295 kcal
Electronic energy + Delta-G solvation = -23381.482200 eV
Core-core repulsion = 19839.857331 eV
Total energy + Delta-G solvation = -3541.624869 eV
No. of doubly occupied orbitals = 54
Molecular weight
(most abundant/longest-lived isotopes) = 292.132 amu
Computer time = 0.44 seconds
Orbital eigenvalues (eV)
-42.61236 -40.94430 -39.48975 -38.50176 -35.79100 -34.57470 -33.06831 -32.99847
-31.85958 -29.09225 -28.45641 -26.42074 -25.53917 -24.98173 -24.27713 -22.50516
-20.99147 -19.55321 -19.49022 -18.33515 -17.48151 -17.26784 -17.18259 -16.77818
-16.66772 -16.41849 -16.02833 -15.45259 -15.42333 -15.17573 -15.10499 -14.93545
-14.67668 -14.02279 -13.46585 -13.05144 -12.92189 -12.79383 -12.62112 -12.47653
-12.36347 -12.03270 -12.00693 -11.85552 -11.65987 -11.57752 -11.48247 -10.59786
-10.38976 -10.12805 -9.84978 -8.54903 -7.86436 -5.46217 -0.69829 -0.16110
1.47637 1.49589 1.51732 1.58073 1.59651 1.98931 2.49836 2.59321
2.75671 2.96838 3.29431 3.39145 3.67832 3.74284 3.96548 4.29442
4.31689 4.41608 4.42351 4.43414 4.48021 4.64833 4.66991 4.71675
4.80368 4.88502 5.05305 5.26900 5.27868 5.49392 5.58001 5.64296
5.66780 5.93604 6.33730 6.41501 6.73702 6.92560 7.12802 7.78198
8.35448 9.17372
Molecular weight = 292.13amu
Principal moments of inertia in cm(-1)
A = 0.035574 B = 0.003546 C = 0.003367
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 786.899615 B = 7893.276052 C = 8313.030786
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.030 3.970
2 O -0.306 6.306
3 C 0.370 3.630
4 C -0.194 4.194
5 C 0.159 3.841
6 C 0.556 3.444
7 O -0.568 6.568
8 N -0.573 5.573
9 C 0.096 3.904
10 C 0.172 3.828
11 N -0.611 5.611
12 C -0.267 4.267
13 H 0.072 0.928
14 C -0.046 4.046
15 N -0.938 5.938
16 Si 0.974 3.026
17 H -0.274 1.274
18 H -0.297 1.297
19 H -0.274 1.274
20 C 0.127 3.873
21 C 0.069 3.931
22 N -0.518 5.518
23 C 0.340 3.660
24 N -0.561 5.561
25 H 0.068 0.932
26 H 0.067 0.933
27 H 0.128 0.872
28 H 0.161 0.839
29 H 0.072 0.928
30 H 0.081 0.919
31 H -0.008 1.008
32 H 0.075 0.925
33 H 0.251 0.749
34 H 0.006 0.994
35 H 0.079 0.921
36 H 0.160 0.840
37 H 0.070 0.930
38 H 0.251 0.749
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -19.935 -6.567 7.991 22.458
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 -0.064 4.064
2 O -0.209 6.209
3 C 0.181 3.819
4 C -0.218 4.218
5 C 0.017 3.983
6 C 0.342 3.658
7 O -0.448 6.448
8 N -0.302 5.302
9 C -0.028 4.028
10 C 0.045 3.955
11 N -0.335 5.335
12 C -0.397 4.397
13 H 0.090 0.910
14 C -0.242 4.242
15 N -0.583 5.583
16 Si 0.802 3.198
17 H -0.200 1.200
18 H -0.223 1.223
19 H -0.200 1.200
20 C 0.001 3.999
21 C -0.054 4.054
22 N -0.240 5.240
23 C 0.053 3.947
24 N -0.293 5.293
25 H 0.087 0.913
26 H 0.086 0.914
27 H 0.146 0.854
28 H 0.178 0.822
29 H 0.091 0.909
30 H 0.099 0.901
31 H 0.010 0.990
32 H 0.093 0.907
33 H 0.061 0.939
34 H 0.024 0.976
35 H 0.097 0.903
36 H 0.176 0.824
37 H 0.088 0.912
38 H 0.267 0.733
Dipole moment (debyes) X Y Z Total
from point charges -19.845 -6.590 8.052 22.408
hybrid contribution 1.344 -0.040 -0.550 1.453
sum -18.501 -6.630 7.502 21.036
Atomic orbital electron populations
1.23310 0.74229 1.05556 1.03281 1.86268 1.25658 1.23002 1.86011
1.20041 0.88765 0.85984 0.87152 1.21843 0.93596 0.99881 1.06500
1.21081 0.93606 0.89721 0.93908 1.18166 0.86552 0.82694 0.78344
1.90737 1.62781 1.39836 1.51412 1.48048 1.08245 1.12363 1.61564
1.22436 0.79404 1.01195 0.99761 1.20979 0.96385 0.88431 0.89664
1.44212 1.01497 1.10905 1.76844 1.19501 1.03477 0.85693 1.31022
0.91007 1.26109 1.00437 0.99993 0.97623 1.70088 1.17434 1.26802
1.44014 0.85252 0.77108 0.79351 0.78127 1.19975 1.22281 1.19963
1.21543 0.84648 0.99050 0.94649 1.23545 0.98266 0.87891 0.95664
1.68320 1.07232 1.30863 1.17562 1.25766 0.87672 0.95016 0.86205
1.68183 1.41496 0.99234 1.20342 0.91322 0.91442 0.85424 0.82178
0.90940 0.90076 0.98969 0.90683 0.93935 0.97601 0.90277 0.82424
0.91171 0.73303
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 0.03 0.33 10.41 113.37 1.18 1.51 16
2 O -0.31 -5.85 10.49 -88.09 -0.92 -6.77 16
3 C 0.37 8.12 7.54 84.91 0.64 8.76 16
4 C -0.19 -5.03 9.67 22.83 0.22 -4.81 16
5 C 0.16 4.63 6.53 41.87 0.27 4.90 16
6 C 0.56 20.33 7.66 86.96 0.67 21.00 16
7 O -0.57 -23.59 15.95 -3.66 -0.06 -23.65 16
8 N -0.57 -21.71 2.94 -819.86 -2.41 -24.12 16
9 C 0.10 4.00 6.63 86.57 0.57 4.57 16
10 C 0.17 8.63 5.44 86.57 0.47 9.10 16
11 N -0.61 -30.75 2.95 -697.36 -2.06 -32.81 16
12 C -0.27 -14.36 9.55 84.03 0.80 -13.56 16
13 H 0.07 3.68 7.83 -2.91 -0.02 3.66 16
14 C -0.05 -2.54 5.17 84.86 0.44 -2.10 16
15 N -0.94 -55.34 10.95 21.65 0.24 -55.11 16
16 Si 0.97 44.03 29.56 68.60 2.03 46.06 16
17 H -0.27 -11.92 7.11 99.48 0.71 -11.21 16
18 H -0.30 -13.61 7.11 99.48 0.71 -12.90 16
19 H -0.27 -11.93 7.11 99.48 0.71 -11.23 16
20 C 0.13 5.20 6.67 86.42 0.58 5.78 16
21 C 0.07 2.34 6.17 86.41 0.53 2.87 16
22 N -0.52 -12.35 6.44 -189.36 -1.22 -13.57 16
23 C 0.34 5.85 12.27 180.94 2.22 8.07 16
24 N -0.56 -10.69 9.36 -313.01 -2.93 -13.62 16
25 H 0.07 0.70 8.12 -2.39 -0.02 0.69 16
26 H 0.07 0.72 8.12 -2.38 -0.02 0.70 16
27 H 0.13 0.72 8.14 -2.39 -0.02 0.70 16
28 H 0.16 4.19 7.82 -2.91 -0.02 4.17 16
29 H 0.07 2.90 8.14 -2.39 -0.02 2.88 16
30 H 0.08 3.36 6.99 -2.38 -0.02 3.35 16
31 H -0.01 -0.43 8.14 -2.39 -0.02 -0.45 16
32 H 0.08 4.17 6.11 -2.39 -0.01 4.15 16
33 H 0.25 14.42 8.31 -92.71 -0.77 13.65 16
34 H 0.01 0.26 8.14 -2.39 -0.02 0.24 16
35 H 0.08 2.99 7.93 -2.39 -0.02 2.97 16
36 H 0.16 4.54 3.93 -59.54 -0.23 4.30 16
37 H 0.07 2.31 8.14 -2.39 -0.02 2.30 16
38 H 0.25 1.90 8.06 -2.91 -0.02 1.87 16
Total: -1.00 -69.78 317.60 2.12 -67.66
By element:
Atomic # 1 Polarization: 8.98 SS G_CDS: 0.86 Total: 9.84 kcal
Atomic # 6 Polarization: 37.49 SS G_CDS: 8.60 Total: 46.09 kcal
Atomic # 7 Polarization: -130.84 SS G_CDS: -8.38 Total: -139.23 kcal
Atomic # 8 Polarization: -29.44 SS G_CDS: -0.98 Total: -30.42 kcal
Atomic # 14 Polarization: 44.03 SS G_CDS: 2.03 Total: 46.06 kcal
Total: -69.78 2.12 -67.66 kcal
The number of atoms in the molecule is 38
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.
ZINC000933235978.mol2 38
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 79.125 kcal
(2) G-P(sol) polarization free energy of solvation -69.775 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 9.350 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.119 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.656 kcal
(6) G-S(sol) free energy of system = (1) + (5) 11.469 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.44 seconds