Wall clock time and date at job start Wed Apr 1 2020 02:52:16
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 1.31622 * 1
3 3 Si 1.86800 * 119.99943 * 2 1
4 4 H 1.48500 * 109.46955 * 269.99360 * 3 2 1
5 5 H 1.48497 * 109.47070 * 29.99867 * 3 2 1
6 6 H 1.48497 * 109.46911 * 149.99789 * 3 2 1
7 7 C 1.38820 * 119.99767 * 179.97438 * 2 1 3
8 8 H 1.08001 * 119.99669 * 180.02562 * 7 2 1
9 9 N 1.36936 * 120.00292 * 0.02562 * 7 2 1
10 10 C 1.46497 * 119.99862 * 179.97438 * 9 7 2
11 11 C 1.53003 * 109.46619 * 180.02562 * 10 9 7
12 12 H 1.08994 * 110.53903 * 307.60687 * 11 10 9
13 13 C 1.54885 * 110.48944 * 70.22727 * 11 10 9
14 14 C 1.54886 * 102.75009 * 156.61749 * 13 11 10
15 15 C 1.54267 * 104.19573 * 322.05480 * 14 13 11
16 16 C 1.53873 * 106.59578 * 23.61344 * 15 14 13
17 17 H 1.09008 * 110.03070 * 240.66138 * 16 15 14
18 18 N 1.46502 * 110.03266 * 119.28394 * 16 15 14
19 19 C 1.34775 * 119.99967 * 86.45098 * 18 16 15
20 20 O 1.21610 * 120.00190 * 0.02562 * 19 18 16
21 21 C 1.47365 * 120.00088 * 180.02562 * 19 18 16
22 22 C 1.38767 * 120.54880 * 359.97438 * 21 19 18
23 23 N 1.31903 * 121.11819 * 180.02562 * 22 21 19
24 24 C 1.31674 * 122.22162 * 359.97438 * 23 22 21
25 25 C 1.39295 * 121.13844 * 0.02562 * 24 23 22
26 26 S 1.75873 * 131.39517 * 180.02562 * 25 24 23
27 27 C 1.75546 * 91.52466 * 179.97438 * 26 25 24
28 28 C 1.32477 * 110.79392 * 359.97438 * 27 26 25
29 29 C 1.40004 * 115.78031 * 0.02562 * 28 27 26
30 30 H 0.97001 * 119.99980 * 0.02562 * 1 2 3
31 31 H 0.97002 * 119.99293 * 359.97438 * 9 7 2
32 32 H 1.08999 * 109.47039 * 59.99998 * 10 9 7
33 33 H 1.08996 * 109.46838 * 299.99826 * 10 9 7
34 34 H 1.09003 * 110.75689 * 38.29950 * 13 11 10
35 35 H 1.08999 * 110.75487 * 274.93284 * 13 11 10
36 36 H 1.08998 * 110.48871 * 203.37752 * 14 13 11
37 37 H 1.08999 * 110.48597 * 80.73694 * 14 13 11
38 38 H 1.08998 * 110.03522 * 264.32657 * 15 14 13
39 39 H 1.09005 * 110.02720 * 142.89233 * 15 14 13
40 40 H 0.97001 * 119.99787 * 266.44809 * 18 16 15
41 41 H 1.07998 * 119.44487 * 0.02562 * 22 21 19
42 42 H 1.07996 * 119.43125 * 179.72019 * 24 23 22
43 43 H 1.07996 * 124.60594 * 179.97438 * 27 26 25
44 44 H 1.08007 * 122.11167 * 179.97438 * 28 27 26
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 2.4978 2.0463 -1.4001
5 1 1.4476 2.6526 0.7000
6 1 3.5477 1.4402 0.7001
7 6 2.0103 -1.2022 0.0005
8 1 3.0903 -1.2022 0.0010
9 7 1.3256 -2.3882 0.0005
10 6 2.0581 -3.6568 0.0005
11 6 1.0638 -4.8197 -0.0001
12 1 0.3416 -4.7058 0.8082
13 6 0.3390 -4.9125 -1.3657
14 6 -0.1116 -6.3936 -1.4136
15 6 1.0598 -7.1663 -0.7729
16 6 1.8071 -6.1656 0.1258
17 1 2.8376 -6.0570 -0.2126
18 7 1.7820 -6.6246 1.5169
19 6 2.7252 -7.4782 1.9620
20 8 3.5975 -7.8670 1.2091
21 6 2.6997 -7.9403 3.3611
22 6 1.7100 -7.5034 4.2302
23 7 1.6767 -7.9094 5.4848
24 6 2.5696 -8.7425 5.9770
25 6 3.6037 -9.2395 5.1870
26 16 4.9203 -10.3457 5.5556
27 6 5.5333 -10.2373 3.9142
28 6 4.7812 -9.4274 3.1838
29 6 3.6932 -8.8453 3.8453
30 1 -0.4850 0.8401 -0.0004
31 1 0.3556 -2.3880 0.0005
32 1 2.6848 -3.7145 0.8905
33 1 2.6847 -3.7145 -0.8894
34 1 1.0252 -4.6908 -2.1831
35 1 -0.5228 -4.2456 -1.3918
36 1 -0.2611 -6.7137 -2.4448
37 1 -1.0238 -6.5338 -0.8336
38 1 1.7273 -7.5427 -1.5481
39 1 0.6783 -7.9934 -0.1741
40 1 1.0865 -6.3140 2.1176
41 1 0.9542 -6.8194 3.8734
42 1 2.5021 -9.0419 7.0125
43 1 6.4051 -10.7599 3.5493
44 1 4.9945 -9.2280 2.1440
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
ZINC001699026495.mol2 44
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 02:52:16
Heat of formation + Delta-G solvation = 5.551032 kcal
Electronic energy + Delta-G solvation = -26998.077093 eV
Core-core repulsion = 23233.702279 eV
Total energy + Delta-G solvation = -3764.374814 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 345.125 amu
Computer time = 1.09 seconds
Orbital eigenvalues (eV)
-41.99303 -40.64908 -39.04966 -37.41586 -36.31884 -34.88200 -33.31732 -32.69583
-31.40845 -30.22060 -28.70790 -26.42779 -25.72628 -25.38425 -23.87451 -22.47730
-22.06352 -21.34937 -20.96010 -19.59374 -18.99303 -18.50938 -17.67210 -17.34631
-16.95119 -16.58437 -16.35737 -15.92865 -15.75022 -15.29775 -15.25456 -15.12427
-15.07257 -15.03188 -14.64411 -14.43149 -13.76179 -13.49342 -13.33485 -13.17047
-13.12379 -12.91895 -12.79397 -12.47024 -12.18481 -11.99461 -11.96734 -11.87877
-11.63860 -11.59532 -11.43014 -11.38566 -11.04315 -10.94118 -10.64818 -10.21401
-10.09443 -9.00466 -8.93224 -7.96312 -5.24512 -0.88952 -0.37111 0.35303
0.76489 1.22181 1.46415 1.47596 1.56114 1.68571 2.01929 2.54748
2.66471 3.18207 3.36670 3.39688 3.45283 3.59897 3.65778 3.67092
3.89960 3.94522 4.11832 4.18059 4.28221 4.40202 4.46688 4.48806
4.54395 4.58843 4.64969 4.72870 4.78949 4.98006 4.99303 5.03402
5.08740 5.16094 5.20689 5.24278 5.29681 5.33439 5.46102 5.50369
5.57093 6.26278 6.40560 6.65599 7.07639 7.33349 8.07989 8.33549
9.26864
Molecular weight = 345.13amu
Principal moments of inertia in cm(-1)
A = 0.012846 B = 0.002448 C = 0.002256
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2179.076151 B =11437.421410 C =12410.370252
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.965 5.965
2 C -0.071 4.071
3 Si 0.970 3.030
4 H -0.286 1.286
5 H -0.293 1.293
6 H -0.273 1.273
7 C -0.248 4.248
8 H 0.069 0.931
9 N -0.739 5.739
10 C 0.162 3.838
11 C -0.091 4.091
12 H 0.086 0.914
13 C -0.110 4.110
14 C -0.112 4.112
15 C -0.123 4.123
16 C 0.155 3.845
17 H 0.074 0.926
18 N -0.704 5.704
19 C 0.564 3.436
20 O -0.564 6.564
21 C -0.172 4.172
22 C 0.131 3.869
23 N -0.494 5.494
24 C 0.188 3.812
25 C -0.238 4.238
26 S 0.178 5.822
27 C -0.156 4.156
28 C -0.157 4.157
29 C -0.001 4.001
30 H 0.252 0.748
31 H 0.377 0.623
32 H 0.009 0.991
33 H 0.015 0.985
34 H 0.060 0.940
35 H 0.062 0.938
36 H 0.079 0.921
37 H 0.077 0.923
38 H 0.070 0.930
39 H 0.073 0.927
40 H 0.410 0.590
41 H 0.181 0.819
42 H 0.199 0.801
43 H 0.205 0.795
44 H 0.150 0.850
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 5.417 -26.390 10.295 28.840
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 -0.616 5.616
2 C -0.264 4.264
3 Si 0.799 3.201
4 H -0.213 1.213
5 H -0.219 1.219
6 H -0.198 1.198
7 C -0.379 4.379
8 H 0.087 0.913
9 N -0.381 5.381
10 C 0.036 3.964
11 C -0.111 4.111
12 H 0.104 0.896
13 C -0.149 4.149
14 C -0.149 4.149
15 C -0.161 4.161
16 C 0.050 3.950
17 H 0.093 0.907
18 N -0.355 5.355
19 C 0.352 3.648
20 O -0.444 6.444
21 C -0.179 4.179
22 C -0.022 4.022
23 N -0.203 5.203
24 C 0.021 3.979
25 C -0.356 4.356
26 S 0.441 5.559
27 C -0.292 4.292
28 C -0.187 4.187
29 C -0.018 4.018
30 H 0.061 0.939
31 H 0.210 0.790
32 H 0.027 0.973
33 H 0.033 0.967
34 H 0.079 0.921
35 H 0.080 0.920
36 H 0.098 0.902
37 H 0.096 0.904
38 H 0.089 0.911
39 H 0.092 0.908
40 H 0.248 0.752
41 H 0.198 0.802
42 H 0.216 0.784
43 H 0.222 0.778
44 H 0.167 0.833
Dipole moment (debyes) X Y Z Total
from point charges 5.997 -27.015 11.518 29.973
hybrid contribution 0.053 1.990 -1.787 2.675
sum 6.050 -25.024 9.731 27.523
Atomic orbital electron populations
1.69795 1.06396 1.26112 1.59297 1.25507 0.96418 1.00853 1.03578
0.85188 0.77686 0.79705 0.77476 1.21344 1.21901 1.19807 1.19577
0.91303 0.85562 1.41500 0.91306 1.42459 1.05636 1.00757 1.89293
1.20769 0.93639 0.85069 0.96956 1.22282 0.97023 0.92089 0.99658
0.89584 1.22407 0.99663 0.97280 0.95502 1.22323 0.97745 0.93251
1.01618 1.22471 0.97473 0.97525 0.98657 1.21557 1.00167 0.92657
0.80636 0.90744 1.46023 1.30134 1.46288 1.13099 1.18052 0.81259
0.78746 0.86749 1.90703 1.37472 1.58163 1.58105 1.20781 0.99306
1.02792 0.95033 1.23044 0.95283 0.95473 0.88406 1.67836 1.25760
1.12447 1.14236 1.22991 0.85848 0.88679 1.00417 1.24149 1.05303
1.07995 0.98114 1.83986 1.19057 1.43471 1.09409 1.26044 1.04375
1.01904 0.96859 1.20224 0.95377 0.99947 1.03118 1.18511 0.95017
0.95443 0.92841 0.93897 0.79044 0.97299 0.96673 0.92102 0.91956
0.90228 0.90423 0.91122 0.90807 0.75212 0.80211 0.78444 0.77820
0.83290
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 -0.97 -58.69 13.06 21.65 0.28 -58.40 16
2 C -0.07 -4.10 5.50 84.86 0.47 -3.63 16
3 Si 0.97 46.52 29.55 68.60 2.03 48.55 16
4 H -0.29 -13.48 7.11 99.48 0.71 -12.77 16
5 H -0.29 -13.99 7.11 99.48 0.71 -13.28 16
6 H -0.27 -12.54 7.11 99.48 0.71 -11.83 16
7 C -0.25 -14.03 9.99 84.04 0.84 -13.19 16
8 H 0.07 3.82 7.83 -2.91 -0.02 3.80 16
9 N -0.74 -37.43 5.49 -343.45 -1.89 -39.32 16
10 C 0.16 6.58 5.54 86.38 0.48 7.06 16
11 C -0.09 -2.77 2.58 -9.72 -0.03 -2.80 16
12 H 0.09 2.53 7.73 -2.39 -0.02 2.52 16
13 C -0.11 -3.16 6.19 31.88 0.20 -2.96 16
14 C -0.11 -2.39 6.83 31.67 0.22 -2.17 16
15 C -0.12 -2.76 6.59 31.32 0.21 -2.55 16
16 C 0.15 4.13 2.79 45.71 0.13 4.26 16
17 H 0.07 2.33 7.30 -2.38 -0.02 2.31 16
18 N -0.70 -16.93 4.94 -442.41 -2.19 -19.11 16
19 C 0.56 15.39 7.76 86.65 0.67 16.06 16
20 O -0.56 -18.54 14.14 -4.06 -0.06 -18.59 16
21 C -0.17 -4.15 5.94 -19.60 -0.12 -4.27 16
22 C 0.13 2.72 10.67 84.81 0.90 3.62 16
23 N -0.49 -10.15 10.32 -194.64 -2.01 -12.16 16
24 C 0.19 3.13 11.20 84.97 0.95 4.09 16
25 C -0.24 -4.35 6.52 22.98 0.15 -4.20 16
26 S 0.18 2.20 23.29 -56.49 -1.32 0.89 16
27 C -0.16 -2.23 11.10 66.69 0.74 -1.49 16
28 C -0.16 -3.38 9.43 21.57 0.20 -3.18 16
29 C 0.00 -0.02 5.88 -21.24 -0.12 -0.15 16
30 H 0.25 14.83 8.31 -92.71 -0.77 14.06 16
31 H 0.38 19.91 7.64 -92.71 -0.71 19.21 16
32 H 0.01 0.38 8.14 -2.39 -0.02 0.36 16
33 H 0.02 0.64 8.02 -2.39 -0.02 0.62 16
34 H 0.06 1.86 7.96 -2.39 -0.02 1.84 16
35 H 0.06 1.95 8.14 -2.39 -0.02 1.93 16
36 H 0.08 1.50 8.14 -2.39 -0.02 1.48 16
37 H 0.08 1.49 8.14 -2.39 -0.02 1.47 16
38 H 0.07 1.60 8.14 -2.39 -0.02 1.58 16
39 H 0.07 1.56 7.92 -2.38 -0.02 1.54 16
40 H 0.41 7.97 6.38 -92.71 -0.59 7.38 16
41 H 0.18 2.88 6.37 -2.91 -0.02 2.86 16
42 H 0.20 1.79 8.06 -2.91 -0.02 1.77 16
43 H 0.20 1.53 8.06 -2.91 -0.02 1.51 16
44 H 0.15 3.73 6.28 -2.91 -0.02 3.71 16
Total: -1.00 -72.07 375.20 0.50 -71.58
By element:
Atomic # 1 Polarization: 32.32 SS G_CDS: -0.25 Total: 32.07 kcal
Atomic # 6 Polarization: -11.38 SS G_CDS: 5.89 Total: -5.49 kcal
Atomic # 7 Polarization: -123.19 SS G_CDS: -5.80 Total: -128.99 kcal
Atomic # 8 Polarization: -18.54 SS G_CDS: -0.06 Total: -18.59 kcal
Atomic # 14 Polarization: 46.52 SS G_CDS: 2.03 Total: 48.55 kcal
Atomic # 16 Polarization: 2.20 SS G_CDS: -1.32 Total: 0.89 kcal
Total: -72.07 0.50 -71.58 kcal
The number of atoms in the molecule is 44
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.
ZINC001699026495.mol2 44
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 77.127 kcal
(2) G-P(sol) polarization free energy of solvation -72.073 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 5.054 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.497 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.576 kcal
(6) G-S(sol) free energy of system = (1) + (5) 5.551 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.09 seconds