Wall clock time and date at job start Mon Mar 30 2020 05:39:15
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 1.31631 * 1
3 3 Si 1.86795 * 120.00330 * 2 1
4 4 H 1.48495 * 109.47383 * 179.97438 * 3 2 1
5 5 H 1.48499 * 109.47375 * 300.00381 * 3 2 1
6 6 H 1.48505 * 109.46965 * 60.00065 * 3 2 1
7 7 C 1.38801 * 119.99737 * 180.02562 * 2 1 3
8 8 H 1.08006 * 119.99873 * 180.02562 * 7 2 1
9 9 S 1.76198 * 120.00096 * 359.97438 * 7 2 1
10 10 C 1.81002 * 99.99878 * 180.02562 * 9 7 2
11 11 C 1.50706 * 109.47200 * 179.97438 * 10 9 7
12 12 O 1.21279 * 119.99507 * 0.02562 * 11 10 9
13 13 N 1.34774 * 120.00020 * 179.97438 * 11 10 9
14 14 C 1.46496 * 119.99544 * 180.02562 * 13 11 10
15 15 H 1.08993 * 112.89335 * 23.65258 * 14 13 11
16 16 C 1.53959 * 113.66113 * 252.18499 * 14 13 11
17 17 C 1.53954 * 87.29628 * 220.79842 * 16 14 13
18 18 H 1.09005 * 113.74795 * 270.25263 * 17 16 14
19 19 O 1.42899 * 113.66072 * 139.20388 * 17 16 14
20 20 C 1.52915 * 86.78208 * 24.73342 * 17 16 14
21 21 C 1.52908 * 121.13700 * 100.82038 * 20 17 16
22 22 C 1.53954 * 86.78032 * 100.81964 * 21 20 17
23 23 C 1.52909 * 121.13294 * 209.38251 * 20 17 16
24 24 H 0.97001 * 119.99701 * 0.02562 * 1 2 3
25 25 H 1.09001 * 109.46925 * 60.00038 * 10 9 7
26 26 H 1.09000 * 109.47556 * 300.00312 * 10 9 7
27 27 H 0.96994 * 119.99756 * 0.02562 * 13 11 10
28 28 H 1.08997 * 113.57885 * 335.39692 * 16 14 13
29 29 H 1.08993 * 113.57969 * 106.19661 * 16 14 13
30 30 H 0.96698 * 113.99720 * 82.81543 * 19 17 16
31 31 H 1.08999 * 113.66197 * 215.29056 * 21 20 17
32 32 H 1.08999 * 113.66129 * 346.35318 * 21 20 17
33 33 H 1.08999 * 113.57803 * 270.12722 * 22 21 20
34 34 H 1.08997 * 113.57589 * 139.34154 * 22 21 20
35 35 H 1.09000 * 113.66680 * 13.65544 * 23 20 17
36 36 H 1.09007 * 113.66234 * 144.62047 * 23 20 17
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 1.3163 0.0000 0.0000
3 14 2.2504 1.6176 0.0000
4 1 3.7103 1.3463 0.0006
5 1 1.8916 2.3964 -1.2124
6 1 1.8916 2.3964 1.2126
7 6 2.0103 -1.2021 -0.0005
8 1 3.0903 -1.2021 -0.0001
9 16 1.1292 -2.7280 -0.0005
10 6 2.5158 -3.8914 -0.0005
11 6 1.9873 -5.3028 0.0001
12 8 0.7910 -5.5023 0.0000
13 7 2.8440 -6.3432 -0.0003
14 6 2.3302 -7.7151 -0.0003
15 1 1.3200 -7.7895 -0.4027
16 6 2.5180 -8.4452 1.3421
17 6 2.8969 -9.6946 0.5263
18 1 2.0465 -10.3275 0.2723
19 8 3.9914 -10.4294 1.0777
20 6 3.3035 -8.7349 -0.5926
21 6 4.7708 -8.3794 -0.8349
22 6 4.7349 -9.3927 -1.9934
23 6 3.2161 -9.1508 -2.0614
24 1 -0.4850 0.8401 -0.0004
25 1 3.1244 -3.7314 0.8895
26 1 3.1245 -3.7314 -0.8905
27 1 3.8007 -6.1835 -0.0006
28 1 3.3383 -8.0509 1.9419
29 1 1.5944 -8.5586 1.9097
30 1 3.7397 -11.0378 1.7859
31 1 4.9237 -7.3499 -1.1587
32 1 5.4321 -8.6711 -0.0190
33 1 5.0021 -10.4063 -1.6946
34 1 5.2700 -9.0580 -2.8821
35 1 2.6353 -10.0585 -2.2254
36 1 2.9305 -8.3384 -2.7299
RHF calculation, no. of doubly occupied orbitals= 48
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
ZINC000598315166.mol2 36
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Mon Mar 30 2020 05:39:15
Heat of formation + Delta-G solvation = -72.396970 kcal
Electronic energy + Delta-G solvation = -18448.398054 eV
Core-core repulsion = 15445.018731 eV
Total energy + Delta-G solvation = -3003.379323 eV
No. of doubly occupied orbitals = 48
Molecular weight
(most abundant/longest-lived isotopes) = 271.103 amu
Computer time = 0.70 seconds
Orbital eigenvalues (eV)
-42.00543 -40.08928 -37.00352 -35.87035 -34.59173 -33.69683 -30.64595 -27.69145
-26.75561 -25.67973 -25.05510 -22.03570 -21.72449 -19.95077 -19.14503 -18.57857
-17.91346 -17.12346 -16.88679 -16.57389 -16.23830 -16.15244 -15.81355 -14.85902
-14.56749 -14.45861 -14.13695 -13.75748 -13.46396 -13.24586 -13.16248 -13.06553
-12.91716 -12.61316 -12.40077 -12.29738 -11.73272 -11.55336 -11.34840 -11.19407
-11.16247 -10.91073 -10.57094 -10.28497 -9.97193 -8.67447 -8.35437 -6.13547
1.26314 1.41299 1.46553 1.57303 1.58109 2.23176 2.27617 2.98906
3.19278 3.30970 3.38024 3.46439 3.70390 3.80515 3.86629 3.92085
4.01105 4.28430 4.41215 4.48256 4.50279 4.55947 4.71068 4.83637
4.89096 4.96965 5.04823 5.10119 5.20288 5.37383 5.41599 5.51657
5.56750 6.19482 6.48088 6.93091 7.06068 7.21678 8.74103
Molecular weight = 271.10amu
Principal moments of inertia in cm(-1)
A = 0.038894 B = 0.003575 C = 0.003473
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 719.728224 B = 7830.619969 C = 8059.971661
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.911 5.911
2 C 0.014 3.986
3 Si 0.999 3.001
4 H -0.257 1.257
5 H -0.273 1.273
6 H -0.274 1.274
7 C -0.547 4.547
8 H 0.082 0.918
9 S -0.149 6.149
10 C -0.131 4.131
11 C 0.536 3.464
12 O -0.564 6.564
13 N -0.699 5.699
14 C 0.126 3.874
15 H 0.098 0.902
16 C -0.176 4.176
17 C 0.118 3.882
18 H 0.103 0.897
19 O -0.563 6.563
20 C -0.100 4.100
21 C -0.112 4.112
22 C -0.127 4.127
23 C -0.129 4.129
24 H 0.271 0.729
25 H 0.108 0.892
26 H 0.109 0.891
27 H 0.413 0.587
28 H 0.091 0.909
29 H 0.073 0.927
30 H 0.396 0.604
31 H 0.084 0.916
32 H 0.076 0.924
33 H 0.085 0.915
34 H 0.073 0.927
35 H 0.078 0.922
36 H 0.078 0.922
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 11.871 -21.132 -0.249 24.239
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 -0.548 5.548
2 C -0.191 4.191
3 Si 0.821 3.179
4 H -0.181 1.181
5 H -0.199 1.199
6 H -0.199 1.199
7 C -0.695 4.695
8 H 0.100 0.900
9 S 0.078 5.922
10 C -0.282 4.282
11 C 0.322 3.678
12 O -0.442 6.442
13 N -0.352 5.352
14 C 0.020 3.980
15 H 0.116 0.884
16 C -0.215 4.215
17 C 0.059 3.941
18 H 0.121 0.879
19 O -0.370 6.370
20 C -0.101 4.101
21 C -0.149 4.149
22 C -0.164 4.164
23 C -0.166 4.166
24 H 0.080 0.920
25 H 0.127 0.873
26 H 0.127 0.873
27 H 0.250 0.750
28 H 0.109 0.891
29 H 0.092 0.908
30 H 0.247 0.753
31 H 0.103 0.897
32 H 0.095 0.905
33 H 0.103 0.897
34 H 0.091 0.909
35 H 0.096 0.904
36 H 0.096 0.904
Dipole moment (debyes) X Y Z Total
from point charges 10.084 -21.046 -0.685 23.347
hybrid contribution 1.337 1.169 0.483 1.840
sum 11.421 -19.878 -0.202 22.926
Atomic orbital electron populations
1.70189 1.07975 1.28569 1.48032 1.26126 0.95965 1.03305 0.93687
0.84897 0.78588 0.76296 0.78110 1.18067 1.19873 1.19899 1.23247
0.95358 0.92034 1.58863 0.89956 1.85555 1.10434 0.99165 1.97043
1.23384 1.03636 0.94452 1.06712 1.20092 0.86294 0.86655 0.74776
1.90678 1.17307 1.86048 1.50206 1.45649 1.09972 1.04606 1.74934
1.22095 0.98541 0.79535 0.97796 0.88367 1.24107 1.02595 0.97663
0.97155 1.22648 0.89455 0.89991 0.92054 0.87932 1.86449 1.34325
1.59467 1.56798 1.23102 0.97035 0.94750 0.95260 1.22461 0.93471
0.99701 0.99314 1.22726 0.95636 0.99711 0.98319 1.22795 0.97774
1.01697 0.94346 0.91969 0.87349 0.87272 0.74957 0.89092 0.90831
0.75334 0.89722 0.90492 0.89670 0.90876 0.90368 0.90365
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 N -0.91 -56.14 13.22 21.65 0.29 -55.85 16
2 C 0.01 0.79 5.49 84.86 0.47 1.26 16
3 Si 1.00 43.72 29.55 68.60 2.03 45.74 16
4 H -0.26 -10.51 7.11 99.48 0.71 -9.80 16
5 H -0.27 -11.59 7.11 99.48 0.71 -10.88 16
6 H -0.27 -11.60 7.11 99.48 0.71 -10.90 16
7 C -0.55 -31.44 9.50 67.95 0.65 -30.80 16
8 H 0.08 4.40 7.80 -2.91 -0.02 4.38 16
9 S -0.15 -8.34 20.57 -56.49 -1.16 -9.50 16
10 C -0.13 -5.25 6.16 71.24 0.44 -4.81 16
11 C 0.54 20.09 7.85 87.66 0.69 20.78 16
12 O -0.56 -26.33 15.46 -3.02 -0.05 -26.38 16
13 N -0.70 -18.50 5.25 -441.14 -2.32 -20.82 16
14 C 0.13 2.95 4.12 45.29 0.19 3.13 16
15 H 0.10 2.74 7.46 -2.39 -0.02 2.72 16
16 C -0.18 -3.41 7.72 31.23 0.24 -3.17 16
17 C 0.12 1.80 5.09 30.89 0.16 1.95 16
18 H 0.10 1.26 8.14 -2.38 -0.02 1.24 16
19 O -0.56 -7.71 12.86 -148.98 -1.92 -9.63 16
20 C -0.10 -1.78 1.07 -52.31 -0.06 -1.84 16
21 C -0.11 -1.85 6.86 30.89 0.21 -1.63 16
22 C -0.13 -1.90 8.08 31.23 0.25 -1.65 16
23 C -0.13 -2.15 7.84 30.88 0.24 -1.91 16
24 H 0.27 15.45 8.31 -92.71 -0.77 14.68 16
25 H 0.11 3.94 8.14 -2.39 -0.02 3.92 16
26 H 0.11 3.95 8.14 -2.40 -0.02 3.93 16
27 H 0.41 8.60 7.03 -92.71 -0.65 7.95 16
28 H 0.09 1.81 8.14 -2.39 -0.02 1.79 16
29 H 0.07 1.45 8.14 -2.39 -0.02 1.44 16
30 H 0.40 2.14 9.12 -74.06 -0.68 1.47 16
31 H 0.08 1.35 7.03 -2.39 -0.02 1.33 16
32 H 0.08 1.32 7.65 -2.39 -0.02 1.30 16
33 H 0.08 1.25 8.14 -2.39 -0.02 1.23 16
34 H 0.07 1.01 8.14 -2.39 -0.02 0.99 16
35 H 0.08 1.16 8.14 -2.39 -0.02 1.14 16
36 H 0.08 1.46 8.14 -2.38 -0.02 1.44 16
Total: -1.00 -75.88 315.70 0.12 -75.76
By element:
Atomic # 1 Polarization: 19.58 SS G_CDS: -0.23 Total: 19.35 kcal
Atomic # 6 Polarization: -22.15 SS G_CDS: 3.47 Total: -18.68 kcal
Atomic # 7 Polarization: -74.64 SS G_CDS: -2.03 Total: -76.67 kcal
Atomic # 8 Polarization: -34.04 SS G_CDS: -1.96 Total: -36.01 kcal
Atomic # 14 Polarization: 43.72 SS G_CDS: 2.03 Total: 45.74 kcal
Atomic # 16 Polarization: -8.34 SS G_CDS: -1.16 Total: -9.50 kcal
Total: -75.88 0.12 -75.76 kcal
The number of atoms in the molecule is 36
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.
ZINC000598315166.mol2 36
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 3.363 kcal
(2) G-P(sol) polarization free energy of solvation -75.880 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -72.516 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.119 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.760 kcal
(6) G-S(sol) free energy of system = (1) + (5) -72.397 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.70 seconds