Wall clock time and date at job start Wed Apr 1 2020 05:42:06
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 1.31636 * 1
3 3 Si 1.86802 * 119.99909 * 2 1
4 4 H 1.48495 * 109.47429 * 240.00438 * 3 2 1
5 5 H 1.48506 * 109.47162 * 0.02562 * 3 2 1
6 6 H 1.48501 * 109.46915 * 120.00424 * 3 2 1
7 7 C 1.38795 * 120.00274 * 180.02562 * 2 1 3
8 8 H 1.08005 * 120.00218 * 179.97438 * 7 2 1
9 9 S 1.76198 * 119.99765 * 0.02562 * 7 2 1
10 10 C 1.81005 * 99.99904 * 180.02562 * 9 7 2
11 11 C 1.50707 * 109.47160 * 179.97438 * 10 9 7
12 12 O 1.21277 * 119.99709 * 359.97438 * 11 10 9
13 13 N 1.34770 * 120.00011 * 179.97438 * 11 10 9
14 14 C 1.46501 * 120.00123 * 179.97438 * 13 11 10
15 15 C 1.53001 * 109.47044 * 179.97438 * 14 13 11
16 16 C 1.53000 * 109.46813 * 179.97438 * 15 14 13
17 17 N 1.46501 * 109.46942 * 180.02562 * 16 15 14
18 18 C 1.34527 * 124.46193 * 270.32752 * 17 16 15
19 19 O 1.21446 * 125.70963 * 359.77248 * 18 17 16
20 20 C 1.47821 * 108.57647 * 180.13075 * 18 17 16
21 21 C 1.38562 * 134.29367 * 179.88273 * 20 18 17
22 22 C 1.38611 * 119.71824 * 179.64830 * 21 20 18
23 23 C 1.38225 * 120.46055 * 0.03750 * 22 21 20
24 24 C 1.38620 * 120.45740 * 359.97438 * 23 22 21
25 25 C 1.38559 * 119.71962 * 359.97438 * 24 23 22
26 26 C 1.34523 * 124.45731 * 90.00929 * 17 16 15
27 27 O 1.21451 * 125.71329 * 0.04483 * 26 17 16
28 28 H 0.97001 * 119.99858 * 359.97438 * 1 2 3
29 29 H 1.08998 * 109.47188 * 59.99878 * 10 9 7
30 30 H 1.09000 * 109.47169 * 299.99361 * 10 9 7
31 31 H 0.97002 * 119.99859 * 0.02562 * 13 11 10
32 32 H 1.08998 * 109.46657 * 60.00273 * 14 13 11
33 33 H 1.09000 * 109.46958 * 300.00211 * 14 13 11
34 34 H 1.08998 * 109.46958 * 60.00718 * 15 14 13
35 35 H 1.08988 * 109.47276 * 300.00333 * 15 14 13
36 36 H 1.09003 * 109.47191 * 60.00460 * 16 15 14
37 37 H 1.09004 * 109.47536 * 300.00570 * 16 15 14
38 38 H 1.08005 * 120.14443 * 359.66834 * 21 20 18
39 39 H 1.08005 * 119.76997 * 180.02562 * 22 21 20
40 40 H 1.08002 * 119.77617 * 180.02562 * 23 22 21
41 41 H 1.08002 * 120.13832 * 179.97438 * 24 23 22
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 1.3164 0.0000 0.0000
3 14 2.2503 1.6178 0.0000
4 1 3.1040 1.6966 -1.2125
5 1 1.2853 2.7465 0.0006
6 1 3.1042 1.6964 1.2125
7 6 2.0104 -1.2020 -0.0005
8 1 3.0904 -1.2020 -0.0010
9 16 1.1294 -2.7279 -0.0019
10 6 2.5160 -3.8913 -0.0013
11 6 1.9876 -5.3027 -0.0018
12 8 0.7913 -5.5023 -0.0019
13 7 2.8443 -6.3430 -0.0020
14 6 2.3306 -7.7150 -0.0018
15 6 3.5028 -8.6984 -0.0027
16 6 2.9662 -10.1313 -0.0019
17 7 4.0885 -11.0729 -0.0022
18 6 4.6751 -11.5578 -1.1115
19 8 4.3606 -11.2914 -2.2539
20 6 5.7610 -12.4757 -0.7072
21 6 6.6819 -13.2482 -1.3965
22 6 7.5982 -14.0152 -0.6941
23 6 7.5987 -14.0150 0.6882
24 6 6.6832 -13.2473 1.3911
25 6 5.7620 -12.4748 0.7022
26 6 4.6721 -11.5619 1.1069
27 8 4.3565 -11.2974 2.2494
28 1 -0.4850 0.8401 0.0004
29 1 3.1240 -3.7316 0.8891
30 1 3.1253 -3.7309 -0.8908
31 1 3.8011 -6.1834 -0.0015
32 1 1.7218 -7.8751 -0.8916
33 1 1.7223 -7.8751 0.8883
34 1 4.1119 -8.5385 0.8869
35 1 4.1107 -8.5382 -0.8930
36 1 2.3568 -10.2916 -0.8913
37 1 2.3584 -10.2912 0.8887
38 1 6.6859 -13.2525 -2.4765
39 1 8.3166 -14.6173 -1.2305
40 1 8.3179 -14.6164 1.2243
41 1 6.6880 -13.2513 2.4711
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC000286531322.mol2 41
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 05:42:06
Heat of formation + Delta-G solvation = -57.170932 kcal
Electronic energy + Delta-G solvation = -25785.338266 eV
Core-core repulsion = 21757.380388 eV
Total energy + Delta-G solvation = -4027.957878 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 348.098 amu
Computer time = 0.62 seconds
Orbital eigenvalues (eV)
-42.82584 -39.27354 -39.09040 -39.01961 -36.59702 -35.47947 -33.31699 -32.41396
-31.78536 -31.17062 -29.17116 -26.45074 -25.64642 -25.44481 -23.62071 -22.75465
-22.09882 -20.57578 -20.15297 -18.35203 -17.88464 -17.77613 -17.09525 -16.82128
-16.19029 -15.98625 -15.78140 -15.71178 -15.13871 -14.93142 -14.78946 -14.65659
-14.59941 -14.44972 -13.94818 -13.58219 -13.14313 -13.00708 -13.00186 -12.92867
-12.51357 -12.39752 -11.96781 -11.90280 -11.27795 -11.03478 -11.02591 -11.01658
-10.79485 -10.76136 -10.36378 -9.87792 -9.86153 -9.81068 -9.40313 -9.05166
-8.90483 -8.22765 -6.48614 -6.20098 -3.90795 -0.52903 0.32032 1.44832
1.78708 2.42156 2.96753 3.04320 3.04929 3.10361 3.24667 3.28557
3.32200 3.69811 3.75869 3.96086 4.21861 4.22660 4.38340 4.43452
4.54159 4.55830 4.61463 4.74883 4.94690 5.04135 5.08059 5.13056
5.14881 5.21820 5.28481 5.42688 5.46783 5.53675 5.64628 5.71772
5.89296 5.90865 5.92531 6.15185 6.17299 6.58464 6.69612 7.15671
7.60550 7.69186 8.36392 8.60906 9.24970 10.87268
Molecular weight = 348.10amu
Principal moments of inertia in cm(-1)
A = 0.024684 B = 0.001547 C = 0.001532
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1134.088114 B =18091.202967 C =18273.839573
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.868 5.868
2 C 0.074 3.926
3 Si 0.919 3.081
4 H -0.274 1.274
5 H -0.283 1.283
6 H -0.274 1.274
7 C -0.537 4.537
8 H 0.072 0.928
9 S -0.060 6.060
10 C -0.154 4.154
11 C 0.532 3.468
12 O -0.517 6.517
13 N -0.739 5.739
14 C 0.126 3.874
15 C -0.149 4.149
16 C 0.114 3.886
17 N -0.575 5.575
18 C 0.573 3.427
19 O -0.457 6.457
20 C -0.140 4.140
21 C -0.045 4.045
22 C -0.096 4.096
23 C -0.096 4.096
24 C -0.045 4.045
25 C -0.140 4.140
26 C 0.573 3.427
27 O -0.457 6.457
28 H 0.269 0.731
29 H 0.090 0.910
30 H 0.090 0.910
31 H 0.398 0.602
32 H 0.071 0.929
33 H 0.071 0.929
34 H 0.077 0.923
35 H 0.077 0.923
36 H 0.103 0.897
37 H 0.103 0.897
38 H 0.143 0.857
39 H 0.143 0.857
40 H 0.143 0.857
41 H 0.143 0.857
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 18.548 -33.119 -0.006 37.959
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 -0.503 5.503
2 C -0.136 4.136
3 Si 0.745 3.255
4 H -0.199 1.199
5 H -0.208 1.208
6 H -0.200 1.200
7 C -0.685 4.685
8 H 0.090 0.910
9 S 0.167 5.833
10 C -0.304 4.304
11 C 0.318 3.682
12 O -0.391 6.391
13 N -0.394 5.394
14 C 0.001 3.999
15 C -0.188 4.188
16 C -0.006 4.006
17 N -0.317 5.317
18 C 0.362 3.638
19 O -0.327 6.327
20 C -0.143 4.143
21 C -0.064 4.064
22 C -0.114 4.114
23 C -0.114 4.114
24 C -0.064 4.064
25 C -0.143 4.143
26 C 0.362 3.638
27 O -0.327 6.327
28 H 0.079 0.921
29 H 0.108 0.892
30 H 0.108 0.892
31 H 0.232 0.768
32 H 0.089 0.911
33 H 0.089 0.911
34 H 0.096 0.904
35 H 0.096 0.904
36 H 0.121 0.879
37 H 0.122 0.878
38 H 0.161 0.839
39 H 0.160 0.840
40 H 0.160 0.840
41 H 0.161 0.839
Dipole moment (debyes) X Y Z Total
from point charges 15.921 -32.993 -0.008 36.633
hybrid contribution 2.474 1.380 0.002 2.833
sum 18.395 -31.612 -0.006 36.575
Atomic orbital electron populations
1.70011 1.05944 1.27558 1.46768 1.24989 0.95029 0.99008 0.94526
0.86222 0.79233 0.81242 0.78784 1.19950 1.20795 1.19954 1.22833
0.94890 0.91687 1.59079 0.90972 1.85393 1.04899 0.96281 1.96724
1.23535 1.06604 0.95327 1.04956 1.20312 0.86500 0.86270 0.75094
1.90703 1.15342 1.85603 1.47436 1.45951 1.10006 1.05332 1.78115
1.21085 0.95188 0.80676 1.02918 1.22141 0.99310 0.93425 1.03878
1.21708 0.86364 0.86722 1.05820 1.46573 1.33518 1.43378 1.08246
1.18392 0.81612 0.79592 0.84214 1.90843 1.64311 1.58324 1.19253
1.20583 0.98689 1.00566 0.94492 1.20842 0.91761 0.92729 1.01047
1.21503 0.97808 0.97681 0.94439 1.21505 0.97814 0.97675 0.94436
1.20843 0.91801 0.92688 1.01048 1.20581 0.98634 1.00622 0.94491
1.18392 0.81640 0.79563 0.84217 1.90844 1.64355 1.58307 1.19233
0.92128 0.89192 0.89189 0.76795 0.91107 0.91104 0.90425 0.90413
0.87852 0.87845 0.83926 0.83962 0.83961 0.83927
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 13.
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 -0.87 -26.39 13.22 55.49 0.73 -25.65 16
2 C 0.07 2.13 5.49 -17.43 -0.10 2.03 16
3 Si 0.92 21.59 29.55 -169.99 -5.02 16.57 16
4 H -0.27 -6.28 7.11 56.52 0.40 -5.88 16
5 H -0.28 -6.51 7.11 56.52 0.40 -6.11 16
6 H -0.27 -6.28 7.11 56.52 0.40 -5.88 16
7 C -0.54 -15.46 9.50 30.94 0.29 -15.17 16
8 H 0.07 1.96 7.80 -52.48 -0.41 1.55 16
9 S -0.06 -1.64 20.57 -107.50 -2.21 -3.85 16
10 C -0.15 -3.15 6.16 36.01 0.22 -2.93 16
11 C 0.53 10.13 7.85 -10.98 -0.09 10.04 16
12 O -0.52 -11.93 15.86 5.56 0.09 -11.84 16
13 N -0.74 -10.06 5.56 -60.29 -0.33 -10.40 16
14 C 0.13 1.45 5.67 -4.04 -0.02 1.42 16
15 C -0.15 -1.30 5.65 -26.73 -0.15 -1.45 16
16 C 0.11 0.93 5.74 -4.04 -0.02 0.91 16
17 N -0.58 -5.06 2.62 -117.61 -0.31 -5.37 16
18 C 0.57 5.25 8.02 -12.45 -0.10 5.15 16
19 O -0.46 -5.30 17.68 5.41 0.10 -5.21 16
20 C -0.14 -0.98 6.40 -104.83 -0.67 -1.65 16
21 C -0.05 -0.20 10.09 -39.32 -0.40 -0.60 16
22 C -0.10 -0.24 10.03 -39.45 -0.40 -0.63 16
23 C -0.10 -0.24 10.04 -39.44 -0.40 -0.63 16
24 C -0.05 -0.20 10.09 -39.32 -0.40 -0.60 16
25 C -0.14 -0.98 6.40 -104.84 -0.67 -1.65 16
26 C 0.57 5.25 8.02 -12.46 -0.10 5.15 16
27 O -0.46 -5.30 17.68 5.41 0.10 -5.21 16
28 H 0.27 7.61 8.31 -40.82 -0.34 7.27 16
29 H 0.09 1.70 8.14 -51.92 -0.42 1.28 16
30 H 0.09 1.70 8.14 -51.92 -0.42 1.28 16
31 H 0.40 4.27 8.47 -40.82 -0.35 3.93 16
32 H 0.07 0.85 8.14 -51.93 -0.42 0.43 16
33 H 0.07 0.85 8.14 -51.93 -0.42 0.43 16
34 H 0.08 0.68 8.14 -51.93 -0.42 0.26 16
35 H 0.08 0.68 8.14 -51.94 -0.42 0.26 16
36 H 0.10 0.78 7.97 -51.93 -0.41 0.37 16
37 H 0.10 0.78 7.96 -51.93 -0.41 0.37 16
38 H 0.14 0.46 8.06 -52.48 -0.42 0.03 16
39 H 0.14 -0.03 8.06 -52.48 -0.42 -0.45 16
40 H 0.14 -0.03 8.06 -52.49 -0.42 -0.45 16
41 H 0.14 0.46 8.06 -52.49 -0.42 0.03 16
LS Contribution 380.84 15.07 5.74 5.74
Total: -1.00 -38.05 380.84 -9.06 -47.12
By element:
Atomic # 1 Polarization: 3.66 SS G_CDS: -4.95 Total: -1.29 kcal
Atomic # 6 Polarization: 2.38 SS G_CDS: -2.99 Total: -0.61 kcal
Atomic # 7 Polarization: -41.51 SS G_CDS: 0.09 Total: -41.42 kcal
Atomic # 8 Polarization: -22.54 SS G_CDS: 0.28 Total: -22.26 kcal
Atomic # 14 Polarization: 21.59 SS G_CDS: -5.02 Total: 16.57 kcal
Atomic # 16 Polarization: -1.64 SS G_CDS: -2.21 Total: -3.85 kcal
Total LS contribution 5.74 Total: 5.74 kcal
Total: -38.05 -9.06 -47.12 kcal
The number of atoms in the molecule is 41
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.
ZINC000286531322.mol2 41
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 -10.053 kcal
(2) G-P(sol) polarization free energy of solvation -38.054 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -48.107 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.064 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -47.118 kcal
(6) G-S(sol) free energy of system = (1) + (5) -57.171 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.62 seconds