Wall clock time and date at job start Wed Apr 1 2020 04:52:55
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 1.30828 * 1
3 3 Si 1.86793 * 120.00246 * 2 1
4 4 H 1.48500 * 109.47414 * 179.97438 * 3 2 1
5 5 H 1.48502 * 109.47527 * 299.99813 * 3 2 1
6 6 H 1.48500 * 109.47212 * 59.99684 * 3 2 1
7 7 C 1.39943 * 119.99514 * 179.97438 * 2 1 3
8 8 H 1.08001 * 119.99920 * 197.85641 * 7 2 1
9 9 C 1.41398 * 120.00154 * 17.86083 * 7 2 1
10 10 C 1.40721 * 120.24322 * 204.37698 * 9 7 2
11 11 C 1.37611 * 119.74202 * 180.02562 * 10 9 7
12 12 C 1.38638 * 120.25040 * 0.02562 * 11 10 9
13 13 S 1.76201 * 119.74820 * 179.97438 * 12 11 10
14 14 O 1.42104 * 106.40395 * 336.45885 * 13 12 11
15 15 O 1.42098 * 106.40080 * 203.54295 * 13 12 11
16 16 O 1.52194 * 107.22289 * 90.00154 * 13 12 11
17 17 C 1.35977 * 114.00114 * 74.99370 * 16 13 12
18 18 C 1.38700 * 119.99009 * 270.02844 * 17 16 13
19 19 C 1.38216 * 120.08359 * 179.75245 * 18 17 16
20 20 C 1.38535 * 120.09688 * 0.45093 * 19 18 17
21 21 C 1.39252 * 119.92114 * 359.54125 * 20 19 18
22 22 C 1.38538 * 119.87854 * 0.23863 * 21 20 19
23 23 O 1.36510 * 108.65065 * 180.25125 * 21 20 19
24 24 C 1.43982 * 105.49651 * 342.70591 * 23 21 20
25 25 O 1.36607 * 131.45915 * 179.85922 * 20 19 18
26 26 C 1.38627 * 120.50162 * 0.25619 * 12 11 10
27 27 C 1.37618 * 120.24906 * 359.44997 * 26 12 11
28 28 H 0.97008 * 119.99442 * 0.02562 * 1 2 3
29 29 H 1.08002 * 120.12688 * 359.97438 * 10 9 7
30 30 H 1.08008 * 119.87557 * 180.02562 * 11 10 9
31 31 H 1.07997 * 119.95802 * 359.97438 * 18 17 16
32 32 H 1.07997 * 119.95231 * 180.33631 * 19 18 17
33 33 H 1.08002 * 120.00234 * 180.02562 * 22 21 20
34 34 H 1.08994 * 110.57143 * 268.58276 * 24 23 21
35 35 H 1.08999 * 110.56889 * 145.70568 * 24 23 21
36 36 H 1.08003 * 119.88105 * 179.70136 * 26 12 11
37 37 H 1.08002 * 120.12963 * 180.27618 * 27 26 12
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 1.3083 0.0000 0.0000
3 14 2.2423 1.6176 0.0000
4 1 3.7023 1.3463 0.0006
5 1 1.8837 2.3964 -1.2125
6 1 1.8836 2.3964 1.2125
7 6 2.0079 -1.2120 0.0005
8 1 3.0489 -1.2345 0.2874
9 6 1.3519 -2.4072 -0.3745
10 6 1.8257 -3.6499 0.0852
11 6 1.1797 -4.8067 -0.2866
12 6 0.0666 -4.7509 -1.1112
13 16 -0.7500 -6.2404 -1.5796
14 8 0.2107 -7.2803 -1.4573
15 8 -1.4386 -5.9569 -2.7899
16 8 -1.8186 -6.5171 -0.5319
17 6 -2.9126 -5.7160 -0.6327
18 6 -2.9545 -4.5104 0.0519
19 6 -4.0635 -3.6921 -0.0532
20 6 -5.1400 -4.0781 -0.8351
21 6 -5.1002 -5.2879 -1.5234
22 6 -3.9857 -6.1043 -1.4202
23 8 -6.2663 -5.4336 -2.2180
24 6 -7.1864 -4.4978 -1.6256
25 8 -6.3322 -3.4654 -1.0987
26 6 -0.4054 -3.5327 -1.5747
27 6 0.2212 -2.3627 -1.2109
28 1 -0.4850 0.8402 -0.0004
29 1 2.6934 -3.6957 0.7266
30 1 1.5412 -5.7617 0.0653
31 1 -2.1181 -4.2090 0.6650
32 1 -4.0916 -2.7514 0.4764
33 1 -3.9525 -7.0429 -1.9535
34 1 -7.7526 -4.9725 -0.8243
35 1 -7.8580 -4.0906 -2.3813
36 1 -1.2705 -3.5013 -2.2206
37 1 -0.1508 -1.4143 -1.5695
RHF calculation, no. of doubly occupied orbitals= 60
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
ZINC001319016004.mol2 37
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 04:52:55
Heat of formation + Delta-G solvation = -136.013889 kcal
Electronic energy + Delta-G solvation = -28190.061719 eV
Core-core repulsion = 23990.559108 eV
Total energy + Delta-G solvation = -4199.502611 eV
No. of doubly occupied orbitals = 60
Molecular weight
(most abundant/longest-lived isotopes) = 348.059 amu
Computer time = 0.92 seconds
Orbital eigenvalues (eV)
-43.36275 -41.78837 -39.41122 -38.34601 -38.00215 -37.40654 -37.01644 -35.82643
-32.19763 -31.81562 -31.29690 -30.68221 -27.67584 -26.83445 -24.70921 -24.39303
-23.34675 -22.97566 -21.92729 -19.82849 -19.41063 -19.24028 -19.05357 -18.69088
-18.33049 -17.81762 -17.27102 -16.85628 -16.21683 -15.91587 -15.73055 -15.59368
-15.20027 -15.06779 -14.99441 -14.53438 -14.16791 -14.13365 -14.08169 -13.96677
-13.78988 -13.61692 -13.47286 -13.25799 -13.15277 -12.92895 -12.89168 -12.61547
-12.34410 -11.98607 -11.88629 -11.54644 -11.27476 -11.22555 -10.16408 -9.80400
-9.56032 -9.27089 -8.88301 -6.65325 -0.86656 -0.09083 0.01297 0.41692
1.08139 1.31978 1.39191 1.46352 1.54588 1.73860 2.12811 2.21568
2.37691 2.46547 2.73006 3.20747 3.25452 3.53426 3.61469 3.72438
3.87996 3.97295 4.09958 4.19240 4.31444 4.33958 4.37673 4.71537
4.82264 4.88523 4.92671 4.95926 4.99564 5.09223 5.21972 5.23957
5.52641 5.59013 5.77050 5.89887 5.93956 6.14554 6.48748 6.67825
6.80293 8.06210
Molecular weight = 348.06amu
Principal moments of inertia in cm(-1)
A = 0.011168 B = 0.004105 C = 0.003154
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2506.539804 B = 6819.856297 C = 8875.160394
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.784 5.784
2 C 0.038 3.962
3 Si 0.987 3.013
4 H -0.256 1.256
5 H -0.263 1.263
6 H -0.261 1.261
7 C -0.456 4.456
8 H 0.092 0.908
9 C 0.115 3.885
10 C -0.252 4.252
11 C 0.000 4.000
12 C -0.816 4.816
13 S 2.694 3.306
14 O -0.976 6.976
15 O -0.987 6.987
16 O -0.661 6.661
17 C 0.064 3.936
18 C -0.095 4.095
19 C -0.080 4.080
20 C 0.050 3.950
21 C 0.041 3.959
22 C -0.094 4.094
23 O -0.314 6.314
24 C 0.202 3.798
25 O -0.311 6.311
26 C -0.008 4.008
27 C -0.200 4.200
28 H 0.300 0.700
29 H 0.113 0.887
30 H 0.124 0.876
31 H 0.157 0.843
32 H 0.170 0.830
33 H 0.157 0.843
34 H 0.116 0.884
35 H 0.169 0.831
36 H 0.111 0.889
37 H 0.114 0.886
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -12.681 -1.953 1.171 12.884
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 -0.407 5.407
2 C -0.183 4.183
3 Si 0.807 3.193
4 H -0.179 1.179
5 H -0.187 1.187
6 H -0.185 1.185
7 C -0.482 4.482
8 H 0.110 0.890
9 C 0.111 3.889
10 C -0.272 4.272
11 C -0.020 4.020
12 C -0.909 4.909
13 S 2.795 3.205
14 O -0.974 6.974
15 O -0.986 6.986
16 O -0.619 6.619
17 C 0.022 3.978
18 C -0.116 4.116
19 C -0.098 4.098
20 C 0.005 3.995
21 C -0.004 4.004
22 C -0.115 4.115
23 O -0.230 6.230
24 C 0.092 3.908
25 O -0.228 6.228
26 C -0.028 4.028
27 C -0.220 4.220
28 H 0.112 0.888
29 H 0.131 0.869
30 H 0.141 0.859
31 H 0.174 0.826
32 H 0.188 0.812
33 H 0.175 0.825
34 H 0.133 0.867
35 H 0.186 0.814
36 H 0.129 0.871
37 H 0.132 0.868
Dipole moment (debyes) X Y Z Total
from point charges -13.207 -2.522 0.800 13.470
hybrid contribution 0.757 1.018 0.152 1.277
sum -12.450 -1.504 0.952 12.577
Atomic orbital electron populations
1.69822 1.09135 1.31954 1.29739 1.26927 0.95610 1.04899 0.90835
0.85055 0.79526 0.75417 0.79314 1.17938 1.18741 1.18510 1.20305
0.98943 0.92024 1.36949 0.88992 1.18195 0.90595 0.93104 0.86976
1.21263 1.05114 0.92602 1.08264 1.20444 0.91801 0.98026 0.91682
1.29484 1.17596 1.16468 1.27337 1.01266 0.72873 0.73818 0.72556
1.93492 1.60738 1.57044 1.86171 1.93515 1.72672 1.86247 1.46167
1.85758 1.38236 1.65283 1.72650 1.17520 0.85709 0.91092 1.03468
1.21310 0.99500 0.91524 0.99232 1.20075 0.89558 1.01733 0.98466
1.19995 0.89969 0.91160 0.98423 1.19243 0.90288 0.95198 0.95700
1.19991 0.90529 1.01233 0.99709 1.87371 1.20086 1.60986 1.54601
1.26341 0.88299 0.78016 0.98160 1.87406 1.20942 1.34573 1.79837
1.20320 0.96604 0.91391 0.94467 1.21304 1.00740 0.96951 1.03045
0.88833 0.86878 0.85860 0.82561 0.81232 0.82485 0.86664 0.81437
0.87088 0.86822
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 -0.78 -35.04 10.95 21.83 0.24 -34.80 16
2 C 0.04 1.66 5.14 85.26 0.44 2.10 16
3 Si 0.99 32.77 29.59 68.60 2.03 34.80 16
4 H -0.26 -8.43 7.11 99.48 0.71 -7.72 16
5 H -0.26 -8.50 7.11 99.48 0.71 -7.80 16
6 H -0.26 -8.23 7.11 99.48 0.71 -7.53 16
7 C -0.46 -21.61 9.05 23.46 0.21 -21.40 16
8 H 0.09 4.15 7.91 -2.91 -0.02 4.13 16
9 C 0.12 5.66 5.57 -21.29 -0.12 5.54 16
10 C -0.25 -11.60 9.80 22.73 0.22 -11.38 16
11 C 0.00 0.01 9.49 22.22 0.21 0.22 16
12 C -0.82 -35.36 5.29 22.46 0.12 -35.24 16
13 S 2.69 107.93 5.42 -56.49 -0.31 107.63 16
14 O -0.98 -42.75 17.25 -118.78 -2.05 -44.80 16
15 O -0.99 -41.53 15.57 -118.78 -1.85 -43.38 16
16 O -0.66 -23.62 10.16 -62.57 -0.64 -24.25 16
17 C 0.06 2.13 4.80 22.48 0.11 2.24 16
18 C -0.10 -2.96 8.38 22.38 0.19 -2.77 16
19 C -0.08 -2.16 10.05 22.34 0.22 -1.94 16
20 C 0.05 1.35 7.15 22.58 0.16 1.51 16
21 C 0.04 1.13 7.15 22.59 0.16 1.30 16
22 C -0.09 -2.86 9.20 22.44 0.21 -2.66 16
23 O -0.31 -7.42 11.40 -76.17 -0.87 -8.29 16
24 C 0.20 3.06 8.89 113.37 1.01 4.06 16
25 O -0.31 -7.06 11.41 -77.32 -0.88 -7.94 16
26 C -0.01 -0.35 8.42 22.22 0.19 -0.16 16
27 C -0.20 -9.69 8.70 22.73 0.20 -9.50 16
28 H 0.30 11.83 8.30 -92.70 -0.77 11.06 16
29 H 0.11 4.78 8.06 -2.91 -0.02 4.75 16
30 H 0.12 4.88 7.60 -2.91 -0.02 4.85 16
31 H 0.16 4.96 7.95 -2.91 -0.02 4.93 16
32 H 0.17 3.88 8.06 -2.91 -0.02 3.86 16
33 H 0.16 4.32 8.06 -2.91 -0.02 4.30 16
34 H 0.12 1.08 8.14 -2.39 -0.02 1.06 16
35 H 0.17 1.30 8.14 -2.39 -0.02 1.28 16
36 H 0.11 4.70 7.59 -2.91 -0.02 4.67 16
37 H 0.11 5.62 6.16 -2.91 -0.02 5.60 16
Total: -1.00 -61.99 336.11 0.34 -61.65
By element:
Atomic # 1 Polarization: 26.34 SS G_CDS: 1.13 Total: 27.47 kcal
Atomic # 6 Polarization: -71.60 SS G_CDS: 3.53 Total: -68.08 kcal
Atomic # 7 Polarization: -35.04 SS G_CDS: 0.24 Total: -34.80 kcal
Atomic # 8 Polarization: -122.38 SS G_CDS: -6.28 Total: -128.66 kcal
Atomic # 14 Polarization: 32.77 SS G_CDS: 2.03 Total: 34.80 kcal
Atomic # 16 Polarization: 107.93 SS G_CDS: -0.31 Total: 107.63 kcal
Total: -61.99 0.34 -61.65 kcal
The number of atoms in the molecule is 37
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.
ZINC001319016004.mol2 37
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 -74.362 kcal
(2) G-P(sol) polarization free energy of solvation -61.990 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -136.353 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.339 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.652 kcal
(6) G-S(sol) free energy of system = (1) + (5) -136.014 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.93 seconds