Wall clock time and date at job start Wed Apr 1 2020 05:18:20
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 1.31619 * 1
3 3 Si 1.86798 * 120.00168 * 2 1
4 4 H 1.48502 * 109.47104 * 269.99871 * 3 2 1
5 5 H 1.48499 * 109.47407 * 30.00250 * 3 2 1
6 6 H 1.48506 * 109.47352 * 150.00127 * 3 2 1
7 7 C 1.38819 * 119.99756 * 180.02562 * 2 1 3
8 8 H 1.08005 * 119.99626 * 179.97438 * 7 2 1
9 9 N 1.36932 * 120.00179 * 359.97438 * 7 2 1
10 10 C 1.50243 * 130.83677 * 359.97438 * 9 7 2
11 11 H 1.08994 * 115.86010 * 0.37103 * 10 9 7
12 12 C 1.55851 * 101.75258 * 234.17597 * 10 9 7
13 13 C 1.56996 * 102.65177 * 327.22732 * 12 10 9
14 14 C 1.50664 * 130.81278 * 180.02562 * 9 7 2
15 15 H 1.08999 * 116.03147 * 359.55203 * 14 9 7
16 16 C 1.55842 * 100.85852 * 233.91858 * 14 9 7
17 17 H 1.09004 * 110.63084 * 208.48776 * 16 14 9
18 18 N 1.46503 * 110.62676 * 85.62675 * 16 14 9
19 19 C 1.34773 * 119.99984 * 157.20359 * 18 16 14
20 20 O 1.21275 * 120.00399 * 359.97438 * 19 18 16
21 21 C 1.50701 * 120.00051 * 179.97438 * 19 18 16
22 22 C 1.50697 * 109.47406 * 179.97438 * 21 19 18
23 23 C 1.33635 * 122.74873 * 85.02241 * 22 21 19
24 24 S 1.76199 * 107.92344 * 180.02562 * 23 22 21
25 25 C 1.70977 * 90.28221 * 359.97438 * 24 23 22
26 26 C 1.50699 * 124.91502 * 179.97438 * 25 24 23
27 27 C 1.53007 * 117.49979 * 8.64886 * 26 25 24
28 28 C 1.53002 * 60.00137 * 252.51014 * 27 26 25
29 29 N 1.29027 * 110.16578 * 0.02562 * 25 24 23
30 30 C 1.54848 * 103.58720 * 327.05778 * 16 14 9
31 31 H 0.97004 * 119.99768 * 359.97438 * 1 2 3
32 32 H 1.08998 * 110.62539 * 85.31824 * 12 10 9
33 33 H 1.09000 * 110.62487 * 208.33926 * 12 10 9
34 34 H 1.08999 * 110.29320 * 241.31960 * 13 12 10
35 35 H 1.08993 * 110.96875 * 118.45177 * 13 12 10
36 36 H 0.97005 * 119.99722 * 337.19695 * 18 16 14
37 37 H 1.09002 * 109.47287 * 59.99447 * 21 19 18
38 38 H 1.09009 * 109.46858 * 299.99938 * 21 19 18
39 39 H 1.08001 * 126.03996 * 0.03618 * 23 22 21
40 40 H 1.08997 * 115.55162 * 154.35494 * 26 25 24
41 41 H 1.08998 * 117.49555 * 0.02562 * 27 26 25
42 42 H 1.09000 * 117.49359 * 145.01616 * 27 26 25
43 43 H 1.09004 * 117.49574 * 252.51706 * 28 27 26
44 44 H 1.08993 * 117.52152 * 107.47982 * 28 27 26
45 45 H 1.09001 * 110.62894 * 118.56840 * 30 16 14
46 46 H 1.08998 * 110.62924 * 241.42883 * 30 16 14
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 2.0464 -1.4001
5 1 1.4478 2.6527 0.7001
6 1 3.5479 1.4401 0.7000
7 6 2.0102 -1.2022 -0.0005
8 1 3.0903 -1.2022 -0.0010
9 7 1.3256 -2.3881 -0.0005
10 6 -0.1501 -2.6705 0.0005
11 1 -0.8014 -1.7966 -0.0050
12 6 -0.2930 -3.6079 1.2373
13 6 1.0690 -4.3887 1.2363
14 6 1.8207 -3.8110 -0.0005
15 1 2.9029 -3.9410 -0.0082
16 6 1.0659 -4.3846 -1.2375
17 1 0.8918 -5.4541 -1.1192
18 7 1.8147 -4.1182 -2.4682
19 6 1.6144 -4.8851 -3.5582
20 8 0.8146 -5.7959 -3.5202
21 6 2.3843 -4.6107 -4.8244
22 6 1.9784 -5.6025 -5.8839
23 6 0.9130 -5.4245 -6.6706
24 16 0.8032 -6.8080 -7.7561
25 6 2.2013 -7.4879 -7.0446
26 6 2.8244 -8.7991 -7.4492
27 6 2.2823 -9.4805 -8.7073
28 6 1.9634 -10.0580 -7.3268
29 7 2.6451 -6.7163 -6.1106
30 6 -0.2751 -3.6103 -1.2365
31 1 -0.4850 0.8401 0.0004
32 1 -0.4008 -3.0239 2.1513
33 1 -1.1383 -4.2844 1.1108
34 1 0.8922 -5.4572 1.1136
35 1 1.6297 -4.1961 2.1509
36 1 2.4547 -3.3898 -2.4985
37 1 3.4522 -4.7058 -4.6281
38 1 2.1670 -3.5999 -5.1699
39 1 0.2384 -4.5814 -6.6457
40 1 3.8903 -8.8964 -7.2434
41 1 1.4753 -8.9802 -9.2426
42 1 2.9918 -10.0261 -9.3294
43 1 2.4631 -10.9835 -7.0407
44 1 0.9465 -9.9379 -6.9532
45 1 -0.3831 -3.0280 -2.1516
46 1 -1.1142 -4.2957 -1.1177
RHF calculation, no. of doubly occupied orbitals= 62
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
ZINC001097982054.mol2 46
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 05:18:20
Heat of formation + Delta-G solvation = 60.680141 kcal
Electronic energy + Delta-G solvation = -27835.655632 eV
Core-core repulsion = 24046.359917 eV
Total energy + Delta-G solvation = -3789.295715 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 347.141 amu
Computer time = 0.86 seconds
Orbital eigenvalues (eV)
-41.50066 -40.82939 -39.60874 -38.07892 -35.25488 -34.38225 -33.05498 -30.93492
-30.48043 -29.85512 -28.52213 -26.62857 -26.05990 -23.43657 -23.32823 -22.24960
-21.51866 -21.31702 -20.69472 -20.25241 -18.82404 -18.69342 -18.08444 -17.25660
-17.13960 -16.74590 -16.11888 -15.93764 -15.60616 -15.47552 -15.25872 -15.08236
-14.70821 -14.28040 -14.17520 -13.74969 -13.65082 -13.41436 -13.11649 -12.90499
-12.84037 -12.74328 -12.65090 -12.56224 -12.24588 -12.09566 -11.97883 -11.91332
-11.81567 -11.67407 -11.50816 -11.22877 -10.96118 -10.92537 -10.71292 -10.65638
-10.32454 -9.93025 -9.61229 -8.85905 -7.74016 -5.13905 -0.30859 0.36341
0.70039 1.50571 1.51429 1.59242 1.59778 1.67868 2.41454 2.51641
2.80200 3.02826 3.38882 3.45274 3.68275 3.79607 3.91646 3.99679
4.02519 4.07739 4.12650 4.21734 4.27998 4.38589 4.44551 4.46246
4.48705 4.62360 4.70457 4.71317 4.72620 4.82768 4.89439 4.91793
5.03175 5.07321 5.12936 5.16462 5.17267 5.19226 5.37634 5.52814
5.60774 5.72423 5.89868 6.27867 6.65828 6.75637 7.07406 7.30519
7.73912 8.59884 9.33196
Molecular weight = 347.14amu
Principal moments of inertia in cm(-1)
A = 0.017573 B = 0.002401 C = 0.002257
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1592.931485 B =11659.220424 C =12405.598228
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.949 5.949
2 C -0.068 4.068
3 Si 0.974 3.026
4 H -0.289 1.289
5 H -0.303 1.303
6 H -0.272 1.272
7 C -0.212 4.212
8 H 0.087 0.913
9 N -0.608 5.608
10 C 0.141 3.859
11 H 0.115 0.885
12 C -0.133 4.133
13 C -0.119 4.119
14 C 0.126 3.874
15 H 0.104 0.896
16 C 0.142 3.858
17 H 0.079 0.921
18 N -0.703 5.703
19 C 0.516 3.484
20 O -0.582 6.582
21 C -0.064 4.064
22 C 0.076 3.924
23 C -0.263 4.263
24 S 0.158 5.842
25 C 0.068 3.932
26 C -0.110 4.110
27 C -0.148 4.148
28 C -0.159 4.159
29 N -0.496 5.496
30 C -0.132 4.132
31 H 0.245 0.755
32 H 0.039 0.961
33 H 0.070 0.930
34 H 0.078 0.922
35 H 0.061 0.939
36 H 0.408 0.592
37 H 0.124 0.876
38 H 0.133 0.867
39 H 0.187 0.813
40 H 0.135 0.865
41 H 0.100 0.900
42 H 0.133 0.867
43 H 0.125 0.875
44 H 0.090 0.910
45 H 0.035 0.965
46 H 0.061 0.939
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 4.594 -16.817 -16.099 23.730
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 -0.599 5.599
2 C -0.261 4.261
3 Si 0.805 3.195
4 H -0.217 1.217
5 H -0.230 1.230
6 H -0.197 1.197
7 C -0.341 4.341
8 H 0.104 0.896
9 N -0.330 5.330
10 C 0.034 3.966
11 H 0.132 0.868
12 C -0.172 4.172
13 C -0.159 4.159
14 C 0.020 3.980
15 H 0.122 0.878
16 C 0.035 3.965
17 H 0.097 0.903
18 N -0.353 5.353
19 C 0.303 3.697
20 O -0.463 6.463
21 C -0.106 4.106
22 C -0.056 4.056
23 C -0.402 4.402
24 S 0.414 5.586
25 C -0.209 4.209
26 C -0.131 4.131
27 C -0.186 4.186
28 C -0.197 4.197
29 N -0.211 5.211
30 C -0.172 4.172
31 H 0.054 0.946
32 H 0.058 0.942
33 H 0.089 0.911
34 H 0.096 0.904
35 H 0.080 0.920
36 H 0.244 0.756
37 H 0.142 0.858
38 H 0.151 0.849
39 H 0.204 0.796
40 H 0.153 0.847
41 H 0.118 0.882
42 H 0.152 0.848
43 H 0.143 0.857
44 H 0.108 0.892
45 H 0.054 0.946
46 H 0.079 0.921
Dipole moment (debyes) X Y Z Total
from point charges 3.863 -17.568 -16.567 24.455
hybrid contribution 0.526 2.340 1.064 2.624
sum 4.390 -15.227 -15.503 22.170
Atomic orbital electron populations
1.69726 1.06222 1.24719 1.59192 1.25426 0.96302 1.00336 1.03995
0.85120 0.77516 0.79748 0.77161 1.21654 1.22993 1.19692 1.19364
0.90790 0.82877 1.41044 0.89569 1.46787 1.02057 0.99551 1.84597
1.23532 0.86803 0.95119 0.91139 0.86789 1.23333 0.96977 0.98024
0.98901 1.23163 0.96058 0.98754 0.97886 1.23441 0.97090 0.84657
0.92859 0.87774 1.22378 0.91856 0.97937 0.84319 0.90300 1.45933
1.43491 1.34191 1.11638 1.20786 0.82382 0.81246 0.85300 1.90649
1.38078 1.32925 1.84632 1.20234 1.02492 0.98908 0.88998 1.19614
0.93794 0.93764 0.98432 1.27054 1.04261 1.05725 1.03207 1.83421
1.26806 1.13059 1.35273 1.26573 0.97561 1.00502 0.96275 1.20571
1.00062 0.86604 1.05912 1.23271 1.03461 1.01792 0.90089 1.23243
1.00310 0.95967 1.00227 1.65915 1.33303 1.04541 1.17306 1.23301
0.96591 0.97903 0.99408 0.94576 0.94226 0.91111 0.90365 0.92049
0.75609 0.85757 0.84934 0.79615 0.84689 0.88201 0.84848 0.85683
0.89175 0.94602 0.92050
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 -0.95 -54.30 10.47 21.65 0.23 -54.08 16
2 C -0.07 -3.66 5.50 84.86 0.47 -3.19 16
3 Si 0.97 43.96 29.55 68.60 2.03 45.99 16
4 H -0.29 -12.87 7.11 99.48 0.71 -12.16 16
5 H -0.30 -14.11 7.11 99.48 0.71 -13.41 16
6 H -0.27 -11.64 7.11 99.48 0.71 -10.93 16
7 C -0.21 -10.85 10.59 84.04 0.89 -9.96 16
8 H 0.09 4.17 7.83 -2.91 -0.02 4.15 16
9 N -0.61 -28.25 3.00 -614.20 -1.84 -30.10 16
10 C 0.14 6.45 4.67 46.23 0.22 6.66 16
11 H 0.11 6.19 5.52 -2.39 -0.01 6.17 16
12 C -0.13 -5.17 6.58 32.98 0.22 -4.95 16
13 C -0.12 -4.08 6.51 32.98 0.21 -3.86 16
14 C 0.13 4.69 5.07 46.14 0.23 4.93 16
15 H 0.10 3.54 8.14 -2.39 -0.02 3.52 16
16 C 0.14 5.17 2.75 46.60 0.13 5.30 16
17 H 0.08 2.90 7.29 -2.38 -0.02 2.88 16
18 N -0.70 -23.35 5.08 -434.92 -2.21 -25.56 16
19 C 0.52 17.16 7.82 87.66 0.69 17.84 16
20 O -0.58 -23.73 15.72 -3.01 -0.05 -23.78 16
21 C -0.06 -1.65 6.11 29.10 0.18 -1.47 16
22 C 0.08 2.14 5.23 41.52 0.22 2.36 16
23 C -0.26 -6.65 11.14 66.77 0.74 -5.91 16
24 S 0.16 3.27 21.94 -56.49 -1.24 2.03 16
25 C 0.07 1.63 7.04 88.52 0.62 2.25 16
26 C -0.11 -1.86 6.33 -11.54 -0.07 -1.93 16
27 C -0.15 -1.55 10.01 30.60 0.31 -1.24 16
28 C -0.16 -2.07 10.23 30.60 0.31 -1.76 16
29 N -0.50 -14.52 10.53 -179.41 -1.89 -16.41 16
30 C -0.13 -5.40 6.22 32.21 0.20 -5.20 16
31 H 0.24 13.83 8.31 -92.71 -0.77 13.06 16
32 H 0.04 1.64 8.14 -2.39 -0.02 1.62 16
33 H 0.07 2.42 7.81 -2.39 -0.02 2.41 16
34 H 0.08 2.29 7.82 -2.39 -0.02 2.27 16
35 H 0.06 2.07 8.14 -2.39 -0.02 2.05 16
36 H 0.41 12.73 8.64 -92.70 -0.80 11.93 16
37 H 0.12 2.80 8.14 -2.39 -0.02 2.78 16
38 H 0.13 2.75 8.14 -2.38 -0.02 2.73 16
39 H 0.19 4.09 8.06 -2.91 -0.02 4.07 16
40 H 0.14 2.15 8.14 -2.39 -0.02 2.14 16
41 H 0.10 1.02 7.22 -2.39 -0.02 1.00 16
42 H 0.13 0.76 8.14 -2.39 -0.02 0.74 16
43 H 0.12 1.17 8.14 -2.39 -0.02 1.15 16
44 H 0.09 1.37 8.14 -2.39 -0.02 1.35 16
45 H 0.04 1.60 7.98 -2.39 -0.02 1.58 16
46 H 0.06 2.36 7.81 -2.39 -0.02 2.34 16
Total: -1.00 -69.42 387.00 0.79 -68.63
By element:
Atomic # 1 Polarization: 33.22 SS G_CDS: 0.21 Total: 33.43 kcal
Atomic # 6 Polarization: -5.71 SS G_CDS: 5.56 Total: -0.15 kcal
Atomic # 7 Polarization: -120.43 SS G_CDS: -5.72 Total: -126.15 kcal
Atomic # 8 Polarization: -23.73 SS G_CDS: -0.05 Total: -23.78 kcal
Atomic # 14 Polarization: 43.96 SS G_CDS: 2.03 Total: 45.99 kcal
Atomic # 16 Polarization: 3.27 SS G_CDS: -1.24 Total: 2.03 kcal
Total: -69.42 0.79 -68.63 kcal
The number of atoms in the molecule is 46
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.
ZINC001097982054.mol2 46
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 129.309 kcal
(2) G-P(sol) polarization free energy of solvation -69.418 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 59.890 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.790 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.629 kcal
(6) G-S(sol) free energy of system = (1) + (5) 60.680 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.86 seconds