Wall clock time and date at job start Wed Apr 1 2020 02:56:10
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 1.31511 * 1
3 3 Si 1.86801 * 120.00006 * 2 1
4 4 H 1.48498 * 109.46894 * 270.00111 * 3 2 1
5 5 H 1.48500 * 109.47248 * 29.99774 * 3 2 1
6 6 H 1.48495 * 109.46991 * 150.00145 * 3 2 1
7 7 C 1.37875 * 119.99716 * 179.97438 * 2 1 3
8 8 H 1.07995 * 120.00681 * 359.97438 * 7 2 1
9 9 C 1.50708 * 119.99581 * 180.02562 * 7 2 1
10 10 C 1.52999 * 109.46922 * 180.02562 * 9 7 2
11 11 N 1.46500 * 109.47236 * 180.02562 * 10 9 7
12 12 C 1.46921 * 124.34631 * 270.04431 * 11 10 9
13 13 C 1.53812 * 105.35012 * 196.39606 * 12 11 10
14 14 C 1.53990 * 102.46431 * 335.29549 * 13 12 11
15 15 C 1.34495 * 124.35562 * 90.01946 * 11 10 9
16 16 O 1.21285 * 124.93999 * 359.67268 * 15 11 10
17 17 C 1.52235 * 110.64598 * 217.48076 * 13 12 11
18 18 C 1.53256 * 109.35947 * 178.97714 * 17 13 12
19 19 C 1.53125 * 109.06251 * 56.44024 * 18 17 13
20 20 C 1.53048 * 109.40661 * 301.74994 * 19 18 17
21 21 N 1.45974 * 110.79853 * 93.35714 * 13 12 11
22 22 C 1.46901 * 111.00177 * 307.59488 * 21 13 12
23 23 C 1.50704 * 109.47240 * 170.03982 * 22 21 13
24 24 C 1.38918 * 121.01432 * 275.45464 * 23 22 21
25 25 C 1.38565 * 117.97253 * 180.02562 * 24 23 22
26 26 N 1.31959 * 119.84725 * 359.97438 * 25 24 23
27 27 N 1.28355 * 122.17987 * 359.73973 * 26 25 24
28 28 C 1.31962 * 122.17580 * 0.54160 * 27 26 25
29 29 H 0.97002 * 119.99991 * 0.02562 * 1 2 3
30 30 H 1.08995 * 109.47136 * 60.00049 * 9 7 2
31 31 H 1.09001 * 109.46667 * 299.99238 * 9 7 2
32 32 H 1.08999 * 109.47502 * 59.99454 * 10 9 7
33 33 H 1.09004 * 109.47155 * 299.99549 * 10 9 7
34 34 H 1.09004 * 110.27025 * 77.43271 * 12 11 10
35 35 H 1.08998 * 110.27232 * 315.36538 * 12 11 10
36 36 H 1.08993 * 110.51424 * 142.76975 * 14 13 12
37 37 H 1.09000 * 110.50693 * 265.34285 * 14 13 12
38 38 H 1.09004 * 109.49113 * 59.01126 * 17 13 12
39 39 H 1.08998 * 109.49090 * 298.94344 * 17 13 12
40 40 H 1.09000 * 109.53862 * 296.56939 * 18 17 13
41 41 H 1.08994 * 109.61037 * 176.35532 * 18 17 13
42 42 H 1.08997 * 109.48521 * 181.77013 * 19 18 17
43 43 H 1.09001 * 109.48206 * 61.72651 * 19 18 17
44 44 H 1.08996 * 109.47107 * 299.76642 * 20 19 18
45 45 H 1.08994 * 109.47311 * 179.75800 * 20 19 18
46 46 H 1.09002 * 109.47047 * 50.04135 * 22 21 13
47 47 H 1.08999 * 109.47149 * 290.04188 * 22 21 13
48 48 H 1.08000 * 121.01873 * 359.97438 * 24 23 22
49 49 H 1.08007 * 120.07822 * 179.97438 * 25 24 23
50 50 H 1.08004 * 120.07328 * 179.74668 * 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 1.3151 0.0000 0.0000
3 14 2.2491 1.6177 0.0000
4 1 2.4966 2.0464 -1.4001
5 1 1.4466 2.6527 0.7000
6 1 3.5466 1.4401 0.7000
7 6 2.0044 -1.1941 0.0005
8 1 1.4645 -2.1294 0.0014
9 6 3.5115 -1.1940 0.0011
10 6 4.0215 -2.6365 0.0010
11 7 5.4865 -2.6366 0.0022
12 6 6.3164 -2.6352 -1.2102
13 6 7.7206 -3.0545 -0.7429
14 6 7.7126 -2.6459 0.7418
15 6 6.2446 -2.6374 1.1131
16 8 5.8149 -2.6325 2.2473
17 6 8.7914 -2.2837 -1.5023
18 6 10.1755 -2.7049 -0.9966
19 6 10.3228 -4.2216 -1.1475
20 6 9.2115 -4.9211 -0.3613
21 7 7.9032 -4.4963 -0.8792
22 6 6.8134 -5.2295 -0.2214
23 6 6.8981 -6.6893 -0.5863
24 6 6.3324 -7.1673 -1.7616
25 6 6.4472 -8.5209 -2.0345
26 7 7.0799 -9.3104 -1.1873
27 7 7.6072 -8.8678 -0.1040
28 6 7.5427 -7.5955 0.2402
29 1 -0.4850 0.8401 -0.0004
30 1 3.8745 -0.6800 0.8911
31 1 3.8751 -0.6805 -0.8889
32 1 3.6585 -3.1502 -0.8892
33 1 3.6579 -3.1506 0.8908
34 1 6.3461 -1.6367 -1.6464
35 1 5.9293 -3.3527 -1.9336
36 1 8.2542 -3.3768 1.3420
37 1 8.1460 -1.6536 0.8671
38 1 8.6545 -1.2146 -1.3393
39 1 8.7111 -2.5028 -2.5670
40 1 10.2787 -2.4313 0.0534
41 1 10.9467 -2.2038 -1.5815
42 1 11.2930 -4.5329 -0.7606
43 1 10.2477 -4.4911 -2.2010
44 1 9.2890 -4.6545 0.6927
45 1 9.3128 -6.0007 -0.4714
46 1 5.8549 -4.8279 -0.5503
47 1 6.9019 -5.1195 0.8594
48 1 5.8182 -6.5043 -2.4416
49 1 6.0196 -8.9290 -2.9385
50 1 7.9951 -7.2606 1.1620
RHF calculation, no. of doubly occupied orbitals= 65
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).
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
ZINC001273271550.mol2 50
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 02:56:10
Heat of formation + Delta-G solvation = 10.508280 kcal
Electronic energy + Delta-G solvation = -31520.520295 eV
Core-core repulsion = 27547.159329 eV
Total energy + Delta-G solvation = -3973.360966 eV
No. of doubly occupied orbitals = 65
Molecular weight
(most abundant/longest-lived isotopes) = 344.195 amu
Computer time = 0.99 seconds
Orbital eigenvalues (eV)
-42.68903 -41.83036 -39.55534 -37.21034 -36.03540 -35.50498 -33.90364 -33.62471
-32.94617 -31.57365 -29.78109 -28.31686 -27.52240 -26.05107 -25.61954 -24.79396
-23.08896 -22.97374 -22.41147 -20.49905 -19.74988 -19.01140 -18.55497 -18.08358
-17.73910 -17.38067 -16.98531 -16.53170 -16.32923 -16.13823 -15.83518 -15.61899
-15.46170 -15.18295 -14.85487 -14.80017 -14.60742 -14.39594 -14.16655 -13.96641
-13.89193 -13.50023 -13.38458 -13.25538 -12.97456 -12.88488 -12.72617 -12.43158
-12.29099 -12.00234 -11.85936 -11.81427 -11.55161 -11.44703 -11.39140 -11.35348
-11.06892 -10.87083 -10.84768 -10.79955 -10.68946 -9.66899 -9.46585 -8.33940
-6.38838 -0.23788 -0.02993 1.29852 1.34637 1.45230 1.53124 2.04555
2.31641 2.43370 2.79701 3.01444 3.18061 3.24296 3.31813 3.47252
3.56443 3.68888 3.75061 3.83124 3.91549 4.02976 4.21975 4.23808
4.28785 4.33630 4.37104 4.44341 4.45952 4.50987 4.60191 4.62858
4.71104 4.71572 4.80161 4.84138 4.86372 4.92818 5.02948 5.08769
5.11288 5.14297 5.28152 5.28465 5.29284 5.34140 5.47839 5.53266
5.67877 5.87013 6.00324 6.18609 6.21549 6.68078 7.13709 7.26577
7.69447 8.82344
Molecular weight = 344.20amu
Principal moments of inertia in cm(-1)
A = 0.011756 B = 0.003372 C = 0.002863
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2381.111636 B = 8302.235714 C = 9776.028086
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.946 5.946
2 C 0.010 3.990
3 Si 0.948 3.052
4 H -0.254 1.254
5 H -0.285 1.285
6 H -0.261 1.261
7 C -0.532 4.532
8 H 0.040 0.960
9 C -0.014 4.014
10 C 0.149 3.851
11 N -0.614 5.614
12 C 0.101 3.899
13 C 0.120 3.880
14 C -0.175 4.175
15 C 0.499 3.501
16 O -0.589 6.589
17 C -0.095 4.095
18 C -0.120 4.120
19 C -0.110 4.110
20 C 0.046 3.954
21 N -0.503 5.503
22 C 0.089 3.911
23 C -0.074 4.074
24 C -0.092 4.092
25 C 0.044 3.956
26 N -0.283 5.283
27 N -0.277 5.277
28 C 0.042 3.958
29 H 0.267 0.733
30 H -0.002 1.002
31 H 0.031 0.969
32 H 0.093 0.907
33 H 0.049 0.951
34 H 0.093 0.907
35 H 0.105 0.895
36 H 0.106 0.894
37 H 0.124 0.876
38 H 0.084 0.916
39 H 0.089 0.911
40 H 0.062 0.938
41 H 0.082 0.918
42 H 0.077 0.923
43 H 0.071 0.929
44 H 0.042 0.958
45 H 0.071 0.929
46 H 0.096 0.904
47 H 0.039 0.961
48 H 0.176 0.824
49 H 0.204 0.796
50 H 0.177 0.823
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 25.276 -8.767 -9.016 28.231
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 -0.586 5.586
2 C -0.188 4.188
3 Si 0.772 3.228
4 H -0.179 1.179
5 H -0.211 1.211
6 H -0.186 1.186
7 C -0.570 4.570
8 H 0.058 0.942
9 C -0.052 4.052
10 C 0.027 3.973
11 N -0.347 5.347
12 C -0.021 4.021
13 C 0.029 3.971
14 C -0.217 4.217
15 C 0.288 3.712
16 O -0.469 6.469
17 C -0.133 4.133
18 C -0.157 4.157
19 C -0.148 4.148
20 C -0.081 4.081
21 N -0.226 5.226
22 C -0.039 4.039
23 C -0.085 4.085
24 C -0.121 4.121
25 C -0.121 4.121
26 N -0.124 5.124
27 N -0.117 5.117
28 C -0.123 4.123
29 H 0.076 0.924
30 H 0.016 0.984
31 H 0.049 0.951
32 H 0.111 0.889
33 H 0.068 0.932
34 H 0.111 0.889
35 H 0.123 0.877
36 H 0.124 0.876
37 H 0.142 0.858
38 H 0.103 0.897
39 H 0.108 0.892
40 H 0.081 0.919
41 H 0.101 0.899
42 H 0.096 0.904
43 H 0.090 0.910
44 H 0.060 0.940
45 H 0.089 0.911
46 H 0.114 0.886
47 H 0.057 0.943
48 H 0.194 0.806
49 H 0.221 0.779
50 H 0.195 0.805
Dipole moment (debyes) X Y Z Total
from point charges 25.338 -10.349 -8.582 28.683
hybrid contribution -1.213 2.284 1.152 2.831
sum 24.125 -8.064 -7.430 26.500
Atomic orbital electron populations
1.70046 1.08139 1.28240 1.52184 1.25924 0.95562 1.03298 0.93996
0.85687 0.78942 0.78602 0.79559 1.17874 1.21123 1.18582 1.21284
0.91376 0.93508 1.50875 0.94217 1.19737 0.94322 0.94993 0.96196
1.21169 0.76761 0.97430 1.01940 1.48711 1.06395 1.71666 1.07890
1.22471 0.88805 1.03897 0.86915 1.21402 0.95557 0.88208 0.91962
1.23091 0.92105 1.06393 1.00103 1.21632 0.90837 0.74639 0.84048
1.90702 1.79882 1.52883 1.23483 1.21473 0.92221 0.98975 1.00624
1.21622 0.96651 0.95637 1.01794 1.21546 0.97082 0.95230 1.00956
1.22308 0.88168 1.00115 0.97492 1.61930 1.01833 1.02727 1.56124
1.21101 0.97139 0.88637 0.97019 1.20989 0.95721 0.96762 0.95067
1.22642 0.96327 0.96870 0.96276 1.24845 0.95008 0.91785 1.00432
1.72888 1.06987 1.33170 0.99331 1.72961 1.14015 1.14610 1.10118
1.24443 0.96444 0.90602 1.00858 0.92359 0.98390 0.95113 0.88870
0.93235 0.88867 0.87696 0.87603 0.85828 0.89719 0.89202 0.91917
0.89923 0.90432 0.90999 0.94008 0.91058 0.88579 0.94290 0.80620
0.77947 0.80547
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 -0.95 -58.76 13.96 21.45 0.30 -58.46 16
2 C 0.01 0.57 5.47 84.65 0.46 1.03 16
3 Si 0.95 44.23 27.47 68.60 1.88 46.11 16
4 H -0.25 -10.91 7.11 99.48 0.71 -10.21 16
5 H -0.29 -13.19 7.11 99.48 0.71 -12.48 16
6 H -0.26 -11.89 6.54 99.48 0.65 -11.23 16
7 C -0.53 -30.19 9.66 25.60 0.25 -29.94 16
8 H 0.04 2.45 7.99 -2.91 -0.02 2.42 16
9 C -0.01 -0.65 4.37 29.85 0.13 -0.52 16
10 C 0.15 5.55 5.87 86.38 0.51 6.06 16
11 N -0.61 -17.83 1.82 -818.59 -1.49 -19.32 16
12 C 0.10 1.88 5.68 86.57 0.49 2.38 16
13 C 0.12 1.73 0.72 4.06 0.00 1.73 16
14 C -0.18 -3.42 4.47 30.41 0.14 -3.28 16
15 C 0.50 15.72 6.52 87.93 0.57 16.29 16
16 O -0.59 -25.21 17.60 -3.05 -0.05 -25.26 16
17 C -0.09 -0.90 4.66 30.43 0.14 -0.76 16
18 C -0.12 -0.95 5.81 30.72 0.18 -0.77 16
19 C -0.11 -0.99 6.07 30.65 0.19 -0.80 16
20 C 0.05 0.56 4.99 86.30 0.43 0.99 16
21 N -0.50 -6.99 4.46 -851.02 -3.79 -10.79 16
22 C 0.09 1.58 3.72 85.56 0.32 1.90 16
23 C -0.07 -1.28 4.73 -19.62 -0.09 -1.38 16
24 C -0.09 -1.35 9.95 22.51 0.22 -1.13 16
25 C 0.04 0.70 11.31 84.75 0.96 1.66 16
26 N -0.28 -6.64 11.50 -57.27 -0.66 -7.29 16
27 N -0.28 -6.80 11.51 -57.27 -0.66 -7.46 16
28 C 0.04 0.82 9.64 84.75 0.82 1.64 16
29 H 0.27 15.49 8.31 -92.71 -0.77 14.72 16
30 H 0.00 -0.12 7.20 -2.39 -0.02 -0.13 16
31 H 0.03 1.31 7.57 -2.39 -0.02 1.29 16
32 H 0.09 3.06 8.14 -2.39 -0.02 3.04 16
33 H 0.05 2.11 7.93 -2.38 -0.02 2.09 16
34 H 0.09 1.60 7.85 -2.39 -0.02 1.58 16
35 H 0.10 1.66 7.42 -2.39 -0.02 1.65 16
36 H 0.11 1.94 5.72 -2.39 -0.01 1.92 16
37 H 0.12 2.09 7.80 -2.39 -0.02 2.07 16
38 H 0.08 0.74 8.06 -2.39 -0.02 0.72 16
39 H 0.09 0.75 8.14 -2.39 -0.02 0.73 16
40 H 0.06 0.54 7.57 -2.39 -0.02 0.52 16
41 H 0.08 0.49 8.14 -2.39 -0.02 0.47 16
42 H 0.08 0.58 8.14 -2.39 -0.02 0.56 16
43 H 0.07 0.69 8.14 -2.39 -0.02 0.67 16
44 H 0.04 0.53 6.19 -2.39 -0.01 0.52 16
45 H 0.07 0.97 6.17 -2.39 -0.01 0.96 16
46 H 0.10 1.93 5.48 -2.39 -0.01 1.92 16
47 H 0.04 0.83 6.70 -2.39 -0.02 0.81 16
48 H 0.18 1.70 8.06 -2.91 -0.02 1.68 16
49 H 0.20 1.77 8.06 -2.91 -0.02 1.74 16
50 H 0.18 2.81 8.06 -2.91 -0.02 2.79 16
Total: -1.00 -78.68 385.53 2.13 -76.55
By element:
Atomic # 1 Polarization: 9.93 SS G_CDS: 0.88 Total: 10.81 kcal
Atomic # 6 Polarization: -10.61 SS G_CDS: 5.71 Total: -4.90 kcal
Atomic # 7 Polarization: -97.02 SS G_CDS: -6.30 Total: -103.32 kcal
Atomic # 8 Polarization: -25.21 SS G_CDS: -0.05 Total: -25.26 kcal
Atomic # 14 Polarization: 44.23 SS G_CDS: 1.88 Total: 46.11 kcal
Total: -78.68 2.13 -76.55 kcal
The number of atoms in the molecule is 50
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.
ZINC001273271550.mol2 50
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 87.059 kcal
(2) G-P(sol) polarization free energy of solvation -78.678 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 8.381 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.128 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.550 kcal
(6) G-S(sol) free energy of system = (1) + (5) 10.508 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.99 seconds