Wall clock time and date at job start Tue Mar 31 2020 11:25:14
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 C
2 2 C 1.52998 * 1
3 3 H 1.08999 * 109.47588 * 2 1
4 4 C 1.50696 * 109.47308 * 120.00487 * 2 1 3
5 5 H 1.08007 * 120.00015 * 119.99303 * 4 2 1
6 6 C 1.37877 * 119.99972 * 299.99555 * 4 2 1
7 7 N 1.31511 * 119.99887 * 0.02562 * 6 4 2
8 8 Si 1.86803 * 119.99845 * 179.97438 * 6 4 2
9 9 H 1.48498 * 109.47008 * 60.00563 * 8 6 4
10 10 H 1.48504 * 109.47005 * 180.02562 * 8 6 4
11 11 H 1.48492 * 109.47277 * 300.00134 * 8 6 4
12 12 N 1.46906 * 109.46989 * 240.00451 * 2 1 3
13 13 C 1.46901 * 111.00223 * 84.99922 * 12 2 1
14 14 C 1.53110 * 109.57364 * 85.15812 * 13 12 2
15 15 C 1.53037 * 109.27951 * 177.59175 * 14 13 12
16 16 H 1.09005 * 109.45357 * 60.83376 * 15 14 13
17 17 C 1.53004 * 109.46570 * 180.80773 * 15 14 13
18 18 N 1.46848 * 109.52212 * 300.82369 * 15 14 13
19 19 C 1.46904 * 111.00009 * 185.83529 * 18 15 14
20 20 C 1.50700 * 109.47298 * 170.68949 * 19 18 15
21 21 C 1.38232 * 120.00211 * 275.76248 * 20 19 18
22 22 C 1.38237 * 120.00329 * 179.78657 * 21 20 19
23 23 C 1.38237 * 119.99478 * 0.46183 * 22 21 20
24 24 C 1.38235 * 119.99966 * 359.76776 * 23 22 21
25 25 C 1.38233 * 120.00328 * 0.02562 * 24 23 22
26 26 C 1.46846 * 111.19788 * 61.73991 * 18 15 14
27 27 H 1.08999 * 109.45403 * 178.24266 * 26 18 15
28 28 C 1.53005 * 109.46360 * 58.27474 * 26 18 15
29 29 C 1.53030 * 109.52500 * 298.25595 * 26 18 15
30 30 H 1.09004 * 109.46800 * 299.99765 * 1 2 3
31 31 H 1.09004 * 109.47436 * 59.99432 * 1 2 3
32 32 H 1.08990 * 109.47440 * 179.97438 * 1 2 3
33 33 H 0.97005 * 120.00058 * 179.97438 * 7 6 4
34 34 H 1.00903 * 110.99489 * 321.04741 * 12 2 1
35 35 H 1.09005 * 109.51773 * 325.00303 * 13 12 2
36 36 H 1.09000 * 109.50922 * 297.53411 * 14 13 12
37 37 H 1.09006 * 109.50465 * 57.65364 * 14 13 12
38 38 H 1.09003 * 109.47009 * 186.24389 * 17 15 14
39 39 H 1.09000 * 109.46690 * 306.24755 * 17 15 14
40 40 H 1.08997 * 109.47006 * 66.23879 * 17 15 14
41 41 H 1.08999 * 109.47502 * 290.69541 * 19 18 15
42 42 H 1.09005 * 109.46732 * 50.69581 * 19 18 15
43 43 H 1.08009 * 119.99997 * 359.97438 * 21 20 19
44 44 H 1.07995 * 120.00335 * 180.25102 * 22 21 20
45 45 H 1.08000 * 120.00012 * 179.79063 * 23 22 21
46 46 H 1.08006 * 120.00096 * 179.97438 * 24 23 22
47 47 H 1.07995 * 120.00142 * 179.97438 * 25 24 23
48 48 H 1.09001 * 109.46697 * 299.94851 * 28 26 18
49 49 H 1.09001 * 109.47019 * 59.94407 * 28 26 18
50 50 H 1.08994 * 109.47488 * 179.97438 * 28 26 18
51 51 H 1.08999 * 109.50628 * 299.24169 * 29 26 18
52 52 H 1.08999 * 109.53653 * 179.14001 * 29 26 18
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 1 1.8934 1.0276 0.0000
4 6 2.0323 -0.7105 1.2304
5 1 2.6532 -1.5887 1.1312
6 6 1.6994 -0.2395 2.4827
7 7 0.9429 0.8295 2.6034
8 14 2.3215 -1.1206 4.0078
9 1 3.8065 -1.1212 4.0079
10 1 1.8262 -0.4209 5.2204
11 1 1.8260 -2.5204 4.0075
12 7 2.0196 -0.6924 -1.1995
13 6 2.0824 0.2227 -2.3470
14 6 3.4130 0.9800 -2.3269
15 6 3.4970 1.8866 -3.5570
16 1 2.6800 2.6078 -3.5329
17 6 4.8340 2.6305 -3.5517
18 7 3.3950 1.0722 -4.7747
19 6 3.6101 1.8910 -5.9752
20 6 3.7260 0.9943 -7.1808
21 6 4.9414 0.4180 -7.4994
22 6 5.0466 -0.4081 -8.6028
23 6 3.9386 -0.6502 -9.3930
24 6 2.7243 -0.0701 -9.0771
25 6 2.6180 0.7525 -7.9713
26 6 2.1056 0.3725 -4.8391
27 1 2.0476 -0.1972 -5.7665
28 6 0.9681 1.3949 -4.7970
29 6 1.9800 -0.5793 -3.6473
30 1 -0.3633 0.5138 0.8900
31 1 -0.3634 0.5139 -0.8899
32 1 -0.3634 -1.0276 -0.0005
33 1 0.7083 1.1607 3.4845
34 1 1.4494 -1.4978 -1.4101
35 1 1.2578 0.9335 -2.2914
36 1 3.4731 1.5864 -1.4232
37 1 4.2376 0.2673 -2.3431
38 1 4.8489 3.3567 -4.3644
39 1 4.9584 3.1473 -2.6001
40 1 5.6471 1.9173 -3.6867
41 1 2.7681 2.5705 -6.1073
42 1 4.5281 2.4677 -5.8619
43 1 5.8081 0.6107 -6.8845
44 1 5.9953 -0.8616 -8.8493
45 1 4.0215 -1.2929 -10.2570
46 1 1.8586 -0.2590 -9.6948
47 1 1.6694 1.2061 -7.7248
48 1 1.0257 1.9645 -3.8694
49 1 1.0573 2.0729 -5.6458
50 1 0.0109 0.8758 -4.8452
51 1 2.7821 -1.3165 -3.6843
52 1 1.0166 -1.0875 -3.6866
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)
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
ZINC001168024201.mol2 52
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Tue Mar 31 2020 11:25:14
Heat of formation + Delta-G solvation = 9.574282 kcal
Electronic energy + Delta-G solvation = -27565.009357 eV
Core-core repulsion = 24142.056566 eV
Total energy + Delta-G solvation = -3422.952791 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 316.221 amu
Computer time = 0.70 seconds
Orbital eigenvalues (eV)
-41.32150 -39.73068 -37.72587 -35.17732 -34.21668 -33.52738 -31.71590 -31.58937
-29.59052 -28.31477 -27.58911 -27.22757 -26.25141 -23.62539 -23.28294 -22.30196
-22.02701 -21.36952 -19.53977 -18.32931 -17.55649 -16.96475 -16.89232 -16.69763
-16.40439 -15.95323 -15.76384 -15.35621 -15.00254 -14.85863 -14.48774 -14.17677
-14.14270 -13.96086 -13.62740 -13.47644 -13.43136 -13.32511 -13.10873 -12.89619
-12.84644 -12.75458 -12.61839 -12.50242 -12.47130 -12.15638 -12.05216 -11.86751
-11.80719 -11.72658 -11.51920 -11.36105 -10.99717 -10.86020 -10.47210 -9.71890
-9.59703 -9.11799 -8.91659 -8.08785 -6.19659 0.50572 0.59736 1.42736
1.44516 1.52220 2.44352 2.77401 3.19236 3.20418 3.52781 3.78511
3.87375 3.94997 4.02937 4.14494 4.22131 4.24824 4.32531 4.34666
4.44018 4.47519 4.51756 4.55821 4.59268 4.64351 4.71691 4.75224
4.81720 4.84438 4.86804 4.94468 5.00649 5.03153 5.08004 5.10540
5.16994 5.19385 5.23904 5.25430 5.31446 5.33403 5.46613 5.55798
5.65105 5.69838 5.71047 5.80287 5.85896 6.17628 6.24020 6.26530
6.30389 6.69883 6.88253 6.97528 7.50473 8.96547
Molecular weight = 316.22amu
Principal moments of inertia in cm(-1)
A = 0.024132 B = 0.002822 C = 0.002776
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1160.009421 B = 9920.548165 C =10085.300442
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.155 4.155
2 C 0.222 3.778
3 H -0.001 1.001
4 C -0.514 4.514
5 H 0.053 0.947
6 C 0.009 3.991
7 N -0.923 5.923
8 Si 0.959 3.041
9 H -0.274 1.274
10 H -0.284 1.284
11 H -0.271 1.271
12 N -0.685 5.685
13 C 0.092 3.908
14 C -0.087 4.087
15 C 0.087 3.913
16 H 0.038 0.962
17 C -0.142 4.142
18 N -0.521 5.521
19 C 0.087 3.913
20 C -0.083 4.083
21 C -0.111 4.111
22 C -0.130 4.130
23 C -0.130 4.130
24 C -0.129 4.129
25 C -0.125 4.125
26 C 0.092 3.908
27 H 0.092 0.908
28 C -0.185 4.185
29 C -0.102 4.102
30 H 0.061 0.939
31 H 0.021 0.979
32 H 0.031 0.969
33 H 0.260 0.740
34 H 0.329 0.671
35 H 0.021 0.979
36 H 0.037 0.963
37 H 0.061 0.939
38 H 0.072 0.928
39 H 0.056 0.944
40 H 0.064 0.936
41 H 0.047 0.953
42 H 0.095 0.905
43 H 0.124 0.876
44 H 0.135 0.865
45 H 0.138 0.862
46 H 0.136 0.864
47 H 0.124 0.876
48 H 0.046 0.954
49 H 0.068 0.932
50 H 0.065 0.935
51 H 0.067 0.933
52 H 0.067 0.933
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 4.642 1.761 -24.653 25.148
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 C -0.214 4.214
2 C 0.114 3.886
3 H 0.017 0.983
4 C -0.553 4.553
5 H 0.071 0.929
6 C -0.189 4.189
7 N -0.564 5.564
8 Si 0.785 3.215
9 H -0.200 1.200
10 H -0.210 1.210
11 H -0.197 1.197
12 N -0.314 5.314
13 C -0.018 4.018
14 C -0.126 4.126
15 C -0.022 4.022
16 H 0.056 0.944
17 C -0.199 4.199
18 N -0.245 5.245
19 C -0.040 4.040
20 C -0.084 4.084
21 C -0.129 4.129
22 C -0.148 4.148
23 C -0.148 4.148
24 C -0.147 4.147
25 C -0.143 4.143
26 C -0.017 4.017
27 H 0.109 0.891
28 C -0.244 4.244
29 C -0.140 4.140
30 H 0.080 0.920
31 H 0.040 0.960
32 H 0.050 0.950
33 H 0.069 0.931
34 H 0.147 0.853
35 H 0.039 0.961
36 H 0.056 0.944
37 H 0.079 0.921
38 H 0.091 0.909
39 H 0.075 0.925
40 H 0.083 0.917
41 H 0.065 0.935
42 H 0.113 0.887
43 H 0.142 0.858
44 H 0.153 0.847
45 H 0.156 0.844
46 H 0.154 0.846
47 H 0.142 0.858
48 H 0.065 0.935
49 H 0.087 0.913
50 H 0.084 0.916
51 H 0.086 0.914
52 H 0.085 0.915
Dipole moment (debyes) X Y Z Total
from point charges 5.611 1.610 -24.303 24.994
hybrid contribution -1.547 0.421 1.165 1.982
sum 4.065 2.031 -23.138 23.580
Atomic orbital electron populations
1.22239 1.00339 0.99087 0.99782 1.18867 0.89612 0.92537 0.87625
0.98269 1.21445 1.30301 1.12391 0.91174 0.92886 1.25709 0.95500
0.95886 1.01844 1.70005 1.38094 1.24326 1.23954 0.85599 0.78644
0.78713 0.78567 1.19959 1.20974 1.19657 1.60698 1.57702 1.09447
1.03583 1.21497 0.95946 0.94013 0.90377 1.21474 0.97648 0.97751
0.95745 1.21541 0.97963 0.93359 0.89296 0.94433 1.21877 0.96003
0.99918 1.02112 1.62180 1.31844 1.29525 1.01000 1.21188 1.02230
0.93467 0.87112 1.19815 0.93965 0.98756 0.95835 1.21182 0.97591
0.97074 0.97066 1.21415 0.99624 0.98486 0.95283 1.21435 0.92932
1.00072 1.00323 1.21380 0.98490 0.97434 0.97407 1.21239 0.98198
0.99245 0.95621 1.21563 0.87199 0.94610 0.98360 0.89051 1.22473
0.99776 1.00420 1.01699 1.21683 1.01735 0.97839 0.92763 0.92046
0.96047 0.94989 0.93062 0.85321 0.96148 0.94411 0.92065 0.90894
0.92471 0.91719 0.93473 0.88734 0.85799 0.84692 0.84428 0.84572
0.85805 0.93521 0.91310 0.91632 0.91447 0.91465
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 14.
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 C -0.15 -7.65 8.92 71.98 0.64 -7.01 16
2 C 0.22 11.50 2.39 44.17 0.11 11.60 16
3 H 0.00 -0.04 7.15 -2.39 -0.02 -0.05 16
4 C -0.51 -29.25 8.84 25.60 0.23 -29.02 16
5 H 0.05 3.03 7.81 -2.91 -0.02 3.01 16
6 C 0.01 0.48 5.30 84.66 0.45 0.93 16
7 N -0.92 -54.16 11.32 21.45 0.24 -53.92 16
8 Si 0.96 44.81 29.54 68.60 2.03 46.83 16
9 H -0.27 -12.60 7.11 99.48 0.71 -11.89 16
10 H -0.28 -12.95 7.11 99.48 0.71 -12.25 16
11 H -0.27 -12.30 7.11 99.48 0.71 -11.60 16
12 N -0.68 -29.68 6.04 -472.90 -2.86 -32.54 16
13 C 0.09 3.31 2.06 44.99 0.09 3.40 16
14 C -0.09 -3.07 4.86 30.64 0.15 -2.92 16
15 C 0.09 2.35 2.15 44.94 0.10 2.44 16
16 H 0.04 1.06 6.19 -2.38 -0.01 1.04 16
17 C -0.14 -3.22 8.57 71.98 0.62 -2.60 16
18 N -0.52 -12.51 4.44 -850.50 -3.77 -16.28 16
19 C 0.09 1.69 4.64 85.56 0.40 2.09 16
20 C -0.08 -1.60 4.68 -19.87 -0.09 -1.70 16
21 C -0.11 -2.08 9.72 22.27 0.22 -1.86 16
22 C -0.13 -2.15 10.05 22.27 0.22 -1.93 16
23 C -0.13 -1.98 10.05 22.27 0.22 -1.76 16
24 C -0.13 -2.04 10.05 22.27 0.22 -1.81 16
25 C -0.12 -2.20 8.26 22.27 0.18 -2.01 16
26 C 0.09 2.22 2.68 44.94 0.12 2.34 16
27 H 0.09 2.11 6.08 -2.39 -0.01 2.10 16
28 C -0.19 -4.22 8.19 71.98 0.59 -3.63 16
29 C -0.10 -2.98 4.88 30.64 0.15 -2.83 16
30 H 0.06 3.38 6.07 -2.39 -0.01 3.36 16
31 H 0.02 0.93 7.43 -2.38 -0.02 0.91 16
32 H 0.03 1.49 8.13 -2.39 -0.02 1.47 16
33 H 0.26 14.56 8.31 -92.70 -0.77 13.79 16
34 H 0.33 13.53 8.10 -89.69 -0.73 12.80 16
35 H 0.02 0.80 5.53 -2.38 -0.01 0.79 16
36 H 0.04 1.52 7.48 -2.39 -0.02 1.50 16
37 H 0.06 2.27 8.14 -2.38 -0.02 2.25 16
38 H 0.07 1.33 6.50 -2.39 -0.02 1.31 16
39 H 0.06 1.35 8.14 -2.39 -0.02 1.33 16
40 H 0.06 1.47 8.14 -2.39 -0.02 1.45 16
41 H 0.05 0.88 6.14 -2.39 -0.01 0.87 16
42 H 0.09 1.70 5.81 -2.38 -0.01 1.68 16
43 H 0.12 2.19 8.06 -2.91 -0.02 2.17 16
44 H 0.14 1.70 8.06 -2.91 -0.02 1.67 16
45 H 0.14 1.47 8.06 -2.91 -0.02 1.45 16
46 H 0.14 1.58 8.06 -2.91 -0.02 1.55 16
47 H 0.12 1.94 7.81 -2.91 -0.02 1.92 16
48 H 0.05 1.26 4.80 -2.39 -0.01 1.25 16
49 H 0.07 1.33 6.19 -2.39 -0.01 1.31 16
50 H 0.06 1.42 8.14 -2.39 -0.02 1.40 16
51 H 0.07 2.09 8.14 -2.39 -0.02 2.07 16
52 H 0.07 1.85 8.14 -2.39 -0.02 1.83 16
Total: -1.00 -62.08 385.56 0.42 -61.66
By element:
Atomic # 1 Polarization: 30.35 SS G_CDS: 0.17 Total: 30.52 kcal
Atomic # 6 Polarization: -40.88 SS G_CDS: 4.61 Total: -36.27 kcal
Atomic # 7 Polarization: -96.35 SS G_CDS: -6.39 Total: -102.74 kcal
Atomic # 14 Polarization: 44.81 SS G_CDS: 2.03 Total: 46.83 kcal
Total: -62.08 0.42 -61.66 kcal
The number of atoms in the molecule is 52
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.
ZINC001168024201.mol2 52
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 71.235 kcal
(2) G-P(sol) polarization free energy of solvation -62.080 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 9.156 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.419 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.661 kcal
(6) G-S(sol) free energy of system = (1) + (5) 9.574 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.70 seconds