Wall clock time and date at job start Wed Apr 1 2020 04:38:44
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 1.31412 * 1
3 3 Si 1.86794 * 120.00319 * 2 1
4 4 H 1.48501 * 109.47286 * 271.74128 * 3 2 1
5 5 H 1.48496 * 109.47199 * 31.74400 * 3 2 1
6 6 H 1.48509 * 109.46893 * 151.74399 * 3 2 1
7 7 C 1.38956 * 119.99554 * 180.02562 * 2 1 3
8 8 H 1.08002 * 120.00004 * 344.79746 * 7 2 1
9 9 N 1.37098 * 119.99927 * 164.79335 * 7 2 1
10 10 C 1.46495 * 119.99947 * 320.73228 * 9 7 2
11 11 C 1.52998 * 109.47380 * 270.00189 * 10 9 7
12 12 C 1.50699 * 109.47620 * 179.97438 * 11 10 9
13 13 O 1.20833 * 119.99789 * 0.02562 * 12 11 10
14 14 O 1.34230 * 120.00343 * 179.97438 * 12 11 10
15 15 C 1.34771 * 120.00082 * 140.73500 * 9 7 2
16 16 O 1.21292 * 120.00153 * 186.01714 * 15 9 7
17 17 C 1.50704 * 119.99838 * 6.01554 * 15 9 7
18 18 C 1.52999 * 109.47130 * 143.19020 * 17 15 9
19 19 H 1.09004 * 109.47124 * 53.72220 * 18 17 15
20 20 C 1.50702 * 109.47217 * 173.72437 * 18 17 15
21 21 C 1.38268 * 119.94216 * 62.84985 * 20 18 17
22 22 C 1.38147 * 120.05315 * 179.72586 * 21 20 18
23 23 C 1.38728 * 119.94125 * 0.56234 * 22 21 20
24 24 O 1.35903 * 120.05490 * 179.67935 * 23 22 21
25 25 C 1.38733 * 119.89414 * 359.71397 * 23 22 21
26 26 C 1.38147 * 119.94008 * 359.97438 * 25 23 22
27 27 C 1.52997 * 109.47399 * 293.72723 * 18 17 15
28 28 C 1.53001 * 117.49865 * 66.72199 * 27 18 17
29 29 C 1.52995 * 117.50308 * 135.34427 * 27 18 17
30 30 H 0.97005 * 119.99498 * 0.02562 * 1 2 3
31 31 H 1.09005 * 109.47448 * 30.00170 * 10 9 7
32 32 H 1.08994 * 109.47247 * 150.00114 * 10 9 7
33 33 H 1.09007 * 109.47521 * 300.00141 * 11 10 9
34 34 H 1.09002 * 109.47290 * 59.99830 * 11 10 9
35 35 H 0.96701 * 117.00146 * 179.97438 * 14 12 11
36 36 H 1.09002 * 109.47550 * 23.19221 * 17 15 9
37 37 H 1.08996 * 109.47235 * 263.18928 * 17 15 9
38 38 H 1.08000 * 119.96861 * 359.97438 * 21 20 18
39 39 H 1.08001 * 120.02567 * 180.25035 * 22 21 20
40 40 H 0.96702 * 114.00663 * 270.02903 * 24 23 22
41 41 H 1.08001 * 120.02931 * 179.97438 * 25 23 22
42 42 H 1.08001 * 119.96826 * 180.02562 * 26 25 23
43 43 H 1.09005 * 115.56069 * 281.03881 * 27 18 17
44 44 H 1.09000 * 117.49844 * 0.02562 * 28 27 18
45 45 H 1.09008 * 117.49881 * 214.98166 * 28 27 18
46 46 H 1.09005 * 117.50204 * 145.02487 * 29 27 18
47 47 H 1.08998 * 117.51627 * 359.97438 * 29 27 18
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 1.3141 0.0000 0.0000
3 14 2.2482 1.6176 0.0000
4 1 2.4589 2.0676 -1.3994
5 1 1.4647 2.6417 0.7366
6 1 3.5638 1.4296 0.6629
7 6 2.0088 -1.2034 -0.0005
8 1 1.4971 -2.1225 0.2443
9 7 3.3438 -1.2242 -0.3120
10 6 3.8598 -0.3665 -1.3817
11 6 3.7995 -1.1189 -2.7125
12 6 4.3297 -0.2365 -3.8131
13 8 4.7166 0.8797 -3.5590
14 8 4.3731 -0.6907 -5.0754
15 6 4.1814 -2.0336 0.3659
16 8 5.3764 -1.9736 0.1668
17 6 3.6333 -3.0132 1.3715
18 6 4.4455 -4.3087 1.3165
19 1 5.5041 -4.0793 1.4392
20 6 3.9992 -5.2287 2.4235
21 6 2.7017 -5.7060 2.4432
22 6 2.2918 -6.5541 3.4537
23 6 3.1799 -6.9175 4.4556
24 8 2.7772 -7.7464 5.4544
25 6 4.4796 -6.4327 4.4367
26 6 4.8865 -5.5900 3.4204
27 6 4.2251 -4.9919 -0.0346
28 6 4.7615 -4.2837 -1.2802
29 6 5.4562 -5.5424 -0.7571
30 1 -0.4850 0.8401 -0.0004
31 1 3.2535 0.5370 -1.4474
32 1 4.8928 -0.0958 -1.1639
33 1 4.4057 -2.0225 -2.6470
34 1 2.7663 -1.3897 -2.9304
35 1 4.7208 -0.0882 -5.7471
36 1 2.5904 -3.2281 1.1383
37 1 3.7011 -2.5840 2.3711
38 1 2.0093 -5.4187 1.6657
39 1 1.2793 -6.9298 3.4665
40 1 2.4071 -7.2878 6.2211
41 1 5.1727 -6.7138 5.2158
42 1 5.8983 -5.2127 3.4051
43 1 3.2927 -5.5478 -0.1340
44 1 5.2718 -3.3312 -1.1371
45 1 4.1821 -4.3737 -2.1991
46 1 5.3339 -6.4605 -1.3318
47 1 6.4235 -5.4177 -0.2703
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
ZINC001601071262.mol2 47
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 04:38:44
Heat of formation + Delta-G solvation = -129.667372 kcal
Electronic energy + Delta-G solvation = -31289.146575 eV
Core-core repulsion = 27016.551150 eV
Total energy + Delta-G solvation = -4272.595425 eV
No. of doubly occupied orbitals = 65
Molecular weight
(most abundant/longest-lived isotopes) = 347.161 amu
Computer time = 0.92 seconds
Orbital eigenvalues (eV)
-41.61328 -41.14826 -40.42742 -38.71333 -37.37989 -37.17139 -36.76938 -34.25078
-33.77180 -32.41872 -31.87659 -29.78757 -26.93769 -26.78406 -24.97036 -23.86162
-23.14902 -22.74903 -22.21752 -21.16072 -20.50795 -19.29979 -19.26543 -18.57940
-18.23748 -17.94009 -17.19084 -17.02473 -16.78413 -16.61240 -16.28137 -15.88649
-15.64729 -15.46009 -15.07393 -14.86876 -14.62138 -14.47130 -14.25415 -14.19014
-13.82929 -13.68135 -13.55487 -13.28291 -12.99392 -12.96170 -12.73298 -12.67243
-12.60303 -12.30765 -12.13528 -11.98178 -11.80215 -11.66091 -11.50852 -11.23261
-11.10717 -10.98708 -10.74081 -10.45193 -9.85947 -9.73541 -9.33239 -8.49215
-6.15206 0.33178 0.48008 1.11474 1.17852 1.30074 1.37361 1.78214
2.03166 2.14859 2.66069 2.81209 2.95283 3.02052 3.39625 3.70463
3.79769 3.83462 3.87648 4.08420 4.13844 4.14642 4.28227 4.32771
4.43517 4.48638 4.51548 4.55391 4.55768 4.60914 4.66312 4.77221
4.84424 4.89712 5.00470 5.02237 5.09162 5.18325 5.21105 5.40016
5.41123 5.45724 5.52357 5.53299 5.56836 5.79568 5.96974 6.11429
6.24585 6.91698 6.93615 6.96752 7.41583 7.76459 8.63616
Molecular weight = 347.16amu
Principal moments of inertia in cm(-1)
A = 0.012405 B = 0.003429 C = 0.002933
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2256.613503 B = 8164.508923 C = 9544.565529
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.894 5.894
2 C 0.040 3.960
3 Si 0.912 3.088
4 H -0.272 1.272
5 H -0.287 1.287
6 H -0.274 1.274
7 C -0.329 4.329
8 H 0.104 0.896
9 N -0.474 5.474
10 C 0.107 3.893
11 C -0.119 4.119
12 C 0.493 3.507
13 O -0.553 6.553
14 O -0.504 6.504
15 C 0.499 3.501
16 O -0.605 6.605
17 C -0.110 4.110
18 C 0.004 3.996
19 H 0.077 0.923
20 C -0.080 4.080
21 C -0.100 4.100
22 C -0.150 4.150
23 C 0.092 3.908
24 O -0.511 6.511
25 C -0.148 4.148
26 C -0.104 4.104
27 C -0.145 4.145
28 C -0.210 4.210
29 C -0.163 4.163
30 H 0.278 0.722
31 H 0.058 0.942
32 H 0.068 0.932
33 H 0.120 0.880
34 H 0.120 0.880
35 H 0.428 0.572
36 H 0.093 0.907
37 H 0.087 0.913
38 H 0.129 0.871
39 H 0.138 0.862
40 H 0.408 0.592
41 H 0.143 0.857
42 H 0.135 0.865
43 H 0.108 0.892
44 H 0.105 0.895
45 H 0.091 0.909
46 H 0.104 0.896
47 H 0.089 0.911
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 5.417 -11.422 1.862 12.778
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 -0.532 5.532
2 C -0.165 4.165
3 Si 0.741 3.259
4 H -0.199 1.199
5 H -0.214 1.214
6 H -0.199 1.199
7 C -0.457 4.457
8 H 0.121 0.879
9 N -0.195 5.195
10 C -0.016 4.016
11 C -0.158 4.158
12 C 0.337 3.663
13 O -0.445 6.445
14 O -0.317 6.317
15 C 0.291 3.709
16 O -0.492 6.492
17 C -0.150 4.150
18 C -0.014 4.014
19 H 0.096 0.904
20 C -0.080 4.080
21 C -0.118 4.118
22 C -0.168 4.168
23 C 0.048 3.952
24 O -0.324 6.324
25 C -0.166 4.166
26 C -0.122 4.122
27 C -0.163 4.163
28 C -0.247 4.247
29 C -0.200 4.200
30 H 0.088 0.912
31 H 0.075 0.925
32 H 0.086 0.914
33 H 0.138 0.862
34 H 0.138 0.862
35 H 0.290 0.710
36 H 0.111 0.889
37 H 0.105 0.895
38 H 0.147 0.853
39 H 0.156 0.844
40 H 0.267 0.733
41 H 0.161 0.839
42 H 0.153 0.847
43 H 0.126 0.874
44 H 0.123 0.877
45 H 0.110 0.890
46 H 0.123 0.877
47 H 0.108 0.892
Dipole moment (debyes) X Y Z Total
from point charges 5.938 -11.677 1.753 13.217
hybrid contribution -0.004 2.109 -0.205 2.119
sum 5.934 -9.568 1.548 11.365
Atomic orbital electron populations
1.69717 1.06756 1.28699 1.47997 1.25636 0.95412 0.99877 0.95529
0.86416 0.79274 0.82089 0.78084 1.19934 1.21448 1.19899 1.19040
0.82730 0.95369 1.48518 0.87879 1.43784 1.08049 1.38466 1.29154
1.21357 0.99610 0.93507 0.87136 1.21650 1.05045 0.99206 0.89878
1.23393 0.73506 0.85657 0.83724 1.90703 1.46729 1.22816 1.84229
1.84501 1.78212 1.50843 1.18171 1.20840 0.85373 0.82933 0.81756
1.90472 1.16432 1.72798 1.69448 1.21511 1.01645 0.93662 0.98165
1.19424 0.99521 0.91042 0.91460 0.90447 1.19776 0.94286 0.98031
0.95949 1.21037 0.95645 0.96573 0.98539 1.21560 1.00616 0.98903
0.95741 1.18568 0.92670 0.92937 0.91036 1.84755 1.83231 1.34769
1.29607 1.21549 0.96394 0.98294 1.00366 1.21125 1.00036 0.97485
0.93570 1.22248 0.98698 1.03533 0.91779 1.23561 1.04892 0.98676
0.97557 1.22938 0.96078 0.97486 1.03509 0.91205 0.92451 0.91354
0.86202 0.86237 0.70988 0.88857 0.89481 0.85294 0.84388 0.73285
0.83922 0.84705 0.87397 0.87680 0.89022 0.87741 0.89228
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 -0.89 -47.26 13.96 21.66 0.30 -46.96 16
2 C 0.04 2.01 5.40 84.93 0.46 2.47 16
3 Si 0.91 42.71 24.77 68.60 1.70 44.41 16
4 H -0.27 -12.77 6.63 99.48 0.66 -12.11 16
5 H -0.29 -13.22 7.11 99.48 0.71 -12.51 16
6 H -0.27 -13.22 7.10 99.48 0.71 -12.51 16
7 C -0.33 -15.66 9.14 84.04 0.77 -14.89 16
8 H 0.10 5.03 6.47 -2.91 -0.02 5.01 16
9 N -0.47 -20.78 2.18 -635.55 -1.39 -22.17 16
10 C 0.11 4.60 3.48 86.38 0.30 4.90 16
11 C -0.12 -4.17 6.13 29.85 0.18 -3.98 16
12 C 0.49 16.16 8.33 71.24 0.59 16.76 16
13 O -0.55 -21.80 16.74 21.94 0.37 -21.43 16
14 O -0.50 -11.96 13.42 -51.41 -0.69 -12.65 16
15 C 0.50 20.58 5.44 87.66 0.48 21.05 16
16 O -0.61 -26.63 13.26 -3.07 -0.04 -26.67 16
17 C -0.11 -3.84 4.41 29.85 0.13 -3.71 16
18 C 0.00 0.13 2.04 -11.54 -0.02 0.11 16
19 H 0.08 2.44 7.19 -2.38 -0.02 2.42 16
20 C -0.08 -2.09 4.78 -19.85 -0.09 -2.18 16
21 C -0.10 -2.49 8.65 22.26 0.19 -2.30 16
22 C -0.15 -3.40 9.99 22.37 0.22 -3.18 16
23 C 0.09 2.01 6.70 22.51 0.15 2.17 16
24 O -0.51 -9.50 13.50 -92.45 -1.25 -10.75 16
25 C -0.15 -3.14 9.99 22.37 0.22 -2.91 16
26 C -0.10 -2.43 9.66 22.25 0.22 -2.21 16
27 C -0.14 -4.06 4.88 -10.80 -0.05 -4.12 16
28 C -0.21 -6.35 8.30 30.59 0.25 -6.09 16
29 C -0.16 -4.18 10.18 30.59 0.31 -3.87 16
30 H 0.28 13.97 8.31 -92.70 -0.77 13.20 16
31 H 0.06 2.66 2.80 -2.38 -0.01 2.65 16
32 H 0.07 3.07 7.31 -2.39 -0.02 3.06 16
33 H 0.12 3.89 6.69 -2.38 -0.02 3.88 16
34 H 0.12 4.08 8.14 -2.39 -0.02 4.06 16
35 H 0.43 5.91 9.10 -74.06 -0.67 5.23 16
36 H 0.09 3.31 5.69 -2.39 -0.01 3.30 16
37 H 0.09 3.00 8.14 -2.39 -0.02 2.98 16
38 H 0.13 3.16 7.37 -2.91 -0.02 3.13 16
39 H 0.14 2.70 8.06 -2.91 -0.02 2.68 16
40 H 0.41 3.66 9.06 -74.06 -0.67 2.99 16
41 H 0.14 2.43 8.06 -2.91 -0.02 2.40 16
42 H 0.14 2.80 7.95 -2.91 -0.02 2.78 16
43 H 0.11 2.87 7.24 -2.38 -0.02 2.85 16
44 H 0.11 3.79 3.93 -2.39 -0.01 3.78 16
45 H 0.09 2.59 8.14 -2.38 -0.02 2.57 16
46 H 0.10 2.26 8.14 -2.38 -0.02 2.25 16
47 H 0.09 2.30 8.09 -2.39 -0.02 2.28 16
Total: -1.00 -64.83 382.06 2.96 -61.86
By element:
Atomic # 1 Polarization: 36.71 SS G_CDS: -0.35 Total: 36.36 kcal
Atomic # 6 Polarization: -6.32 SS G_CDS: 4.31 Total: -2.01 kcal
Atomic # 7 Polarization: -68.04 SS G_CDS: -1.09 Total: -69.13 kcal
Atomic # 8 Polarization: -69.88 SS G_CDS: -1.61 Total: -71.49 kcal
Atomic # 14 Polarization: 42.71 SS G_CDS: 1.70 Total: 44.41 kcal
Total: -64.83 2.96 -61.86 kcal
The number of atoms in the molecule is 47
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.
ZINC001601071262.mol2 47
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 -67.806 kcal
(2) G-P(sol) polarization free energy of solvation -64.826 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -132.632 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.964 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.861 kcal
(6) G-S(sol) free energy of system = (1) + (5) -129.667 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.92 seconds