Wall clock time and date at job start Wed Apr 1 2020 05:19:37
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 1.52992 * 1
3 3 C 1.53001 * 109.47453 * 2 1
4 4 C 1.50701 * 109.47075 * 120.00377 * 2 1 3
5 5 H 1.08003 * 120.00064 * 125.42177 * 4 2 1
6 6 C 1.37877 * 119.99628 * 305.41563 * 4 2 1
7 7 N 1.31523 * 119.99587 * 150.83709 * 6 4 2
8 8 Si 1.86793 * 120.00262 * 330.55948 * 6 4 2
9 9 H 1.48504 * 109.47083 * 180.27463 * 8 6 4
10 10 H 1.48499 * 109.47322 * 300.27434 * 8 6 4
11 11 H 1.48499 * 109.46935 * 60.27806 * 8 6 4
12 12 C 1.53004 * 109.47235 * 239.99870 * 2 1 3
13 13 S 1.81408 * 109.46678 * 60.00174 * 12 2 1
14 14 O 1.42092 * 110.54590 * 291.62540 * 13 12 2
15 15 O 1.42105 * 110.54122 * 68.37692 * 13 12 2
16 16 N 1.65598 * 104.44651 * 179.97438 * 13 12 2
17 17 C 1.46499 * 120.00088 * 65.00549 * 16 13 12
18 18 H 1.08996 * 109.48022 * 25.00943 * 17 16 13
19 19 C 1.53031 * 109.47392 * 264.99581 * 17 16 13
20 20 C 1.52995 * 109.46078 * 180.22053 * 19 17 16
21 21 C 1.52991 * 109.51857 * 60.14482 * 20 19 17
22 22 C 1.53022 * 109.46428 * 299.85845 * 21 20 19
23 23 C 1.52951 * 109.43464 * 59.78670 * 22 21 20
24 24 O 1.43711 * 109.40824 * 60.39304 * 23 22 21
25 25 C 1.44795 * 104.79198 * 95.51920 * 24 23 22
26 26 C 1.54923 * 101.72537 * 36.06354 * 25 24 23
27 27 O 1.43292 * 109.66068 * 179.71995 * 23 22 21
28 28 H 1.08996 * 109.47108 * 292.47785 * 1 2 3
29 29 H 1.09006 * 109.46888 * 52.47396 * 1 2 3
30 30 H 1.09000 * 109.47793 * 172.47288 * 1 2 3
31 31 H 1.08998 * 109.47194 * 183.38288 * 3 2 1
32 32 H 1.08998 * 109.47519 * 303.38815 * 3 2 1
33 33 H 1.09002 * 109.47170 * 63.38660 * 3 2 1
34 34 H 0.96998 * 119.99833 * 354.68590 * 7 6 4
35 35 H 1.08998 * 109.47266 * 179.97438 * 12 2 1
36 36 H 1.08996 * 109.47447 * 300.00880 * 12 2 1
37 37 H 0.97006 * 120.00312 * 244.99646 * 16 13 12
38 38 H 1.08999 * 109.47197 * 300.21718 * 19 17 16
39 39 H 1.09000 * 109.46910 * 60.22743 * 19 17 16
40 40 H 1.09000 * 109.46343 * 180.15607 * 20 19 17
41 41 H 1.08991 * 109.46776 * 300.12541 * 20 19 17
42 42 H 1.09006 * 109.47275 * 59.85288 * 21 20 19
43 43 H 1.09001 * 109.47592 * 179.85514 * 21 20 19
44 44 H 1.09001 * 109.47468 * 179.77433 * 22 21 20
45 45 H 1.09000 * 109.47568 * 299.78470 * 22 21 20
46 46 H 1.09002 * 110.97830 * 277.95436 * 25 24 23
47 47 H 1.08996 * 110.97725 * 154.16775 * 25 24 23
48 48 H 1.09001 * 110.69054 * 206.07803 * 26 25 24
49 49 H 1.08999 * 110.69397 * 82.87323 * 26 25 24
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 1.5299 0.0000 0.0000
3 6 2.0400 1.4425 0.0000
4 6 2.0322 -0.7105 1.2304
5 1 2.7234 -1.5348 1.1337
6 6 1.6096 -0.3081 2.4796
7 7 1.5404 -1.1792 3.4626
8 14 1.1427 1.4758 2.7779
9 1 0.7318 1.6497 4.1943
10 1 2.3099 2.3477 2.4905
11 1 0.0152 1.8481 1.8862
12 6 2.0400 -0.7213 -1.2492
13 16 1.4353 0.1340 -2.7304
14 8 0.0280 -0.0181 -2.8544
15 8 2.0480 1.4101 -2.8543
16 7 2.0541 -0.7399 -3.9936
17 6 1.6253 -2.1245 -4.2061
18 1 0.6364 -2.2696 -3.7712
19 6 2.6210 -3.0752 -3.5379
20 6 2.1759 -4.5213 -3.7647
21 6 2.1275 -4.8118 -5.2660
22 6 1.1311 -3.8639 -5.9369
23 6 1.5707 -2.4171 -5.7064
24 8 2.8732 -2.2167 -6.2797
25 6 2.6178 -1.6656 -7.5941
26 6 1.3790 -0.7745 -7.3265
27 8 0.6443 -1.5252 -6.3384
28 1 -0.3633 0.3929 0.9496
29 1 -0.3633 0.6260 -0.8151
30 1 -0.3635 -1.0188 -0.1346
31 1 3.1283 1.4430 -0.0606
32 1 1.6280 1.9736 -0.8580
33 1 1.7271 1.9385 0.9188
34 1 1.7120 -2.1184 3.2912
35 1 3.1299 -0.7209 -1.2495
36 1 1.6766 -1.7489 -1.2494
37 1 2.7004 -0.3350 -4.5930
38 1 3.6106 -2.9276 -3.9704
39 1 2.6576 -2.8698 -2.4681
40 1 2.8837 -5.1984 -3.2864
41 1 1.1855 -4.6682 -3.3342
42 1 3.1176 -4.6627 -5.6970
43 1 1.8128 -5.8430 -5.4267
44 1 1.0995 -4.0680 -7.0072
45 1 0.1404 -4.0155 -5.5086
46 1 2.3840 -2.4542 -8.3093
47 1 3.4619 -1.0674 -7.9371
48 1 0.7889 -0.6525 -8.2348
49 1 1.6802 0.1945 -6.9285
RHF calculation, no. of doubly occupied orbitals= 64
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
ZINC000830918793.mol2 49
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 05:19:37
Heat of formation + Delta-G solvation = -185.045393 kcal
Electronic energy + Delta-G solvation = -31818.701200 eV
Core-core repulsion = 27679.148355 eV
Total energy + Delta-G solvation = -4139.552845 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 347.165 amu
Computer time = 0.72 seconds
Orbital eigenvalues (eV)
-42.00627 -38.49275 -38.43014 -38.06922 -37.00349 -36.04531 -35.26770 -34.12275
-31.59701 -30.38707 -28.97257 -28.37480 -28.16111 -26.60974 -24.30695 -23.66763
-23.07985 -21.61866 -20.91120 -20.20592 -19.18066 -18.74764 -18.31909 -18.13035
-17.12333 -17.10722 -16.62571 -16.42674 -16.20999 -15.76207 -15.27806 -15.14135
-14.92920 -14.80859 -14.69823 -14.48870 -14.22332 -14.15673 -13.97190 -13.91600
-13.70271 -13.41975 -13.20932 -13.12422 -13.01209 -12.83661 -12.69050 -12.52908
-12.43942 -12.26339 -12.04373 -12.00634 -11.81575 -11.75946 -11.60410 -11.45650
-11.11087 -11.01230 -10.82485 -10.76819 -10.30174 -10.19173 -8.75354 -6.32276
-0.73050 1.42185 1.44970 1.68084 1.72996 2.40761 2.43290 2.71226
2.80573 2.93971 3.20385 3.45710 3.67275 3.69261 3.78845 3.92910
3.95316 4.05628 4.07069 4.12418 4.19886 4.24371 4.24986 4.39720
4.47526 4.54260 4.58342 4.60999 4.62957 4.68957 4.71558 4.74761
4.86323 4.93627 4.94970 5.00215 5.09758 5.12604 5.18266 5.23332
5.27434 5.38951 5.49379 5.52713 5.98189 6.00551 6.08353 6.10819
6.59287 7.35403 8.58762
Molecular weight = 347.16amu
Principal moments of inertia in cm(-1)
A = 0.018988 B = 0.003756 C = 0.003365
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1474.255467 B = 7452.921987 C = 8318.274091
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.173 4.173
2 C 0.049 3.951
3 C -0.186 4.186
4 C -0.596 4.596
5 H 0.039 0.961
6 C 0.003 3.997
7 N -0.918 5.918
8 Si 1.059 2.941
9 H -0.301 1.301
10 H -0.263 1.263
11 H -0.250 1.250
12 C -0.580 4.580
13 S 2.611 3.389
14 O -0.983 6.983
15 O -0.985 6.985
16 N -1.101 6.101
17 C 0.142 3.858
18 H 0.094 0.906
19 C -0.143 4.143
20 C -0.124 4.124
21 C -0.108 4.108
22 C -0.135 4.135
23 C 0.259 3.741
24 O -0.371 6.371
25 C 0.014 3.986
26 C 0.006 3.994
27 O -0.394 6.394
28 H 0.056 0.944
29 H 0.049 0.951
30 H 0.057 0.943
31 H 0.069 0.931
32 H 0.056 0.944
33 H 0.049 0.951
34 H 0.262 0.738
35 H 0.138 0.862
36 H 0.134 0.866
37 H 0.421 0.579
38 H 0.085 0.915
39 H 0.069 0.931
40 H 0.082 0.918
41 H 0.066 0.934
42 H 0.073 0.927
43 H 0.087 0.913
44 H 0.087 0.913
45 H 0.080 0.920
46 H 0.094 0.906
47 H 0.131 0.869
48 H 0.122 0.878
49 H 0.070 0.930
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.787 -5.614 -25.256 26.022
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 -0.231 4.231
2 C 0.047 3.953
3 C -0.243 4.243
4 C -0.634 4.634
5 H 0.057 0.943
6 C -0.199 4.199
7 N -0.551 5.551
8 Si 0.886 3.114
9 H -0.230 1.230
10 H -0.189 1.189
11 H -0.176 1.176
12 C -0.711 4.711
13 S 2.708 3.292
14 O -0.973 6.973
15 O -0.976 6.976
16 N -0.860 5.860
17 C 0.034 3.966
18 H 0.112 0.888
19 C -0.183 4.183
20 C -0.162 4.162
21 C -0.145 4.145
22 C -0.174 4.174
23 C 0.181 3.819
24 O -0.292 6.292
25 C -0.062 4.062
26 C -0.070 4.070
27 O -0.315 6.315
28 H 0.075 0.925
29 H 0.068 0.932
30 H 0.076 0.924
31 H 0.088 0.912
32 H 0.075 0.925
33 H 0.067 0.933
34 H 0.071 0.929
35 H 0.156 0.844
36 H 0.152 0.848
37 H 0.257 0.743
38 H 0.104 0.896
39 H 0.088 0.912
40 H 0.100 0.900
41 H 0.085 0.915
42 H 0.092 0.908
43 H 0.105 0.895
44 H 0.106 0.894
45 H 0.098 0.902
46 H 0.112 0.888
47 H 0.149 0.851
48 H 0.140 0.860
49 H 0.088 0.912
Dipole moment (debyes) X Y Z Total
from point charges 1.624 -3.898 -23.939 24.309
hybrid contribution 1.166 -1.427 -0.716 1.977
sum 2.790 -5.325 -24.655 25.378
Atomic orbital electron populations
1.22622 0.97078 1.01855 1.01513 1.18166 0.92456 0.92149 0.92562
1.22806 1.02844 0.97689 1.00941 1.21722 1.31294 1.18846 0.91587
0.94305 1.26688 0.93319 1.07101 0.92814 1.70959 1.43680 1.03674
1.36830 0.84119 0.78669 0.73657 0.74934 1.22975 1.18913 1.17585
1.30489 1.12655 1.13161 1.14844 1.04833 0.74355 0.74261 0.75755
1.93531 1.31304 1.86674 1.85815 1.93515 1.78339 1.39555 1.86170
1.55265 1.60816 1.23931 1.45960 1.21359 0.99105 0.80720 0.95455
0.88842 1.22211 0.99944 0.95198 1.00903 1.21595 1.02466 0.94822
0.97293 1.21458 0.99557 0.99207 0.94283 1.22147 1.00754 0.91433
1.03029 1.23463 0.77101 0.91264 0.90108 1.89236 1.25773 1.84270
1.29912 1.24638 0.98969 0.97157 0.85434 1.24491 0.93873 0.95758
0.92850 1.88943 1.34086 1.54409 1.54056 0.92469 0.93178 0.92408
0.91179 0.92543 0.93269 0.92904 0.84386 0.84812 0.74316 0.89590
0.91235 0.89977 0.91506 0.90843 0.89481 0.89405 0.90182 0.88818
0.85130 0.86025 0.91195
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 C -0.17 -7.92 7.38 71.98 0.53 -7.39 16
2 C 0.05 2.28 0.52 -52.93 -0.03 2.25 16
3 C -0.19 -8.24 7.33 71.98 0.53 -7.71 16
4 C -0.60 -32.26 8.42 25.60 0.22 -32.04 16
5 H 0.04 2.23 7.99 -2.91 -0.02 2.21 16
6 C 0.00 0.18 5.04 84.65 0.43 0.61 16
7 N -0.92 -55.62 13.70 21.45 0.29 -55.33 16
8 Si 1.06 50.70 23.48 68.60 1.61 52.31 16
9 H -0.30 -14.64 7.11 99.48 0.71 -13.93 16
10 H -0.26 -11.64 6.72 99.48 0.67 -10.97 16
11 H -0.25 -10.98 5.81 99.48 0.58 -10.40 16
12 C -0.58 -21.56 4.16 71.98 0.30 -21.26 16
13 S 2.61 92.34 4.47 -56.49 -0.25 92.09 16
14 O -0.98 -39.85 15.18 -127.65 -1.94 -41.79 16
15 O -0.99 -38.56 15.77 -127.65 -2.01 -40.57 16
16 N -1.10 -30.04 5.22 -169.41 -0.88 -30.93 16
17 C 0.14 3.52 2.19 44.99 0.10 3.61 16
18 H 0.09 2.56 7.48 -2.39 -0.02 2.55 16
19 C -0.14 -3.10 5.35 30.60 0.16 -2.93 16
20 C -0.12 -2.16 5.92 30.59 0.18 -1.98 16
21 C -0.11 -1.55 5.78 30.60 0.18 -1.37 16
22 C -0.14 -2.25 5.29 30.59 0.16 -2.09 16
23 C 0.26 5.46 0.71 30.56 0.02 5.48 16
24 O -0.37 -6.78 9.14 -126.22 -1.15 -7.93 16
25 C 0.01 0.16 7.91 72.64 0.57 0.74 16
26 C 0.01 0.10 8.08 72.64 0.59 0.68 16
27 O -0.39 -9.34 10.73 -126.22 -1.35 -10.70 16
28 H 0.06 2.68 4.49 -2.39 -0.01 2.67 16
29 H 0.05 2.14 6.02 -2.38 -0.01 2.13 16
30 H 0.06 2.55 8.13 -2.39 -0.02 2.53 16
31 H 0.07 2.92 8.14 -2.39 -0.02 2.90 16
32 H 0.06 2.34 5.71 -2.39 -0.01 2.33 16
33 H 0.05 2.19 2.28 -2.39 -0.01 2.19 16
34 H 0.26 15.81 8.73 -92.71 -0.81 15.00 16
35 H 0.14 4.66 8.14 -2.39 -0.02 4.64 16
36 H 0.13 4.62 6.77 -2.39 -0.02 4.60 16
37 H 0.42 10.12 8.34 -96.74 -0.81 9.32 16
38 H 0.09 1.76 7.69 -2.39 -0.02 1.74 16
39 H 0.07 1.63 5.79 -2.39 -0.01 1.62 16
40 H 0.08 1.28 8.14 -2.39 -0.02 1.26 16
41 H 0.07 1.19 8.14 -2.39 -0.02 1.17 16
42 H 0.07 1.06 7.69 -2.38 -0.02 1.04 16
43 H 0.09 0.96 8.14 -2.39 -0.02 0.94 16
44 H 0.09 1.19 8.14 -2.39 -0.02 1.17 16
45 H 0.08 1.39 8.14 -2.39 -0.02 1.37 16
46 H 0.09 0.78 8.14 -2.39 -0.02 0.76 16
47 H 0.13 0.95 8.14 -2.39 -0.02 0.93 16
48 H 0.12 1.30 8.14 -2.39 -0.02 1.28 16
49 H 0.07 1.17 8.14 -2.39 -0.02 1.15 16
Total: -1.00 -72.25 368.06 -1.80 -74.05
By element:
Atomic # 1 Polarization: 32.24 SS G_CDS: -0.05 Total: 32.19 kcal
Atomic # 6 Polarization: -67.34 SS G_CDS: 3.94 Total: -63.40 kcal
Atomic # 7 Polarization: -85.66 SS G_CDS: -0.59 Total: -86.25 kcal
Atomic # 8 Polarization: -94.52 SS G_CDS: -6.46 Total: -100.98 kcal
Atomic # 14 Polarization: 50.70 SS G_CDS: 1.61 Total: 52.31 kcal
Atomic # 16 Polarization: 92.34 SS G_CDS: -0.25 Total: 92.09 kcal
Total: -72.25 -1.80 -74.05 kcal
The number of atoms in the molecule is 49
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.
ZINC000830918793.mol2 49
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 -110.994 kcal
(2) G-P(sol) polarization free energy of solvation -72.252 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -183.246 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.800 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.051 kcal
(6) G-S(sol) free energy of system = (1) + (5) -185.045 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.72 seconds