Wall clock time and date at job start Tue Mar 31 2020 13:26:12
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 1.86802 * 119.99892 * 2 1
4 4 H 1.48502 * 109.47011 * 179.97438 * 3 2 1
5 5 H 1.48496 * 109.47225 * 299.99516 * 3 2 1
6 6 H 1.48502 * 109.47181 * 59.99992 * 3 2 1
7 7 C 1.38809 * 119.99754 * 179.97438 * 2 1 3
8 8 H 1.08004 * 119.99594 * 180.02562 * 7 2 1
9 9 N 1.36933 * 120.00491 * 0.02562 * 7 2 1
10 10 C 1.47588 * 134.49029 * 359.97438 * 9 7 2
11 11 C 1.53947 * 86.11590 * 155.36252 * 10 9 7
12 12 C 1.47580 * 134.49629 * 180.02562 * 9 7 2
13 13 H 1.09006 * 113.87183 * 90.31999 * 12 9 7
14 14 C 1.52998 * 113.76882 * 318.93762 * 12 9 7
15 15 N 1.46503 * 109.47133 * 78.50105 * 14 12 9
16 16 C 1.34779 * 119.99998 * 179.97438 * 15 14 12
17 17 O 1.21635 * 119.99972 * 0.02562 * 16 15 14
18 18 C 1.47188 * 119.99948 * 180.02562 * 16 15 14
19 19 C 1.35624 * 123.19143 * 359.97438 * 18 16 15
20 20 S 1.70264 * 110.84664 * 180.02562 * 19 18 16
21 21 C 1.75594 * 92.62595 * 359.97438 * 20 19 18
22 22 C 1.34016 * 110.59565 * 0.02562 * 21 20 19
23 23 C 1.52016 * 123.46057 * 179.97438 * 22 21 20
24 24 C 1.53048 * 108.75383 * 342.85907 * 23 22 21
25 25 C 1.53166 * 109.20118 * 50.66975 * 24 23 22
26 26 C 1.51612 * 125.05299 * 179.97438 * 21 20 19
27 27 H 0.97000 * 119.99892 * 0.02562 * 1 2 3
28 28 H 1.08997 * 113.76862 * 41.06125 * 10 9 7
29 29 H 1.09001 * 113.86527 * 269.67869 * 10 9 7
30 30 H 1.08994 * 113.74303 * 269.26556 * 11 10 9
31 31 H 1.08999 * 113.83898 * 137.96155 * 11 10 9
32 32 H 1.09000 * 109.47232 * 318.51117 * 14 12 9
33 33 H 1.08997 * 109.47647 * 198.50658 * 14 12 9
34 34 H 0.97004 * 120.00039 * 0.02562 * 15 14 12
35 35 H 1.08002 * 124.57705 * 0.05751 * 19 18 16
36 36 H 1.09001 * 109.58971 * 223.08119 * 23 22 21
37 37 H 1.09000 * 109.58840 * 102.63788 * 23 22 21
38 38 H 1.08996 * 109.51869 * 290.74873 * 24 23 22
39 39 H 1.09002 * 109.51686 * 170.58397 * 24 23 22
40 40 H 1.09000 * 109.53916 * 49.49490 * 25 24 23
41 41 H 1.09002 * 109.54047 * 169.74625 * 25 24 23
42 42 H 1.09000 * 109.59063 * 43.66094 * 26 21 20
43 43 H 1.09005 * 109.59498 * 283.20956 * 26 21 20
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 1.6178 0.0000
4 1 3.7102 1.3464 0.0006
5 1 1.8915 2.3964 -1.2125
6 1 1.8914 2.3965 1.2125
7 6 2.0102 -1.2021 0.0005
8 1 3.0902 -1.2021 0.0010
9 7 1.3256 -2.3881 0.0005
10 6 -0.1033 -2.7574 0.0005
11 6 0.3470 -4.0830 -0.6398
12 6 1.7201 -3.8101 0.0015
13 1 1.8319 -4.2363 0.9985
14 6 2.9030 -4.1225 -0.9172
15 7 4.1498 -3.7189 -0.2624
16 6 5.3294 -3.9002 -0.8888
17 8 5.3586 -4.3985 -1.9980
18 6 6.5820 -3.4952 -0.2306
19 6 6.6247 -2.9339 1.0033
20 16 8.2292 -2.5901 1.4574
21 6 8.8756 -3.2165 -0.0502
22 6 7.8868 -3.6583 -0.8397
23 6 8.1186 -4.2603 -2.2161
24 6 9.5247 -3.8824 -2.6880
25 6 10.5342 -4.2251 -1.5882
26 6 10.3459 -3.2555 -0.4178
27 1 -0.4850 0.8401 -0.0004
28 1 -0.7169 -2.1391 -0.6547
29 1 -0.5289 -2.8732 0.9973
30 1 0.3591 -4.0622 -1.7294
31 1 -0.1583 -4.9608 -0.2371
32 1 2.7906 -3.5752 -1.8531
33 1 2.9306 -5.1925 -1.1231
34 1 4.1265 -3.3219 0.6224
35 1 5.7579 -2.7327 1.6154
36 1 7.3806 -3.8678 -2.9157
37 1 8.0314 -5.3453 -2.1599
38 1 9.5634 -2.8135 -2.8976
39 1 9.7677 -4.4406 -3.5921
40 1 10.3681 -5.2467 -1.2464
41 1 11.5468 -4.1306 -1.9805
42 1 10.9276 -3.5984 0.4378
43 1 10.6759 -2.2589 -0.7112
RHF calculation, no. of doubly occupied orbitals= 57
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
ZINC001038993807.mol2 43
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 13:26:12
Heat of formation + Delta-G solvation = 12.252741 kcal
Electronic energy + Delta-G solvation = -24584.026787 eV
Core-core repulsion = 21141.820772 eV
Total energy + Delta-G solvation = -3442.206014 eV
No. of doubly occupied orbitals = 57
Molecular weight
(most abundant/longest-lived isotopes) = 320.130 amu
Computer time = 0.70 seconds
Orbital eigenvalues (eV)
-41.15488 -39.86692 -39.09973 -36.04221 -35.43891 -34.21417 -31.69731 -30.55608
-29.87206 -28.94493 -25.78548 -25.31246 -24.25657 -23.76140 -22.69812 -21.23033
-20.64707 -19.23448 -18.89824 -18.40573 -17.80419 -17.12502 -16.77837 -16.24440
-15.93555 -15.60516 -15.38585 -15.29055 -14.91433 -14.70751 -14.69537 -14.20855
-14.02107 -13.67311 -13.52921 -13.29788 -13.13208 -12.99594 -12.71520 -12.60446
-12.50870 -12.39280 -12.30080 -11.86887 -11.73483 -11.64426 -11.52740 -11.34668
-11.26118 -10.87113 -10.75835 -10.10342 -9.59342 -9.25697 -8.89983 -7.88922
-5.20310 -0.25447 0.55251 0.91903 0.93523 1.40263 1.42183 1.50318
2.17388 2.33611 2.45310 3.31028 3.36897 3.56670 3.81297 3.93057
4.00316 4.02924 4.09431 4.13029 4.26503 4.32511 4.34431 4.57918
4.61104 4.62917 4.68059 4.70224 4.85380 4.89984 4.99703 4.99997
5.04706 5.07677 5.10877 5.20344 5.32069 5.34134 5.42847 5.44768
5.59576 5.60220 5.73397 5.96901 6.51817 6.94311 7.18481 7.63554
8.58385 9.28036
Molecular weight = 320.13amu
Principal moments of inertia in cm(-1)
A = 0.014620 B = 0.003727 C = 0.003302
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1914.690961 B = 7511.945640 C = 8478.141749
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.952 5.952
2 C -0.068 4.068
3 Si 0.963 3.037
4 H -0.269 1.269
5 H -0.298 1.298
6 H -0.291 1.291
7 C -0.212 4.212
8 H 0.081 0.919
9 N -0.629 5.629
10 C 0.150 3.850
11 C -0.130 4.130
12 C 0.132 3.868
13 H 0.071 0.929
14 C 0.134 3.866
15 N -0.708 5.708
16 C 0.567 3.433
17 O -0.575 6.575
18 C -0.173 4.173
19 C -0.220 4.220
20 S 0.236 5.764
21 C -0.209 4.209
22 C -0.080 4.080
23 C -0.050 4.050
24 C -0.119 4.119
25 C -0.111 4.111
26 C -0.045 4.045
27 H 0.245 0.755
28 H 0.039 0.961
29 H 0.023 0.977
30 H 0.077 0.923
31 H 0.095 0.905
32 H 0.042 0.958
33 H 0.081 0.919
34 H 0.405 0.595
35 H 0.178 0.822
36 H 0.059 0.941
37 H 0.069 0.931
38 H 0.061 0.939
39 H 0.080 0.920
40 H 0.065 0.935
41 H 0.095 0.905
42 H 0.097 0.903
43 H 0.091 0.909
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 20.813 -10.187 2.378 23.294
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 -0.602 5.602
2 C -0.261 4.261
3 Si 0.793 3.207
4 H -0.194 1.194
5 H -0.225 1.225
6 H -0.218 1.218
7 C -0.340 4.340
8 H 0.099 0.901
9 N -0.356 5.356
10 C 0.025 3.975
11 C -0.168 4.168
12 C 0.026 3.974
13 H 0.089 0.911
14 C 0.009 3.991
15 N -0.358 5.358
16 C 0.354 3.646
17 O -0.457 6.457
18 C -0.191 4.191
19 C -0.359 4.359
20 S 0.506 5.494
21 C -0.326 4.326
22 C -0.090 4.090
23 C -0.089 4.089
24 C -0.156 4.156
25 C -0.150 4.150
26 C -0.084 4.084
27 H 0.054 0.946
28 H 0.057 0.943
29 H 0.041 0.959
30 H 0.096 0.904
31 H 0.113 0.887
32 H 0.060 0.940
33 H 0.099 0.901
34 H 0.240 0.760
35 H 0.195 0.805
36 H 0.078 0.922
37 H 0.088 0.912
38 H 0.080 0.920
39 H 0.099 0.901
40 H 0.084 0.916
41 H 0.114 0.886
42 H 0.116 0.884
43 H 0.109 0.891
Dipole moment (debyes) X Y Z Total
from point charges 21.489 -9.547 2.943 23.698
hybrid contribution -1.387 0.913 -0.749 1.822
sum 20.102 -8.634 2.195 21.987
Atomic orbital electron populations
1.69998 1.06182 1.25098 1.58959 1.25469 0.96396 1.00341 1.03906
0.85222 0.78217 0.80614 0.76641 1.19356 1.22538 1.21777 1.19287
0.90527 0.83141 1.41091 0.90104 1.46422 1.03314 0.99905 1.85919
1.22168 0.87039 0.91769 0.96506 1.23568 0.94940 0.97886 1.00450
1.22686 0.93257 0.84704 0.96762 0.91132 1.21565 0.82316 0.99407
0.95764 1.45815 1.05715 1.62856 1.21364 1.18028 0.83693 0.77958
0.84908 1.90698 1.87815 1.46465 1.20703 1.20173 0.93982 1.08803
0.96187 1.25718 1.05719 1.04443 0.99993 1.82574 0.93329 1.57767
1.15759 1.25149 1.00983 1.07984 0.98500 1.20513 0.89288 1.01173
0.98065 1.20432 0.98029 0.99606 0.90876 1.21626 0.93057 1.01746
0.99199 1.21589 0.99926 0.99040 0.94435 1.20496 0.86611 1.01583
0.99680 0.94551 0.94290 0.95872 0.90404 0.88653 0.93978 0.90059
0.75991 0.80483 0.92243 0.91229 0.91981 0.90089 0.91647 0.88633
0.88422 0.89082
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 -57.51 11.38 21.65 0.25 -57.27 16
2 C -0.07 -3.89 5.50 84.86 0.47 -3.42 16
3 Si 0.96 46.31 29.55 68.60 2.03 48.33 16
4 H -0.27 -12.24 7.11 99.48 0.71 -11.54 16
5 H -0.30 -14.58 7.11 99.48 0.71 -13.87 16
6 H -0.29 -13.84 7.11 99.48 0.71 -13.13 16
7 C -0.21 -11.49 10.51 84.03 0.88 -10.60 16
8 H 0.08 4.23 7.80 -2.91 -0.02 4.20 16
9 N -0.63 -30.67 3.57 -693.99 -2.48 -33.15 16
10 C 0.15 6.94 7.51 86.48 0.65 7.59 16
11 C -0.13 -4.52 7.86 31.27 0.25 -4.28 16
12 C 0.13 4.90 4.33 45.10 0.20 5.09 16
13 H 0.07 2.40 8.14 -2.38 -0.02 2.38 16
14 C 0.13 4.86 5.54 86.38 0.48 5.34 16
15 N -0.71 -24.74 5.49 -466.59 -2.56 -27.31 16
16 C 0.57 20.76 7.79 86.59 0.67 21.43 16
17 O -0.57 -24.03 14.61 -4.14 -0.06 -24.09 16
18 C -0.17 -5.37 5.97 -19.82 -0.12 -5.49 16
19 C -0.22 -5.66 10.35 67.21 0.70 -4.96 16
20 S 0.24 4.61 22.99 -56.49 -1.30 3.31 16
21 C -0.21 -4.48 6.32 25.01 0.16 -4.32 16
22 C -0.08 -2.21 5.95 -18.70 -0.11 -2.32 16
23 C -0.05 -1.32 5.07 30.29 0.15 -1.17 16
24 C -0.12 -2.17 5.90 30.67 0.18 -1.99 16
25 C -0.11 -1.50 5.93 30.70 0.18 -1.32 16
26 C -0.04 -0.63 6.26 30.19 0.19 -0.44 16
27 H 0.25 14.50 8.31 -92.71 -0.77 13.73 16
28 H 0.04 2.06 7.15 -2.39 -0.02 2.04 16
29 H 0.02 1.08 8.14 -2.39 -0.02 1.06 16
30 H 0.08 2.72 8.10 -2.39 -0.02 2.70 16
31 H 0.10 2.59 8.14 -2.39 -0.02 2.57 16
32 H 0.04 1.79 8.14 -2.39 -0.02 1.77 16
33 H 0.08 2.63 8.14 -2.39 -0.02 2.61 16
34 H 0.40 13.18 6.94 -92.71 -0.64 12.54 16
35 H 0.18 4.13 6.97 -2.91 -0.02 4.11 16
36 H 0.06 1.92 6.94 -2.39 -0.02 1.90 16
37 H 0.07 1.86 8.14 -2.39 -0.02 1.85 16
38 H 0.06 1.17 8.10 -2.39 -0.02 1.15 16
39 H 0.08 1.26 8.14 -2.39 -0.02 1.24 16
40 H 0.06 0.93 8.11 -2.39 -0.02 0.91 16
41 H 0.10 0.84 8.14 -2.39 -0.02 0.82 16
42 H 0.10 0.99 8.14 -2.39 -0.02 0.97 16
43 H 0.09 1.11 8.14 -2.38 -0.02 1.09 16
Total: -1.00 -71.08 359.57 1.17 -69.91
By element:
Atomic # 1 Polarization: 20.75 SS G_CDS: 0.38 Total: 21.13 kcal
Atomic # 6 Polarization: -5.79 SS G_CDS: 4.92 Total: -0.87 kcal
Atomic # 7 Polarization: -112.93 SS G_CDS: -4.80 Total: -117.73 kcal
Atomic # 8 Polarization: -24.03 SS G_CDS: -0.06 Total: -24.09 kcal
Atomic # 14 Polarization: 46.31 SS G_CDS: 2.03 Total: 48.33 kcal
Atomic # 16 Polarization: 4.61 SS G_CDS: -1.30 Total: 3.31 kcal
Total: -71.08 1.17 -69.91 kcal
The number of atoms in the molecule is 43
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.
ZINC001038993807.mol2 43
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 82.162 kcal
(2) G-P(sol) polarization free energy of solvation -71.081 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 11.081 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.172 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -69.909 kcal
(6) G-S(sol) free energy of system = (1) + (5) 12.253 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.70 seconds