Wall clock time and date at job start Sat Apr 11 2020 06:48:40
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 1.31513 * 1
3 3 Si 1.86801 * 120.00173 * 2 1
4 4 H 1.48500 * 109.47132 * 270.00081 * 3 2 1
5 5 H 1.48494 * 109.47161 * 29.99693 * 3 2 1
6 6 H 1.48501 * 109.47245 * 149.99915 * 3 2 1
7 7 C 1.37877 * 119.99887 * 180.02562 * 2 1 3
8 8 H 1.08001 * 120.00034 * 179.97438 * 7 2 1
9 9 C 1.50697 * 119.99842 * 359.97438 * 7 2 1
10 10 C 1.53008 * 109.47097 * 180.02562 * 9 7 2
11 11 C 1.50697 * 109.47097 * 179.97438 * 10 9 7
12 12 O 1.21278 * 120.00176 * 359.97438 * 11 10 9
13 13 N 1.34774 * 119.99727 * 180.02562 * 11 10 9
14 14 S 1.65604 * 119.99659 * 180.02562 * 13 11 10
15 15 O 1.42097 * 106.40425 * 311.45383 * 14 13 11
16 16 O 1.42103 * 106.39726 * 178.53921 * 14 13 11
17 17 C 1.76197 * 107.22033 * 65.00063 * 14 13 11
18 18 C 1.39867 * 126.03987 * 89.97268 * 17 14 13
19 19 N 1.30837 * 108.20326 * 180.02562 * 18 17 14
20 20 N 1.40090 * 108.20632 * 0.02562 * 19 18 17
21 21 C 1.46498 * 126.04334 * 180.02562 * 20 19 18
22 22 H 1.08999 * 110.79708 * 331.39514 * 21 20 19
23 23 C 1.54807 * 110.90714 * 95.01822 * 21 20 19
24 24 C 1.54105 * 104.18504 * 139.11902 * 23 21 20
25 25 O 1.43746 * 107.42259 * 1.95340 * 24 23 21
26 26 C 1.44586 * 106.86832 * 333.67423 * 25 24 23
27 27 C 1.34951 * 107.92273 * 0.26046 * 20 19 18
28 28 H 0.96999 * 119.99712 * 0.02562 * 1 2 3
29 29 H 1.08993 * 109.47108 * 60.00337 * 9 7 2
30 30 H 1.08995 * 109.47422 * 299.99764 * 9 7 2
31 31 H 1.09003 * 109.46912 * 59.99989 * 10 9 7
32 32 H 1.08995 * 109.46700 * 300.00094 * 10 9 7
33 33 H 0.96997 * 120.00474 * 359.97438 * 13 11 10
34 34 H 1.07999 * 125.90232 * 359.97438 * 18 17 14
35 35 H 1.08996 * 110.48875 * 20.44171 * 23 21 20
36 36 H 1.09003 * 110.60294 * 257.84663 * 23 21 20
37 37 H 1.09002 * 109.88076 * 121.45430 * 24 23 21
38 38 H 1.08996 * 109.87584 * 242.45546 * 24 23 21
39 39 H 1.08999 * 110.50225 * 281.37988 * 26 25 24
40 40 H 1.08994 * 110.77338 * 158.50734 * 26 25 24
41 41 H 1.07993 * 126.12897 * 179.73512 * 27 20 19
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 2.2492 1.6177 0.0000
4 1 2.4967 2.0464 -1.4001
5 1 1.4467 2.6527 0.6999
6 1 3.5467 1.4401 0.7001
7 6 2.0045 -1.1941 -0.0005
8 1 3.0845 -1.1941 -0.0010
9 6 1.2509 -2.4991 -0.0005
10 6 2.2452 -3.6621 -0.0005
11 6 1.4916 -4.9672 0.0001
12 8 0.2789 -4.9672 0.0010
13 7 2.1655 -6.1344 0.0007
14 16 1.3374 -7.5685 0.0008
15 8 0.3548 -7.4645 1.0220
16 8 2.3170 -8.5973 -0.0332
17 6 0.4613 -7.6650 -1.5249
18 6 0.9402 -8.2223 -2.7150
19 7 0.0064 -8.1085 -3.6244
20 7 -1.0977 -7.4737 -3.0409
21 6 -2.3602 -7.1517 -3.7107
22 1 -2.2025 -6.9909 -4.7772
23 6 -3.4125 -8.2611 -3.4690
24 6 -4.7250 -7.4904 -3.2274
25 8 -4.4348 -6.0900 -3.3722
26 6 -3.0339 -5.9173 -3.0589
27 6 -0.7911 -7.2065 -1.7542
28 1 -0.4850 0.8401 -0.0004
29 1 0.6240 -2.5566 -0.8903
30 1 0.6247 -2.5571 0.8896
31 1 2.8718 -3.6044 0.8895
32 1 2.8718 -3.6043 -0.8905
33 1 3.1355 -6.1344 0.0004
34 1 1.9130 -8.6686 -2.8588
35 1 -3.1497 -8.8515 -2.5913
36 1 -3.5024 -8.9021 -4.3460
37 1 -5.4723 -7.7919 -3.9614
38 1 -5.0924 -7.6906 -2.2210
39 1 -2.8807 -5.9216 -1.9798
40 1 -2.6508 -4.9953 -3.4962
41 1 -1.4315 -6.7173 -1.0353
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)
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
ZINC001325012354.mol2 41
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Sat Apr 11 2020 06:48:40
Heat of formation + Delta-G solvation = -109.099022 kcal
Electronic energy + Delta-G solvation = -28113.277066 eV
Core-core repulsion = 23928.100117 eV
Total energy + Delta-G solvation = -4185.176949 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 343.108 amu
Computer time = 0.93 seconds
Orbital eigenvalues (eV)
-42.69890 -41.05126 -40.35662 -38.34805 -37.08247 -35.57831 -35.47435 -35.03727
-32.92882 -31.92174 -31.47628 -29.63275 -27.91451 -25.06838 -24.34910 -23.47983
-22.94243 -21.87292 -21.54407 -20.71346 -19.60923 -19.05624 -18.59665 -17.80034
-17.75370 -17.52696 -16.61264 -16.46453 -16.42401 -16.23944 -16.12313 -16.00230
-15.38263 -15.33838 -14.62188 -14.36232 -14.31275 -14.24777 -13.76446 -13.63546
-13.37096 -13.25746 -13.20884 -13.12524 -12.92619 -12.81593 -12.70800 -12.46791
-12.11632 -12.00870 -11.89545 -11.74377 -11.66878 -11.31481 -11.05865 -10.95598
-10.80895 -10.52179 -10.44665 -8.15202 -6.27338 -0.83275 0.30959 0.99446
1.09848 1.17763 1.45651 1.46685 1.57423 1.84423 2.45040 2.60910
2.64179 3.00202 3.14518 3.19322 3.23899 3.49118 3.58856 3.65381
3.76784 3.84932 3.96949 4.11081 4.20094 4.34289 4.41897 4.47917
4.50891 4.58465 4.62804 4.70456 4.81729 5.08819 5.20030 5.43964
5.55173 5.61792 5.68178 5.80061 5.89127 6.19904 6.20220 6.60162
6.92509 7.42693 8.96861
Molecular weight = 343.11amu
Principal moments of inertia in cm(-1)
A = 0.009563 B = 0.003601 C = 0.002817
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2927.109478 B = 7773.620791 C = 9935.752905
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.935 5.935
2 C -0.003 4.003
3 Si 0.966 3.034
4 H -0.274 1.274
5 H -0.290 1.290
6 H -0.256 1.256
7 C -0.540 4.540
8 H 0.077 0.923
9 C 0.036 3.964
10 C -0.124 4.124
11 C 0.540 3.460
12 O -0.528 6.528
13 N -1.038 6.038
14 S 2.733 3.267
15 O -0.974 6.974
16 O -0.955 6.955
17 C -0.821 4.821
18 C 0.136 3.864
19 N -0.304 5.304
20 N -0.350 5.350
21 C 0.117 3.883
22 H 0.136 0.864
23 C -0.158 4.158
24 C 0.042 3.958
25 O -0.380 6.380
26 C 0.036 3.964
27 C 0.189 3.811
28 H 0.261 0.739
29 H -0.008 1.008
30 H -0.010 1.010
31 H 0.118 0.882
32 H 0.121 0.879
33 H 0.452 0.548
34 H 0.232 0.768
35 H 0.082 0.918
36 H 0.113 0.887
37 H 0.115 0.885
38 H 0.072 0.928
39 H 0.070 0.930
40 H 0.109 0.891
41 H 0.193 0.807
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 0.028 -18.977 -7.679 20.472
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 -0.575 5.575
2 C -0.201 4.201
3 Si 0.791 3.209
4 H -0.200 1.200
5 H -0.216 1.216
6 H -0.180 1.180
7 C -0.578 4.578
8 H 0.095 0.905
9 C -0.002 4.002
10 C -0.166 4.166
11 C 0.329 3.671
12 O -0.401 6.401
13 N -0.806 5.806
14 S 2.824 3.176
15 O -0.964 6.964
16 O -0.945 6.945
17 C -0.922 4.922
18 C -0.054 4.054
19 N -0.122 5.122
20 N -0.127 5.127
21 C 0.015 3.985
22 H 0.154 0.846
23 C -0.197 4.197
24 C -0.035 4.035
25 O -0.298 6.298
26 C -0.042 4.042
27 C 0.035 3.965
28 H 0.070 0.930
29 H 0.010 0.990
30 H 0.008 0.992
31 H 0.136 0.864
32 H 0.139 0.861
33 H 0.293 0.707
34 H 0.248 0.752
35 H 0.101 0.899
36 H 0.132 0.868
37 H 0.133 0.867
38 H 0.091 0.909
39 H 0.089 0.911
40 H 0.127 0.873
41 H 0.210 0.790
Dipole moment (debyes) X Y Z Total
from point charges -1.658 -19.514 -8.424 21.319
hybrid contribution 0.519 1.275 0.408 1.436
sum -1.139 -18.239 -8.017 19.955
Atomic orbital electron populations
1.70147 1.08091 1.27634 1.51627 1.26014 0.95623 1.03556 0.94874
0.85436 0.78803 0.78354 0.78354 1.19952 1.21579 1.17998 1.21713
0.94106 0.91573 1.50447 0.90492 1.18782 0.93842 0.92080 0.95514
1.21866 0.99694 0.88638 1.06364 1.21362 0.87876 0.86652 0.71203
1.90774 1.15280 1.87534 1.46491 1.54791 1.22819 1.22161 1.80823
1.00638 0.72611 0.71648 0.72721 1.93581 1.61609 1.85773 1.55480
1.93590 1.60153 1.53324 1.87434 1.31210 1.09716 1.28158 1.23147
1.24123 0.99774 0.94227 0.87248 1.77390 0.94646 1.18003 1.22153
1.49221 1.13049 1.43019 1.07450 1.23262 0.79207 0.96367 0.99665
0.84582 1.23382 0.93309 0.97747 1.05218 1.23413 0.96993 0.79497
1.03575 1.89025 1.24153 1.26183 1.90450 1.23955 0.81746 0.97949
1.00554 1.22683 0.95158 0.91162 0.87496 0.93002 0.98969 0.99203
0.86378 0.86070 0.70718 0.75187 0.89940 0.86830 0.86657 0.90927
0.91139 0.87261 0.78974
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -0.93 -56.57 13.29 21.45 0.28 -56.28 16
2 C 0.00 -0.16 5.46 84.65 0.46 0.30 16
3 Si 0.97 42.52 29.54 68.60 2.03 44.54 16
4 H -0.27 -11.68 7.11 99.48 0.71 -10.97 16
5 H -0.29 -12.82 7.11 99.48 0.71 -12.12 16
6 H -0.26 -10.47 7.11 99.48 0.71 -9.77 16
7 C -0.54 -28.59 9.11 25.60 0.23 -28.36 16
8 H 0.08 3.68 7.74 -2.91 -0.02 3.66 16
9 C 0.04 1.79 4.26 29.85 0.13 1.92 16
10 C -0.12 -4.21 5.64 29.85 0.17 -4.04 16
11 C 0.54 17.44 7.66 87.66 0.67 18.11 16
12 O -0.53 -21.15 13.94 13.31 0.19 -20.97 16
13 N -1.04 -23.73 5.70 -173.54 -0.99 -24.72 16
14 S 2.73 70.72 5.53 -56.49 -0.31 70.41 16
15 O -0.97 -33.20 16.80 -120.89 -2.03 -35.23 16
16 O -0.95 -24.53 17.87 -128.00 -2.29 -26.82 16
17 C -0.82 -20.73 5.86 21.99 0.13 -20.61 16
18 C 0.14 2.99 11.82 85.24 1.01 3.99 16
19 N -0.30 -7.42 12.58 -57.03 -0.72 -8.13 16
20 N -0.35 -8.31 3.61 -321.35 -1.16 -9.47 16
21 C 0.12 2.20 4.28 46.29 0.20 2.40 16
22 H 0.14 2.28 8.14 -2.39 -0.02 2.26 16
23 C -0.16 -2.23 6.76 31.58 0.21 -2.02 16
24 C 0.04 0.60 7.69 72.36 0.56 1.16 16
25 O -0.38 -8.29 11.54 -148.98 -1.72 -10.01 16
26 C 0.04 0.78 7.06 72.66 0.51 1.29 16
27 C 0.19 5.01 9.53 83.54 0.80 5.80 16
28 H 0.26 14.95 8.31 -92.71 -0.77 14.18 16
29 H -0.01 -0.46 8.10 -2.39 -0.02 -0.47 16
30 H -0.01 -0.60 8.10 -2.39 -0.02 -0.62 16
31 H 0.12 3.42 8.14 -2.39 -0.02 3.40 16
32 H 0.12 3.40 8.14 -2.39 -0.02 3.38 16
33 H 0.45 6.15 8.83 -96.75 -0.85 5.29 16
34 H 0.23 3.25 8.06 -2.91 -0.02 3.22 16
35 H 0.08 1.25 8.05 -2.39 -0.02 1.24 16
36 H 0.11 1.16 8.14 -2.39 -0.02 1.14 16
37 H 0.12 1.14 8.14 -2.39 -0.02 1.12 16
38 H 0.07 0.98 8.14 -2.39 -0.02 0.97 16
39 H 0.07 1.64 6.26 -2.39 -0.01 1.62 16
40 H 0.11 2.44 8.14 -2.39 -0.02 2.42 16
41 H 0.19 5.16 6.60 -2.91 -0.02 5.14 16
Total: -1.00 -80.21 363.88 -1.42 -81.63
By element:
Atomic # 1 Polarization: 14.88 SS G_CDS: 0.22 Total: 15.10 kcal
Atomic # 6 Polarization: -25.13 SS G_CDS: 5.08 Total: -20.05 kcal
Atomic # 7 Polarization: -96.03 SS G_CDS: -2.58 Total: -98.61 kcal
Atomic # 8 Polarization: -87.18 SS G_CDS: -5.85 Total: -93.03 kcal
Atomic # 14 Polarization: 42.52 SS G_CDS: 2.03 Total: 44.54 kcal
Atomic # 16 Polarization: 70.72 SS G_CDS: -0.31 Total: 70.41 kcal
Total: -80.21 -1.42 -81.63 kcal
The number of atoms in the molecule is 41
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.
ZINC001325012354.mol2 41
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 -27.471 kcal
(2) G-P(sol) polarization free energy of solvation -80.208 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -107.679 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.420 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -81.628 kcal
(6) G-S(sol) free energy of system = (1) + (5) -109.099 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.93 seconds