Wall clock time and date at job start Tue Mar 31 2020 21:27:47
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 1.31622 * 1
3 3 Si 1.86795 * 120.00198 * 2 1
4 4 H 1.48498 * 109.47445 * 270.00066 * 3 2 1
5 5 H 1.48501 * 109.47147 * 30.00232 * 3 2 1
6 6 H 1.48505 * 109.47313 * 149.99961 * 3 2 1
7 7 C 1.38804 * 119.99862 * 180.02562 * 2 1 3
8 8 H 1.08002 * 120.00025 * 0.02562 * 7 2 1
9 9 S 1.76203 * 119.99880 * 180.02562 * 7 2 1
10 10 C 1.81003 * 99.99924 * 179.97438 * 9 7 2
11 11 C 1.50701 * 109.47180 * 179.97438 * 10 9 7
12 12 O 1.21282 * 119.99415 * 0.02562 * 11 10 9
13 13 N 1.34776 * 119.99966 * 179.97438 * 11 10 9
14 14 C 1.47578 * 134.49005 * 179.97438 * 13 11 10
15 15 C 1.53949 * 86.11491 * 155.36554 * 14 13 11
16 16 O 1.42900 * 113.74301 * 269.15741 * 15 14 13
17 17 C 1.52992 * 113.74237 * 137.95355 * 15 14 13
18 18 N 1.46499 * 109.47267 * 185.00160 * 17 15 14
19 19 C 1.34784 * 119.99971 * 180.02562 * 18 17 15
20 20 O 1.21614 * 119.99576 * 359.72702 * 19 18 17
21 21 C 1.43203 * 119.99825 * 179.97438 * 19 18 17
22 22 C 9.18946 * 133.55095 * 168.35210 * 10 1 2
23 23 C 8.93261 * 116.25023 * 166.04156 * 13 1 2
24 24 C 1.52996 * 117.50161 * 56.83660 * 23 22 21
25 25 C 1.53003 * 117.49999 * 348.21027 * 23 22 21
26 26 C 1.47571 * 134.49349 * 0.02562 * 13 11 10
27 27 H 0.97006 * 120.00278 * 359.97438 * 1 2 3
28 28 H 1.09004 * 109.46792 * 59.99714 * 10 9 7
29 29 H 1.08997 * 109.47108 * 300.00066 * 10 9 7
30 30 H 1.09002 * 113.76818 * 41.06708 * 14 13 11
31 31 H 1.08997 * 113.87314 * 269.68078 * 14 13 11
32 32 H 0.96698 * 113.99896 * 178.07312 * 16 15 14
33 33 H 1.09004 * 109.47330 * 65.00064 * 17 15 14
34 34 H 1.09005 * 109.47124 * 305.00268 * 17 15 14
35 35 H 0.96999 * 119.99984 * 359.97438 * 18 17 15
36 36 H 1.08999 * 115.54843 * 202.54678 * 23 22 21
37 37 H 1.09006 * 117.49705 * 359.97438 * 24 23 22
38 38 H 1.08995 * 117.50278 * 145.02123 * 24 23 22
39 39 H 1.08998 * 117.49571 * 214.98161 * 25 23 22
40 40 H 1.08999 * 117.49851 * 0.02562 * 25 23 22
41 41 H 1.09000 * 113.77247 * 90.33115 * 26 13 11
42 42 H 1.09000 * 113.77279 * 318.93898 * 26 13 11
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 1.6177 0.0000
4 1 2.4978 2.0464 -1.4000
5 1 1.4478 2.6526 0.7001
6 1 3.5478 1.4401 0.7001
7 6 2.0102 -1.2021 -0.0005
8 1 1.4702 -2.1374 -0.0014
9 16 3.7722 -1.2021 0.0001
10 6 4.0865 -2.9846 -0.0001
11 6 5.5730 -3.2327 -0.0002
12 8 6.3439 -2.2964 0.0003
13 7 6.0456 -4.4948 0.0001
14 6 7.3942 -5.0942 -0.0004
15 6 6.7321 -6.3274 0.6407
16 8 6.7238 -6.2984 2.0694
17 6 7.2302 -7.6584 0.0741
18 7 6.4590 -8.7577 0.6598
19 6 6.7249 -10.0308 0.3061
20 8 7.6016 -10.2665 -0.5031
21 6 5.9715 -11.1054 0.8791
22 6 5.3523 -11.9867 1.3441
23 6 4.5772 -13.0914 1.9327
24 6 3.3368 -13.5669 1.1738
25 6 3.1814 -12.7677 2.4693
26 6 5.4224 -5.8325 0.0001
27 1 -0.4851 0.8401 0.0004
28 1 3.6438 -3.4314 -0.8904
29 1 3.6432 -3.4319 0.8896
30 1 8.1014 -4.5851 0.6543
31 1 7.7945 -5.2789 -0.9972
32 1 6.2828 -7.0571 2.4756
33 1 8.2852 -7.7848 0.3171
34 1 7.1037 -7.6624 -1.0086
35 1 5.7576 -8.5694 1.3028
36 1 5.1599 -13.8423 2.4662
37 1 3.0942 -13.0616 0.2389
38 1 3.1031 -14.6310 1.2078
39 1 2.8457 -13.3061 3.3556
40 1 2.8368 -11.7370 2.3862
41 1 5.2424 -6.2334 -0.9974
42 1 4.5549 -5.9131 0.6551
RHF calculation, no. of doubly occupied orbitals= 60
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001042958304.mol2 42
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 21:27:47
Heat of formation + Delta-G solvation = 4.767966 kcal
Electronic energy + Delta-G solvation = -24986.450811 eV
Core-core repulsion = 21062.093467 eV
Total energy + Delta-G solvation = -3924.357344 eV
No. of doubly occupied orbitals = 60
Molecular weight
(most abundant/longest-lived isotopes) = 338.113 amu
Computer time = 1.29 seconds
Orbital eigenvalues (eV)
-41.06807 -39.89226 -38.23116 -38.13394 -35.72502 -34.85524 -33.28203 -32.46424
-30.87105 -29.11628 -26.74679 -26.48860 -25.60988 -24.68943 -23.06476 -22.33239
-21.20888 -19.80002 -19.31810 -17.75668 -17.49735 -17.07407 -16.95000 -16.41566
-16.07041 -15.82155 -15.54242 -15.44527 -14.97611 -14.66528 -14.52785 -14.08642
-13.79094 -13.59573 -13.23272 -13.20422 -12.88705 -12.77519 -12.62694 -12.31572
-12.19807 -12.05540 -11.89405 -11.43053 -11.26958 -11.02451 -10.92392 -10.70726
-10.64610 -10.63027 -10.30737 -9.87466 -9.78881 -9.52360 -9.02645 -8.78057
-8.52873 -6.94857 -6.31251 -4.03307 1.00143 1.61176 2.37650 2.49296
2.88530 2.92592 3.03975 3.31649 3.32313 3.35404 3.48923 3.49473
3.54674 3.77079 4.09922 4.11739 4.27862 4.29842 4.33814 4.40525
4.65629 4.82029 4.97594 4.98608 5.03562 5.07522 5.08402 5.12626
5.16426 5.22330 5.35724 5.41328 5.42642 5.43440 5.62131 5.73346
5.81858 5.97006 6.66607 6.72189 7.02562 7.51364 7.62152 7.91702
8.36563 8.38671 9.14857 10.77887
Molecular weight = 338.11amu
Principal moments of inertia in cm(-1)
A = 0.013616 B = 0.002021 C = 0.001805
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2055.971362 B =13850.197735 C =15510.027668
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.880 5.880
2 C 0.096 3.904
3 Si 0.857 3.143
4 H -0.267 1.267
5 H -0.274 1.274
6 H -0.235 1.235
7 C -0.521 4.521
8 H 0.088 0.912
9 S -0.141 6.141
10 C -0.115 4.115
11 C 0.558 3.442
12 O -0.514 6.514
13 N -0.642 5.642
14 C 0.128 3.872
15 C 0.083 3.917
16 O -0.521 6.521
17 C 0.103 3.897
18 N -0.720 5.720
19 C 0.641 3.359
20 O -0.516 6.516
21 C -0.226 4.226
22 C -0.040 4.040
23 C -0.072 4.072
24 C -0.159 4.159
25 C -0.158 4.158
26 C 0.077 3.923
27 H 0.271 0.729
28 H 0.095 0.905
29 H 0.096 0.904
30 H 0.095 0.905
31 H 0.102 0.898
32 H 0.377 0.623
33 H 0.090 0.910
34 H 0.092 0.908
35 H 0.403 0.597
36 H 0.137 0.863
37 H 0.102 0.898
38 H 0.109 0.891
39 H 0.110 0.890
40 H 0.103 0.897
41 H 0.097 0.903
42 H 0.091 0.909
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 9.740 -28.514 4.269 30.433
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 -0.516 5.516
2 C -0.113 4.113
3 Si 0.682 3.318
4 H -0.192 1.192
5 H -0.199 1.199
6 H -0.159 1.159
7 C -0.669 4.669
8 H 0.106 0.894
9 S 0.086 5.914
10 C -0.266 4.266
11 C 0.348 3.652
12 O -0.388 6.388
13 N -0.381 5.381
14 C 0.005 3.995
15 C 0.040 3.960
16 O -0.326 6.326
17 C -0.021 4.021
18 N -0.373 5.373
19 C 0.428 3.572
20 O -0.393 6.393
21 C -0.229 4.229
22 C -0.042 4.042
23 C -0.089 4.089
24 C -0.195 4.195
25 C -0.195 4.195
26 C -0.047 4.047
27 H 0.081 0.919
28 H 0.113 0.887
29 H 0.114 0.886
30 H 0.114 0.886
31 H 0.120 0.880
32 H 0.225 0.775
33 H 0.108 0.892
34 H 0.110 0.890
35 H 0.238 0.762
36 H 0.155 0.845
37 H 0.120 0.880
38 H 0.128 0.872
39 H 0.128 0.872
40 H 0.121 0.879
41 H 0.115 0.885
42 H 0.109 0.891
Dipole moment (debyes) X Y Z Total
from point charges 11.595 -26.338 3.575 28.998
hybrid contribution -1.505 -0.835 0.348 1.756
sum 10.089 -27.172 3.923 29.249
Atomic orbital electron populations
1.69934 1.05900 1.27800 1.48006 1.24710 0.94468 0.98987 0.93144
0.86733 0.81914 0.83234 0.79968 1.19176 1.19885 1.15905 1.22296
0.88166 0.97531 1.58882 0.89409 1.84816 1.09381 0.99818 1.97420
1.23208 0.93419 1.04322 1.05627 1.19962 0.90482 0.80060 0.74713
1.90719 1.58924 1.40756 1.48357 1.49682 1.08286 1.04265 1.75861
1.23077 0.87904 0.88153 1.00388 1.23097 0.96762 0.93519 0.82657
1.86685 1.80754 1.49100 1.16081 1.22026 0.97076 0.83559 0.99425
1.45695 1.39271 1.05414 1.46892 1.14534 0.81573 0.80516 0.80617
1.90896 1.31469 1.83994 1.32897 1.20406 1.00951 0.98154 1.03421
1.21374 0.94231 0.94445 0.94139 1.18982 0.89192 0.95935 1.04812
1.23130 0.98005 1.01566 0.96840 1.23144 0.95582 1.02387 0.98391
1.23947 0.97482 0.81665 1.01577 0.91911 0.88657 0.88581 0.88634
0.88005 0.77509 0.89229 0.88966 0.76223 0.84493 0.87964 0.87218
0.87195 0.87887 0.88516 0.89093
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 12.
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 -0.88 -26.47 13.97 55.49 0.78 -25.69 16
2 C 0.10 2.80 5.50 -17.43 -0.10 2.70 16
3 Si 0.86 21.83 27.74 -169.99 -4.71 17.12 16
4 H -0.27 -6.71 7.11 56.52 0.40 -6.31 16
5 H -0.27 -6.70 7.11 56.52 0.40 -6.30 16
6 H -0.24 -6.00 6.74 56.52 0.38 -5.62 16
7 C -0.52 -15.02 10.04 30.94 0.31 -14.71 16
8 H 0.09 2.63 8.03 -52.49 -0.42 2.21 16
9 S -0.14 -3.61 18.55 -107.50 -1.99 -5.61 16
10 C -0.12 -2.29 5.91 36.01 0.21 -2.07 16
11 C 0.56 10.42 8.08 -10.98 -0.09 10.34 16
12 O -0.51 -11.60 16.59 5.56 0.09 -11.51 16
13 N -0.64 -8.59 3.61 -178.25 -0.64 -9.23 16
14 C 0.13 1.28 8.24 -2.97 -0.02 1.25 16
15 C 0.08 0.61 1.52 -89.68 -0.14 0.47 16
16 O -0.52 -4.29 13.51 -35.23 -0.48 -4.76 16
17 C 0.10 0.63 5.28 -4.05 -0.02 0.60 16
18 N -0.72 -4.16 5.33 -62.76 -0.33 -4.50 16
19 C 0.64 5.84 7.65 -14.33 -0.11 5.73 16
20 O -0.52 -6.65 17.09 5.27 0.09 -6.56 16
21 C -0.23 -1.91 13.61 -38.84 -0.53 -2.44 16
22 C -0.04 -0.28 13.47 -37.12 -0.50 -0.78 16
23 C -0.07 -0.31 6.22 -93.40 -0.58 -0.89 16
24 C -0.16 -0.53 10.21 -26.73 -0.27 -0.80 16
25 C -0.16 -0.49 10.21 -26.73 -0.27 -0.76 16
26 C 0.08 0.66 8.01 -2.96 -0.02 0.64 16
27 H 0.27 7.57 8.31 -40.82 -0.34 7.23 16
28 H 0.10 1.76 8.14 -51.91 -0.42 1.33 16
29 H 0.10 1.79 8.14 -51.92 -0.42 1.37 16
30 H 0.10 1.07 8.14 -51.93 -0.42 0.65 16
31 H 0.10 0.77 8.10 -51.93 -0.42 0.35 16
32 H 0.38 1.54 7.61 45.56 0.35 1.89 16
33 H 0.09 0.59 8.14 -51.93 -0.42 0.16 16
34 H 0.09 0.55 8.04 -51.93 -0.42 0.13 16
35 H 0.40 1.32 7.27 -40.82 -0.30 1.02 16
36 H 0.14 0.37 8.14 -51.93 -0.42 -0.05 16
37 H 0.10 0.40 8.14 -51.93 -0.42 -0.02 16
38 H 0.11 0.20 8.14 -51.93 -0.42 -0.22 16
39 H 0.11 0.18 8.14 -51.93 -0.42 -0.24 16
40 H 0.10 0.35 8.14 -51.93 -0.42 -0.08 16
41 H 0.10 0.66 8.03 -51.93 -0.42 0.24 16
42 H 0.09 0.72 8.14 -51.93 -0.42 0.30 16
LS Contribution 388.07 15.07 5.85 5.85
Total: -1.00 -39.09 388.07 -8.50 -47.59
By element:
Atomic # 1 Polarization: 3.05 SS G_CDS: -5.01 Total: -1.96 kcal
Atomic # 6 Polarization: 1.41 SS G_CDS: -2.13 Total: -0.73 kcal
Atomic # 7 Polarization: -39.22 SS G_CDS: -0.20 Total: -39.42 kcal
Atomic # 8 Polarization: -22.55 SS G_CDS: -0.29 Total: -22.84 kcal
Atomic # 14 Polarization: 21.83 SS G_CDS: -4.71 Total: 17.12 kcal
Atomic # 16 Polarization: -3.61 SS G_CDS: -1.99 Total: -5.61 kcal
Total LS contribution 5.85 Total: 5.85 kcal
Total: -39.09 -8.50 -47.59 kcal
The number of atoms in the molecule is 42
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.
ZINC001042958304.mol2 42
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 52.353 kcal
(2) G-P(sol) polarization free energy of solvation -39.087 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 13.266 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -8.498 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -47.585 kcal
(6) G-S(sol) free energy of system = (1) + (5) 4.768 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.29 seconds