Wall clock time and date at job start Sat Apr 11 2020 06:31:12
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
* 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 1.30823 * 1
3 3 Si 1.86799 * 119.99638 * 2 1
4 4 H 1.48495 * 109.47142 * 269.99293 * 3 2 1
5 5 H 1.48492 * 109.47579 * 29.99724 * 3 2 1
6 6 H 1.48506 * 109.46671 * 149.99893 * 3 2 1
7 7 C 1.39945 * 120.00149 * 179.97438 * 2 1 3
8 8 H 1.07999 * 120.00142 * 169.72429 * 7 2 1
9 9 C 1.41401 * 119.99895 * 349.72153 * 7 2 1
10 10 C 1.40731 * 120.24728 * 330.77907 * 9 7 2
11 11 C 1.37592 * 119.74636 * 180.31771 * 10 9 7
12 12 C 1.38659 * 120.25053 * 359.66133 * 11 10 9
13 13 C 1.38611 * 120.49886 * 0.02562 * 12 11 10
14 14 C 1.37640 * 120.24790 * 0.02562 * 13 12 11
15 15 C 1.50706 * 120.12876 * 179.97438 * 14 13 12
16 16 C 1.50699 * 109.46726 * 265.00110 * 15 14 13
17 17 O 1.21281 * 120.00436 * 359.97438 * 16 15 14
18 18 N 1.34774 * 119.99713 * 179.97438 * 16 15 14
19 19 N 1.40104 * 119.99860 * 180.02562 * 18 16 15
20 20 C 1.39013 * 119.99739 * 180.02562 * 19 18 16
21 21 N 1.32426 * 119.70668 * 4.30920 * 20 19 18
22 22 C 1.31946 * 121.61929 * 180.29317 * 21 20 19
23 23 C 1.38058 * 120.85565 * 359.72558 * 22 21 20
24 24 C 1.38841 * 119.32822 * 0.02562 * 23 22 21
25 25 C 1.38335 * 118.50526 * 359.97438 * 24 23 22
26 26 N 1.48025 * 120.44894 * 179.97438 * 25 24 23
27 27 O 1.21804 * 120.00278 * 142.64121 * 26 25 24
28 28 O 1.21805 * 119.99923 * 322.36240 * 26 25 24
29 29 H 0.96998 * 120.00200 * 0.02562 * 1 2 3
30 30 H 1.08007 * 120.12553 * 0.02562 * 10 9 7
31 31 H 1.07999 * 119.88072 * 179.67742 * 11 10 9
32 32 H 1.07996 * 119.75001 * 180.02562 * 12 11 10
33 33 H 1.08000 * 119.87988 * 180.02562 * 13 12 11
34 34 H 1.09002 * 109.47194 * 145.00015 * 15 14 13
35 35 H 1.08993 * 109.46701 * 25.00023 * 15 14 13
36 36 H 0.97006 * 120.00320 * 359.97438 * 18 16 15
37 37 H 0.96998 * 120.00178 * 359.97438 * 19 18 16
38 38 H 1.08001 * 119.56726 * 179.75020 * 22 21 20
39 39 H 1.08005 * 120.33638 * 180.02562 * 23 22 21
40 40 H 1.08003 * 120.74479 * 179.97438 * 24 23 22
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 1.3082 0.0000 0.0000
3 14 2.2421 1.6178 0.0000
4 1 2.4897 2.0464 -1.4000
5 1 1.4396 2.6527 0.6999
6 1 3.5397 1.4402 0.7001
7 6 2.0080 -1.2119 0.0005
8 1 3.0750 -1.2195 -0.1663
9 6 1.3180 -2.4266 0.2196
10 6 0.1523 -2.4475 1.0078
11 6 -0.5073 -3.6363 1.2196
12 6 -0.0315 -4.8096 0.6541
13 6 1.1120 -4.7997 -0.1293
14 6 1.7885 -3.6222 -0.3537
15 6 3.0318 -3.6147 -1.2054
16 6 4.2471 -3.7245 -0.3211
17 8 4.1166 -3.8008 0.8823
18 7 5.4790 -3.7378 -0.8674
19 7 6.6089 -3.8404 -0.0453
20 6 7.8796 -3.8536 -0.6088
21 7 8.0202 -3.6830 -1.9145
22 6 9.2077 -3.6945 -2.4897
23 6 10.3541 -3.8807 -1.7434
24 6 10.2505 -4.0582 -0.3703
25 6 8.9922 -4.0414 0.2044
26 7 8.8318 -4.2269 1.6642
27 8 7.9822 -3.5971 2.2685
28 8 9.5460 -5.0132 2.2603
29 1 -0.4850 0.8400 -0.0004
30 1 -0.2205 -1.5347 1.4486
31 1 -1.3991 -3.6558 1.8284
32 1 -0.5558 -5.7381 0.8253
33 1 1.4735 -5.7193 -0.5652
34 1 3.0780 -2.6850 -1.7727
35 1 3.0058 -4.4594 -1.8937
36 1 5.5835 -3.6771 -1.8299
37 1 6.5044 -3.9015 0.9171
38 1 9.2836 -3.5560 -3.5581
39 1 11.3219 -3.8881 -2.2229
40 1 11.1323 -4.2061 0.2355
RHF calculation, no. of doubly occupied orbitals= 62
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC000777524180.mol2 40
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 06:31:12
Heat of formation + Delta-G solvation = 61.458443 kcal
Electronic energy + Delta-G solvation = -28664.168389 eV
Core-core repulsion = 24448.662077 eV
Total energy + Delta-G solvation = -4215.506312 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 342.116 amu
Computer time = 0.88 seconds
Orbital eigenvalues (eV)
-42.47017 -40.75511 -39.51340 -37.57437 -36.80714 -36.02590 -33.63161 -33.48304
-32.80006 -31.76235 -29.64951 -29.41810 -27.00104 -26.67983 -25.05350 -23.67999
-23.35352 -21.27380 -20.95133 -19.90586 -19.44632 -18.91991 -18.68499 -18.17690
-17.21394 -17.18076 -16.44740 -15.99390 -15.57871 -15.35629 -15.29962 -14.67314
-14.53429 -14.12559 -13.77922 -13.46566 -13.43218 -13.41302 -12.61595 -12.21886
-11.83435 -11.79631 -11.60000 -11.48235 -11.29501 -11.25948 -11.10214 -11.03039
-10.86866 -10.73934 -10.41495 -10.39663 -9.93748 -9.63328 -9.54395 -9.41599
-9.22667 -7.94830 -7.37570 -7.29770 -6.72195 -4.40408 -0.30497 0.62096
0.84869 1.16105 1.62727 2.77298 2.90079 2.96189 3.06339 3.10256
3.11870 3.23369 3.34595 3.78965 3.93214 4.12654 4.22524 4.50624
4.65047 4.76826 5.08119 5.21267 5.30668 5.66043 5.67497 5.85772
5.92726 6.14136 6.22089 6.28855 6.34822 6.46658 6.73844 6.84005
7.06656 7.25132 7.30941 7.37760 7.41112 7.56486 7.63568 7.86463
8.02914 8.08539 8.27171 8.52356 8.62026 8.88260 8.96631 10.21243
Molecular weight = 342.12amu
Principal moments of inertia in cm(-1)
A = 0.011927 B = 0.003129 C = 0.002866
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2347.080721 B = 8947.741687 C = 9768.525302
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.800 5.800
2 C 0.076 3.924
3 Si 0.904 3.096
4 H -0.270 1.270
5 H -0.275 1.275
6 H -0.262 1.262
7 C -0.458 4.458
8 H 0.073 0.927
9 C 0.131 3.869
10 C -0.152 4.152
11 C -0.107 4.107
12 C -0.235 4.235
13 C -0.080 4.080
14 C -0.186 4.186
15 C -0.054 4.054
16 C 0.513 3.487
17 O -0.508 6.508
18 N -0.533 5.533
19 N -0.485 5.485
20 C 0.462 3.538
21 N -0.534 5.534
22 C 0.209 3.791
23 C -0.241 4.241
24 C 0.037 3.963
25 C -0.168 4.168
26 N 0.039 4.961
27 O -0.176 6.176
28 O -0.143 6.143
29 H 0.280 0.720
30 H 0.120 0.880
31 H 0.088 0.912
32 H 0.087 0.913
33 H 0.086 0.914
34 H 0.105 0.895
35 H 0.084 0.916
36 H 0.430 0.570
37 H 0.451 0.549
38 H 0.179 0.821
39 H 0.156 0.844
40 H 0.159 0.841
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 18.443 -5.132 -8.319 20.874
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 -0.426 5.426
2 C -0.141 4.141
3 Si 0.729 3.271
4 H -0.195 1.195
5 H -0.200 1.200
6 H -0.186 1.186
7 C -0.488 4.488
8 H 0.091 0.909
9 C 0.128 3.872
10 C -0.171 4.171
11 C -0.125 4.125
12 C -0.254 4.254
13 C -0.099 4.099
14 C -0.188 4.188
15 C -0.095 4.095
16 C 0.301 3.699
17 O -0.378 6.378
18 N -0.285 5.285
19 N -0.210 5.210
20 C 0.218 3.782
21 N -0.254 5.254
22 C 0.047 3.953
23 C -0.265 4.265
24 C 0.011 3.989
25 C -0.262 4.262
26 N 0.556 4.444
27 O -0.383 6.383
28 O -0.364 6.364
29 H 0.091 0.909
30 H 0.138 0.862
31 H 0.106 0.894
32 H 0.105 0.895
33 H 0.104 0.896
34 H 0.123 0.877
35 H 0.103 0.897
36 H 0.272 0.728
37 H 0.302 0.698
38 H 0.196 0.804
39 H 0.173 0.827
40 H 0.176 0.824
Dipole moment (debyes) X Y Z Total
from point charges 17.092 -4.741 -8.582 19.704
hybrid contribution 1.168 0.672 0.793 1.563
sum 18.260 -4.070 -7.789 20.265
Atomic orbital electron populations
1.69781 1.07345 1.29016 1.36428 1.25853 0.94784 1.01064 0.92375
0.86366 0.80673 0.80932 0.79122 1.19513 1.20034 1.18634 1.19463
0.95388 0.90420 1.43511 0.90917 1.17349 0.91110 0.91239 0.87490
1.21368 0.98219 0.96539 1.00994 1.20725 0.98572 0.93598 0.99634
1.20340 1.00613 0.96718 1.07763 1.20313 0.95711 0.95365 0.98463
1.19008 0.98134 0.94846 1.06792 1.20212 0.88781 1.03841 0.96702
1.22063 0.81848 0.75199 0.90806 1.90755 1.85141 1.46847 1.15085
1.45677 0.96752 1.78672 1.07383 1.44161 0.95625 1.72839 1.08356
1.17776 0.83137 0.88225 0.89045 1.67542 1.28226 1.22776 1.06817
1.22967 0.85953 0.85451 1.00920 1.21862 1.01382 1.10648 0.92613
1.21186 0.94620 0.87335 0.95774 1.21152 0.96455 1.27910 0.80691
1.43408 0.99641 0.98608 1.02773 1.94568 1.29180 1.46436 1.68075
1.94528 1.42596 1.30188 1.69093 0.90949 0.86197 0.89411 0.89501
0.89618 0.87675 0.89740 0.72804 0.69818 0.80412 0.82672 0.82382
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 -0.80 -20.47 10.85 55.55 0.60 -19.86 16
2 C 0.08 1.90 5.26 -17.34 -0.09 1.81 16
3 Si 0.90 18.92 29.57 -169.99 -5.03 13.89 16
4 H -0.27 -5.46 7.11 56.52 0.40 -5.06 16
5 H -0.28 -5.65 7.11 56.52 0.40 -5.25 16
6 H -0.26 -5.62 7.11 56.52 0.40 -5.22 16
7 C -0.46 -11.90 8.07 -37.74 -0.30 -12.20 16
8 H 0.07 1.85 6.77 -52.49 -0.36 1.49 16
9 C 0.13 3.43 5.55 -106.82 -0.59 2.84 16
10 C -0.15 -4.01 8.66 -38.88 -0.34 -4.35 16
11 C -0.11 -2.57 10.02 -39.66 -0.40 -2.97 16
12 C -0.24 -5.37 10.05 -39.29 -0.39 -5.77 16
13 C -0.08 -1.80 9.66 -39.66 -0.38 -2.18 16
14 C -0.19 -4.33 4.43 -103.91 -0.46 -4.79 16
15 C -0.05 -1.00 5.19 -29.03 -0.15 -1.15 16
16 C 0.51 9.81 7.54 -10.99 -0.08 9.73 16
17 O -0.51 -12.03 15.87 5.56 0.09 -11.94 16
18 N -0.53 -8.20 6.29 31.22 0.20 -8.00 16
19 N -0.48 -7.54 6.32 31.13 0.20 -7.34 16
20 C 0.46 5.92 7.56 -155.00 -1.17 4.75 16
21 N -0.53 -5.54 9.38 -12.44 -0.12 -5.66 16
22 C 0.21 1.32 11.17 -17.57 -0.20 1.12 16
23 C -0.24 -1.27 10.10 -39.42 -0.40 -1.67 16
24 C 0.04 0.29 9.80 -39.32 -0.39 -0.09 16
25 C -0.17 -2.00 6.53 -79.59 -0.52 -2.52 16
26 N 0.04 0.56 4.33 34.14 0.15 0.71 16
27 O -0.18 -2.94 16.66 -29.46 -0.49 -3.43 16
28 O -0.14 -2.03 19.00 -29.46 -0.56 -2.59 16
29 H 0.28 6.55 8.30 -40.82 -0.34 6.21 16
30 H 0.12 3.27 6.24 -52.48 -0.33 2.94 16
31 H 0.09 1.89 8.06 -52.49 -0.42 1.47 16
32 H 0.09 1.76 8.06 -52.49 -0.42 1.33 16
33 H 0.09 1.67 8.06 -52.49 -0.42 1.25 16
34 H 0.11 1.88 7.14 -51.93 -0.37 1.51 16
35 H 0.08 1.25 8.05 -51.93 -0.42 0.83 16
36 H 0.43 5.34 7.96 -182.59 -1.45 3.88 16
37 H 0.45 7.85 5.36 -182.60 -0.98 6.87 16
38 H 0.18 0.42 8.06 -52.49 -0.42 0.00 16
39 H 0.16 0.28 8.06 -52.48 -0.42 -0.14 16
40 H 0.16 0.87 8.05 -52.48 -0.42 0.45 16
LS Contribution 357.34 15.07 5.38 5.38
Total: -1.00 -32.71 357.34 -11.02 -43.73
By element:
Atomic # 1 Polarization: 18.14 SS G_CDS: -5.57 Total: 12.57 kcal
Atomic # 6 Polarization: -11.59 SS G_CDS: -5.87 Total: -17.46 kcal
Atomic # 7 Polarization: -41.18 SS G_CDS: 1.03 Total: -40.16 kcal
Atomic # 8 Polarization: -17.00 SS G_CDS: -0.96 Total: -17.96 kcal
Atomic # 14 Polarization: 18.92 SS G_CDS: -5.03 Total: 13.89 kcal
Total LS contribution 5.38 Total: 5.38 kcal
Total: -32.71 -11.02 -43.73 kcal
The number of atoms in the molecule is 40
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.
ZINC000777524180.mol2 40
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 105.191 kcal
(2) G-P(sol) polarization free energy of solvation -32.714 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 72.476 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -11.018 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -43.732 kcal
(6) G-S(sol) free energy of system = (1) + (5) 61.458 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.88 seconds