Wall clock time and date at job start Tue Mar 31 2020 04:00:00
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 1.31518 * 1
3 3 Si 1.86798 * 120.00218 * 2 1
4 4 H 1.48497 * 109.47425 * 270.00559 * 3 2 1
5 5 H 1.48499 * 109.46776 * 30.00160 * 3 2 1
6 6 H 1.48499 * 109.46992 * 150.00013 * 3 2 1
7 7 C 1.37882 * 119.99878 * 180.02562 * 2 1 3
8 8 H 1.07996 * 119.99722 * 180.02562 * 7 2 1
9 9 C 1.50696 * 120.00022 * 359.97438 * 7 2 1
10 10 O 1.42906 * 113.41285 * 46.80341 * 9 7 2
11 11 C 1.53495 * 114.20606 * 180.02562 * 9 7 2
12 12 N 1.47068 * 87.98801 * 139.65813 * 11 9 7
13 13 C 1.34775 * 136.06017 * 152.84456 * 12 11 9
14 14 O 1.21278 * 119.99813 * 359.97438 * 13 12 11
15 15 C 1.50699 * 119.99806 * 179.97438 * 13 12 11
16 16 C 1.53000 * 109.46844 * 179.97438 * 15 13 12
17 17 O 1.42903 * 109.46918 * 180.02562 * 16 15 13
18 18 C 1.42900 * 114.00146 * 180.02562 * 17 16 15
19 19 C 1.52997 * 109.47517 * 180.02562 * 18 17 16
20 20 H 1.08999 * 110.33077 * 52.74689 * 19 18 17
21 21 C 1.54477 * 110.37308 * 175.00102 * 19 18 17
22 22 C 1.54507 * 104.06510 * 142.80822 * 21 19 18
23 23 C 1.54483 * 104.06211 * 359.97438 * 22 21 19
24 24 O 1.44428 * 104.89902 * 335.96812 * 23 22 21
25 25 C 1.47069 * 87.88220 * 333.09977 * 12 11 9
26 26 H 0.96994 * 119.99772 * 359.97438 * 1 2 3
27 27 H 0.96701 * 113.99722 * 313.20044 * 10 9 7
28 28 H 1.08996 * 113.46926 * 24.87198 * 11 9 7
29 29 H 1.09002 * 113.46566 * 254.43645 * 11 9 7
30 30 H 1.09001 * 109.47144 * 60.00071 * 15 13 12
31 31 H 1.08994 * 109.47715 * 300.00053 * 15 13 12
32 32 H 1.08992 * 109.47033 * 60.00363 * 16 15 13
33 33 H 1.08997 * 109.47360 * 299.99827 * 16 15 13
34 34 H 1.08999 * 109.47037 * 59.99798 * 18 17 16
35 35 H 1.09008 * 109.47052 * 300.00240 * 18 17 16
36 36 H 1.09000 * 110.51486 * 24.16264 * 21 19 18
37 37 H 1.09006 * 110.51115 * 261.45247 * 21 19 18
38 38 H 1.09005 * 110.51421 * 241.35469 * 22 21 19
39 39 H 1.09004 * 110.63217 * 118.69765 * 22 21 19
40 40 H 1.09002 * 110.37322 * 94.85326 * 23 22 21
41 41 H 1.08999 * 110.37312 * 217.08002 * 23 22 21
42 42 H 1.08998 * 113.46912 * 141.68133 * 25 12 11
43 43 H 1.08996 * 113.47054 * 272.12106 * 25 12 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 1.3152 0.0000 0.0000
3 14 2.2492 1.6177 0.0000
4 1 2.4967 2.0465 -1.4000
5 1 1.4467 2.6526 0.7001
6 1 3.5468 1.4400 0.7000
7 6 2.0046 -1.1941 -0.0005
8 1 3.0845 -1.1941 -0.0001
9 6 1.2511 -2.4992 -0.0005
10 8 0.1894 -2.5419 -0.9562
11 6 2.1488 -3.7442 -0.0005
12 7 1.2099 -4.3575 0.9509
13 6 0.8345 -5.6114 1.2723
14 8 1.3281 -6.5583 0.6973
15 6 -0.1984 -5.8367 2.3462
16 6 -0.4415 -7.3381 2.5130
17 8 -1.4214 -7.5518 3.5309
18 6 -1.7231 -8.9284 3.7675
19 6 -2.7784 -9.0371 4.8699
20 1 -3.6408 -8.4147 4.6313
21 6 -3.2118 -10.5081 5.0562
22 6 -3.4165 -10.6489 6.5812
23 6 -3.0818 -9.2465 7.1360
24 8 -2.2140 -8.6529 6.1458
25 6 0.8561 -3.0001 1.3928
26 1 -0.4849 0.8400 0.0004
27 1 -0.3742 -1.7561 -0.9532
28 1 3.1384 -3.5658 0.4200
29 1 2.1850 -4.2532 -0.9637
30 1 -1.1302 -5.3475 2.0625
31 1 0.1590 -5.4195 3.2876
32 1 0.4901 -7.8277 2.7965
33 1 -0.7992 -7.7550 1.5716
34 1 -0.8180 -9.4506 4.0777
35 1 -2.1068 -9.3788 2.8520
36 1 -2.4287 -11.1836 4.7120
37 1 -4.1445 -10.7015 4.5263
38 1 -2.7345 -11.3941 6.9909
39 1 -4.4496 -10.9129 6.8073
40 1 -3.9910 -8.6555 7.2469
41 1 -2.5653 -9.3300 8.0922
42 1 -0.2045 -2.8776 1.6120
43 1 1.4979 -2.6215 2.1882
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).
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
ZINC000331363388.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 04:00:00
Heat of formation + Delta-G solvation = -144.044792 kcal
Electronic energy + Delta-G solvation = -23973.111890 eV
Core-core repulsion = 20212.797576 eV
Total energy + Delta-G solvation = -3760.314315 eV
No. of doubly occupied orbitals = 57
Molecular weight
(most abundant/longest-lived isotopes) = 299.161 amu
Computer time = 0.42 seconds
Orbital eigenvalues (eV)
-39.78155 -39.59521 -37.97065 -37.14808 -34.00625 -32.51918 -32.19830 -31.97564
-30.34302 -28.52942 -25.82509 -25.25371 -25.08426 -22.95205 -22.26448 -21.26623
-20.03992 -18.23548 -17.54148 -17.10344 -16.63929 -16.29651 -16.16460 -15.61310
-15.52619 -15.29303 -14.77077 -14.52574 -14.20648 -14.05315 -13.85716 -13.41301
-12.89947 -12.56518 -12.34218 -12.25968 -12.12568 -11.96052 -11.62317 -11.56278
-11.48218 -11.18919 -11.15845 -11.07078 -10.99401 -10.94128 -10.48342 -10.26185
-10.01193 -9.65120 -9.61224 -9.20399 -8.77841 -8.40536 -7.85975 -6.40924
-4.51236 3.14711 3.17412 3.18868 3.23201 3.26334 3.59388 3.84415
4.18012 4.23488 4.48186 4.56839 4.80786 4.84133 4.91388 5.00353
5.07293 5.15109 5.21382 5.25796 5.34985 5.35540 5.44208 5.53376
5.58001 5.61035 5.64765 5.71735 5.94508 5.97483 6.02092 6.19186
6.40976 6.52104 6.56159 6.62968 6.70001 7.10473 7.16506 7.62468
7.79851 8.49010 8.53428 8.73300 9.20152 9.48514 10.65877
Molecular weight = 299.16amu
Principal moments of inertia in cm(-1)
A = 0.028032 B = 0.002391 C = 0.002285
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 998.627994 B =11706.657433 C =12248.584291
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.898 5.898
2 C 0.071 3.929
3 Si 0.910 3.090
4 H -0.277 1.277
5 H -0.283 1.283
6 H -0.271 1.271
7 C -0.533 4.533
8 H 0.073 0.927
9 C 0.239 3.761
10 O -0.572 6.572
11 C 0.107 3.893
12 N -0.634 5.634
13 C 0.540 3.460
14 O -0.569 6.569
15 C -0.131 4.131
16 C 0.082 3.918
17 O -0.384 6.384
18 C 0.070 3.930
19 C 0.076 3.924
20 H 0.079 0.921
21 C -0.149 4.149
22 C -0.155 4.155
23 C 0.041 3.959
24 O -0.362 6.362
25 C 0.071 3.929
26 H 0.274 0.726
27 H 0.394 0.606
28 H 0.085 0.915
29 H 0.066 0.934
30 H 0.099 0.901
31 H 0.097 0.903
32 H 0.056 0.944
33 H 0.057 0.943
34 H 0.058 0.942
35 H 0.064 0.936
36 H 0.078 0.922
37 H 0.081 0.919
38 H 0.075 0.925
39 H 0.077 0.923
40 H 0.060 0.940
41 H 0.091 0.909
42 H 0.066 0.934
43 H 0.082 0.918
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -7.201 -15.336 11.289 20.359
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 -0.539 5.539
2 C -0.131 4.131
3 Si 0.737 3.263
4 H -0.202 1.202
5 H -0.209 1.209
6 H -0.195 1.195
7 C -0.571 4.571
8 H 0.091 0.909
9 C 0.197 3.803
10 O -0.385 6.385
11 C -0.015 4.015
12 N -0.367 5.367
13 C 0.330 3.670
14 O -0.451 6.451
15 C -0.171 4.171
16 C 0.005 3.995
17 O -0.304 6.304
18 C -0.007 4.007
19 C 0.018 3.982
20 H 0.097 0.903
21 C -0.187 4.187
22 C -0.193 4.193
23 C -0.036 4.036
24 O -0.281 6.281
25 C -0.052 4.052
26 H 0.084 0.916
27 H 0.251 0.749
28 H 0.103 0.897
29 H 0.084 0.916
30 H 0.117 0.883
31 H 0.115 0.885
32 H 0.075 0.925
33 H 0.075 0.925
34 H 0.076 0.924
35 H 0.082 0.918
36 H 0.097 0.903
37 H 0.100 0.900
38 H 0.094 0.906
39 H 0.096 0.904
40 H 0.078 0.922
41 H 0.109 0.891
42 H 0.084 0.916
43 H 0.100 0.900
Dipole moment (debyes) X Y Z Total
from point charges -6.812 -16.197 11.049 20.756
hybrid contribution 0.001 1.101 0.159 1.112
sum -6.811 -15.096 11.207 19.997
Atomic orbital electron populations
1.69262 1.06209 1.28234 1.50161 1.25091 0.95040 0.99969 0.93019
0.86298 0.79735 0.81829 0.78473 1.20245 1.20897 1.19528 1.21424
0.93926 0.89719 1.52053 0.90903 1.19503 0.85419 0.91081 0.84287
1.86045 1.44937 1.48340 1.59202 1.23332 0.93829 0.92172 0.92184
1.49694 1.42142 1.04770 1.40058 1.19745 0.82851 0.81104 0.83323
1.90633 1.58402 1.40706 1.55317 1.21340 0.99880 0.96676 0.99189
1.22122 0.91404 0.95483 0.90498 1.87858 1.60595 1.24079 1.57846
1.22500 0.97746 0.84109 0.96338 1.23072 0.95849 0.94437 0.84799
0.90310 1.22915 1.02574 0.96474 0.96717 1.22937 1.02556 0.98496
0.95270 1.23410 0.94756 0.92195 0.93258 1.89316 1.49734 1.74328
1.14676 1.24199 1.00597 0.77702 1.02701 0.91551 0.74950 0.89658
0.91555 0.88309 0.88461 0.92526 0.92485 0.92412 0.91842 0.90309
0.90045 0.90586 0.90426 0.92221 0.89091 0.91592 0.89951
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 -0.90 -22.65 11.01 55.43 0.61 -22.04 16
2 C 0.07 1.76 5.40 -17.82 -0.10 1.67 16
3 Si 0.91 19.31 29.54 -169.99 -5.02 14.29 16
4 H -0.28 -5.91 7.11 56.52 0.40 -5.51 16
5 H -0.28 -5.99 7.11 56.52 0.40 -5.59 16
6 H -0.27 -5.68 7.11 56.52 0.40 -5.28 16
7 C -0.53 -13.27 8.69 -34.44 -0.30 -13.57 16
8 H 0.07 1.76 7.81 -52.49 -0.41 1.35 16
9 C 0.24 5.74 1.57 -91.39 -0.14 5.60 16
10 O -0.57 -14.82 13.53 -35.23 -0.48 -15.29 16
11 C 0.11 2.36 8.04 -8.51 -0.07 2.29 16
12 N -0.63 -13.57 3.69 -185.38 -0.68 -14.26 16
13 C 0.54 11.07 8.08 -10.99 -0.09 10.99 16
14 O -0.57 -13.06 16.76 5.56 0.09 -12.97 16
15 C -0.13 -2.17 5.90 -27.88 -0.16 -2.33 16
16 C 0.08 1.24 5.23 37.16 0.19 1.43 16
17 O -0.38 -5.64 10.34 -35.27 -0.36 -6.01 16
18 C 0.07 0.79 5.54 37.16 0.21 1.00 16
19 C 0.08 0.78 3.58 -25.96 -0.09 0.68 16
20 H 0.08 0.80 8.14 -51.93 -0.42 0.37 16
21 C -0.15 -1.05 6.63 -25.17 -0.17 -1.22 16
22 C -0.15 -0.98 7.09 -25.16 -0.18 -1.15 16
23 C 0.04 0.33 7.62 37.94 0.29 0.62 16
24 O -0.36 -4.42 11.37 -35.27 -0.40 -4.82 16
25 C 0.07 1.53 7.82 -8.64 -0.07 1.46 16
26 H 0.27 6.56 8.31 -40.82 -0.34 6.22 16
27 H 0.39 10.27 6.33 45.56 0.29 10.56 16
28 H 0.09 1.71 8.10 -51.93 -0.42 1.29 16
29 H 0.07 1.49 8.14 -51.93 -0.42 1.07 16
30 H 0.10 1.59 8.14 -51.93 -0.42 1.17 16
31 H 0.10 1.50 8.14 -51.93 -0.42 1.08 16
32 H 0.06 0.86 8.10 -51.93 -0.42 0.44 16
33 H 0.06 0.86 8.10 -51.93 -0.42 0.44 16
34 H 0.06 0.64 8.14 -51.93 -0.42 0.21 16
35 H 0.06 0.60 8.14 -51.92 -0.42 0.18 16
36 H 0.08 0.52 7.87 -51.93 -0.41 0.11 16
37 H 0.08 0.45 8.14 -51.93 -0.42 0.03 16
38 H 0.08 0.44 8.14 -51.93 -0.42 0.01 16
39 H 0.08 0.37 8.14 -51.93 -0.42 -0.05 16
40 H 0.06 0.44 8.14 -51.93 -0.42 0.01 16
41 H 0.09 0.63 8.14 -51.93 -0.42 0.21 16
42 H 0.07 1.41 8.14 -51.93 -0.42 0.99 16
43 H 0.08 1.68 8.10 -51.93 -0.42 1.25 16
LS Contribution 359.16 15.07 5.41 5.41
Total: -1.00 -29.72 359.16 -7.93 -37.65
By element:
Atomic # 1 Polarization: 16.99 SS G_CDS: -6.42 Total: 10.57 kcal
Atomic # 6 Polarization: 8.14 SS G_CDS: -0.68 Total: 7.47 kcal
Atomic # 7 Polarization: -36.23 SS G_CDS: -0.07 Total: -36.30 kcal
Atomic # 8 Polarization: -37.94 SS G_CDS: -1.15 Total: -39.09 kcal
Atomic # 14 Polarization: 19.31 SS G_CDS: -5.02 Total: 14.29 kcal
Total LS contribution 5.41 Total: 5.41 kcal
Total: -29.72 -7.93 -37.65 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.
ZINC000331363388.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 -106.397 kcal
(2) G-P(sol) polarization free energy of solvation -29.718 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -136.115 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -7.930 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -37.648 kcal
(6) G-S(sol) free energy of system = (1) + (5) -144.045 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.42 seconds