Wall clock time and date at job start Tue Mar 31 2020 02:57:23
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 C
2 2 C 1.53004 * 1
3 3 N 1.46502 * 109.47224 * 2 1
4 4 C 1.37091 * 120.00304 * 84.75252 * 3 2 1
5 5 H 1.08002 * 120.00010 * 185.62628 * 4 3 2
6 6 C 1.38946 * 120.00147 * 5.62497 * 4 3 2
7 7 N 1.31415 * 120.00245 * 329.80736 * 6 4 3
8 8 Si 1.86805 * 120.00187 * 149.80618 * 6 4 3
9 9 H 1.48497 * 109.46872 * 0.02562 * 8 6 4
10 10 H 1.48502 * 109.46928 * 120.00335 * 8 6 4
11 11 H 1.48495 * 109.47194 * 240.00176 * 8 6 4
12 12 C 1.34777 * 119.99431 * 264.75184 * 3 2 1
13 13 O 1.21290 * 119.99557 * 183.76465 * 12 3 2
14 14 C 1.50700 * 120.00431 * 3.76215 * 12 3 2
15 15 H 1.08996 * 109.69958 * 24.68628 * 14 12 3
16 16 O 1.43175 * 109.70666 * 145.26323 * 14 12 3
17 17 C 1.36109 * 116.71485 * 73.55982 * 16 14 12
18 18 C 1.38706 * 119.39672 * 197.05417 * 17 16 14
19 19 C 1.38197 * 120.06630 * 180.20093 * 18 17 16
20 20 C 1.38254 * 120.11428 * 359.97107 * 19 18 17
21 21 C 1.38198 * 120.11319 * 359.95188 * 20 19 18
22 22 C 1.38707 * 120.06610 * 0.02562 * 21 20 19
23 23 O 1.36103 * 119.39143 * 180.14037 * 22 21 20
24 24 C 1.43259 * 116.71845 * 197.17974 * 23 22 21
25 25 H 1.08998 * 109.68676 * 73.43015 * 24 23 22
26 26 C 1.52996 * 109.77415 * 194.08550 * 24 23 22
27 27 H 1.09001 * 109.46893 * 59.99637 * 1 2 3
28 28 H 1.08993 * 109.47196 * 180.02562 * 1 2 3
29 29 H 1.09007 * 109.46789 * 300.00715 * 1 2 3
30 30 H 1.08999 * 109.47058 * 239.99252 * 2 1 3
31 31 H 1.09000 * 109.46581 * 119.99649 * 2 1 3
32 32 H 0.96998 * 120.00214 * 179.97438 * 7 6 4
33 33 H 1.07994 * 119.96654 * 0.13561 * 18 17 16
34 34 H 1.07996 * 119.94216 * 179.97438 * 19 18 17
35 35 H 1.07999 * 119.94328 * 179.97438 * 20 19 18
36 36 H 1.08003 * 119.96808 * 180.02562 * 21 20 19
37 37 H 1.09000 * 109.46879 * 181.77771 * 26 24 23
38 38 H 1.08996 * 109.47646 * 301.77854 * 26 24 23
39 39 H 1.08997 * 109.47501 * 61.77848 * 26 24 23
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 7 2.0184 1.3812 0.0000
4 6 2.1446 2.0637 1.1822
5 1 2.4170 3.1088 1.1760
6 6 1.9219 1.4110 2.3885
7 7 1.0677 0.4141 2.4483
8 14 2.8368 1.9504 3.9252
9 1 3.7337 3.0866 3.5940
10 1 1.8596 2.3767 4.9590
11 1 3.6438 0.8171 4.4443
12 6 2.3437 1.9809 -1.1624
13 8 2.8122 3.0996 -1.1572
14 6 2.1253 1.2614 -2.4684
15 1 1.3396 0.5153 -2.3500
16 8 1.7496 2.2017 -3.4807
17 6 2.7327 3.0138 -3.9567
18 6 2.3888 4.1615 -4.6555
19 6 3.3758 4.9938 -5.1485
20 6 4.7082 4.6853 -4.9463
21 6 5.0577 3.5441 -4.2495
22 6 4.0720 2.7048 -3.7515
23 8 4.4316 1.5861 -3.0648
24 6 3.4272 0.5769 -2.9063
25 1 3.2712 0.0620 -3.8543
26 6 3.8665 -0.4274 -1.8390
27 1 -0.3633 0.5139 -0.8900
28 1 -0.3633 -1.0276 0.0005
29 1 -0.3633 0.5140 0.8900
30 1 1.8934 -0.5139 -0.8899
31 1 1.8933 -0.5138 0.8900
32 1 0.9125 -0.0418 3.2903
33 1 1.3488 4.4045 -4.8154
34 1 3.1058 5.8867 -5.6927
35 1 5.4773 5.3374 -5.3331
36 1 6.0993 3.3056 -4.0924
37 1 3.1137 -1.2100 -1.7448
38 1 4.8186 -0.8721 -2.1283
39 1 3.9800 0.0843 -0.8833
RHF calculation, no. of doubly occupied orbitals= 54
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=WATER
ZINC000068915860.mol2 39
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 02:57:23
Heat of formation + Delta-G solvation = -69.316544 kcal
Electronic energy + Delta-G solvation = -24748.931341 eV
Core-core repulsion = 21236.936495 eV
Total energy + Delta-G solvation = -3511.994846 eV
No. of doubly occupied orbitals = 54
Molecular weight
(most abundant/longest-lived isotopes) = 291.130 amu
Computer time = 0.48 seconds
Orbital eigenvalues (eV)
-42.63876 -40.26097 -38.50593 -38.25643 -37.00180 -34.51533 -33.26242 -31.60690
-31.25829 -30.02245 -28.68723 -26.70962 -24.65413 -23.98817 -23.52503 -22.84041
-20.25724 -19.79068 -19.10081 -18.64506 -17.80601 -17.50472 -16.84360 -16.40248
-15.97000 -15.81569 -15.71222 -15.19120 -15.04916 -14.82088 -14.71261 -14.65035
-13.89408 -13.80732 -13.66723 -13.46728 -13.13099 -12.91906 -12.80351 -12.71518
-12.59568 -12.44815 -12.17084 -12.14347 -11.98686 -11.57056 -11.28230 -10.74907
-10.41918 -9.82410 -9.53884 -8.89661 -8.42685 -5.83689 0.37928 0.45456
1.26900 1.39991 1.51645 1.72689 2.01705 2.24503 2.36453 2.80466
2.86621 2.99559 3.25710 3.67818 3.71518 3.76531 4.00967 4.04017
4.17654 4.29058 4.37184 4.48104 4.54675 4.65099 4.72031 4.83692
4.86082 4.97461 5.09796 5.14483 5.25777 5.30652 5.37998 5.49705
5.54609 5.79421 5.90252 5.95409 5.99850 6.44425 6.50101 7.13490
7.41102 7.97815 8.53303
Molecular weight = 291.13amu
Principal moments of inertia in cm(-1)
A = 0.021591 B = 0.005623 C = 0.005258
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1296.540422 B = 4978.460552 C = 5324.060207
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.142 4.142
2 C 0.102 3.898
3 N -0.434 5.434
4 C -0.355 4.355
5 H 0.064 0.936
6 C 0.020 3.980
7 N -0.848 5.848
8 Si 0.967 3.033
9 H -0.287 1.287
10 H -0.273 1.273
11 H -0.262 1.262
12 C 0.409 3.591
13 O -0.623 6.623
14 C 0.044 3.956
15 H 0.157 0.843
16 O -0.306 6.306
17 C 0.037 3.963
18 C -0.133 4.133
19 C -0.119 4.119
20 C -0.114 4.114
21 C -0.137 4.137
22 C 0.049 3.951
23 O -0.319 6.319
24 C 0.064 3.936
25 H 0.117 0.883
26 C -0.151 4.151
27 H 0.025 0.975
28 H 0.072 0.928
29 H 0.062 0.938
30 H 0.079 0.921
31 H 0.091 0.909
32 H 0.277 0.723
33 H 0.138 0.862
34 H 0.165 0.835
35 H 0.166 0.834
36 H 0.141 0.859
37 H 0.117 0.883
38 H 0.094 0.906
39 H 0.044 0.956
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 3.123 -3.513 -11.812 12.713
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 C -0.200 4.200
2 C -0.020 4.020
3 N -0.153 5.153
4 C -0.482 4.482
5 H 0.082 0.918
6 C -0.185 4.185
7 N -0.485 5.485
8 Si 0.791 3.209
9 H -0.213 1.213
10 H -0.198 1.198
11 H -0.187 1.187
12 C 0.198 3.802
13 O -0.511 6.511
14 C -0.016 4.016
15 H 0.174 0.826
16 O -0.220 6.220
17 C -0.007 4.007
18 C -0.152 4.152
19 C -0.136 4.136
20 C -0.132 4.132
21 C -0.156 4.156
22 C 0.004 3.996
23 O -0.234 6.234
24 C 0.007 3.993
25 H 0.134 0.866
26 C -0.207 4.207
27 H 0.044 0.956
28 H 0.091 0.909
29 H 0.081 0.919
30 H 0.097 0.903
31 H 0.109 0.891
32 H 0.088 0.912
33 H 0.156 0.844
34 H 0.183 0.817
35 H 0.184 0.816
36 H 0.159 0.841
37 H 0.135 0.865
38 H 0.113 0.887
39 H 0.063 0.937
Dipole moment (debyes) X Y Z Total
from point charges 3.213 -3.208 -11.599 12.456
hybrid contribution -0.042 0.313 1.345 1.381
sum 3.171 -2.895 -10.255 11.117
Atomic orbital electron populations
1.22029 0.95764 1.01526 1.00703 1.22152 0.95522 0.81994 1.02299
1.43991 1.53923 1.12778 1.04565 1.19400 1.48824 0.96154 0.83794
0.91798 1.25684 0.95489 0.96659 1.00650 1.70253 1.26687 1.23398
1.28160 0.85321 0.78948 0.78471 0.78146 1.21282 1.19803 1.18653
1.20602 0.85929 0.87800 0.85913 1.90511 1.51188 1.22378 1.87026
1.23319 1.01451 0.91165 0.85635 0.82591 1.86267 1.34927 1.48653
1.52105 1.19241 0.86864 0.94308 1.00309 1.20746 1.01740 0.91656
1.01033 1.21257 0.91937 0.99821 1.00635 1.21275 0.97376 0.95968
0.98584 1.20747 0.98548 0.95861 1.00402 1.19216 0.92738 0.90157
0.97455 1.86222 1.39108 1.26526 1.71594 1.23318 0.85762 0.88076
1.02120 0.86564 1.22114 1.04755 0.97387 0.96466 0.95632 0.90937
0.91910 0.90306 0.89102 0.91221 0.84447 0.81721 0.81608 0.84091
0.86515 0.88683 0.93664
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 C -0.14 -5.57 9.51 71.98 0.68 -4.89 16
2 C 0.10 4.19 4.13 86.38 0.36 4.55 16
3 N -0.43 -22.07 2.25 -635.53 -1.43 -23.50 16
4 C -0.35 -20.18 9.39 84.04 0.79 -19.39 16
5 H 0.06 4.09 7.35 -2.91 -0.02 4.07 16
6 C 0.02 1.03 5.01 84.92 0.43 1.46 16
7 N -0.85 -40.83 8.26 21.66 0.18 -40.65 16
8 Si 0.97 41.62 29.65 68.60 2.03 43.66 16
9 H -0.29 -13.28 7.11 99.48 0.71 -12.58 16
10 H -0.27 -11.27 7.11 99.48 0.71 -10.57 16
11 H -0.26 -10.55 7.11 99.48 0.71 -9.84 16
12 C 0.41 20.99 5.53 87.66 0.48 21.47 16
13 O -0.62 -37.88 14.41 15.95 0.23 -37.65 16
14 C 0.04 1.77 2.88 30.01 0.09 1.86 16
15 H 0.16 5.29 5.84 -2.39 -0.01 5.28 16
16 O -0.31 -12.93 10.12 -70.41 -0.71 -13.64 16
17 C 0.04 1.52 5.39 22.56 0.12 1.64 16
18 C -0.13 -4.55 9.96 22.37 0.22 -4.33 16
19 C -0.12 -3.20 10.04 22.26 0.22 -2.98 16
20 C -0.11 -3.04 10.04 22.26 0.22 -2.81 16
21 C -0.14 -4.54 9.96 22.37 0.22 -4.32 16
22 C 0.05 1.98 5.63 22.56 0.13 2.11 16
23 O -0.32 -12.96 9.64 -78.70 -0.76 -13.71 16
24 C 0.06 2.17 3.35 30.75 0.10 2.28 16
25 H 0.12 3.14 8.14 -2.39 -0.02 3.12 16
26 C -0.15 -4.40 8.10 71.98 0.58 -3.82 16
27 H 0.02 0.95 7.67 -2.39 -0.02 0.93 16
28 H 0.07 2.33 8.14 -2.39 -0.02 2.31 16
29 H 0.06 2.92 6.24 -2.38 -0.01 2.90 16
30 H 0.08 2.59 3.08 -2.39 -0.01 2.58 16
31 H 0.09 4.01 5.86 -2.39 -0.01 3.99 16
32 H 0.28 12.36 8.31 -92.71 -0.77 11.59 16
33 H 0.14 4.22 8.06 -2.91 -0.02 4.19 16
34 H 0.17 3.05 8.06 -2.91 -0.02 3.02 16
35 H 0.17 2.97 8.06 -2.91 -0.02 2.95 16
36 H 0.14 4.10 8.06 -2.91 -0.02 4.07 16
37 H 0.12 2.61 6.42 -2.39 -0.02 2.59 16
38 H 0.09 2.31 8.14 -2.39 -0.02 2.29 16
39 H 0.04 1.70 6.25 -2.39 -0.01 1.68 16
Total: -1.00 -73.36 308.25 5.27 -68.09
By element:
Atomic # 1 Polarization: 23.51 SS G_CDS: 1.08 Total: 24.59 kcal
Atomic # 6 Polarization: -11.83 SS G_CDS: 4.65 Total: -7.18 kcal
Atomic # 7 Polarization: -62.90 SS G_CDS: -1.25 Total: -64.15 kcal
Atomic # 8 Polarization: -63.76 SS G_CDS: -1.24 Total: -65.01 kcal
Atomic # 14 Polarization: 41.62 SS G_CDS: 2.03 Total: 43.66 kcal
Total: -73.36 5.27 -68.09 kcal
The number of atoms in the molecule is 39
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.
ZINC000068915860.mol2 39
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 -1.225 kcal
(2) G-P(sol) polarization free energy of solvation -73.365 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -74.590 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.273 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.092 kcal
(6) G-S(sol) free energy of system = (1) + (5) -69.317 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.48 seconds