Wall clock time and date at job start Tue Mar 31 2020 12:02:11
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 1.86805 * 120.00007 * 2 1
4 4 H 1.48499 * 109.46964 * 269.99660 * 3 2 1
5 5 H 1.48498 * 109.46936 * 29.99990 * 3 2 1
6 6 H 1.48494 * 109.47063 * 150.00241 * 3 2 1
7 7 C 1.37874 * 120.00111 * 179.97438 * 2 1 3
8 8 H 1.08001 * 120.00103 * 179.97438 * 7 2 1
9 9 C 1.50701 * 120.00083 * 0.02562 * 7 2 1
10 10 C 1.50701 * 109.47517 * 179.97438 * 9 7 2
11 11 O 1.21279 * 119.99568 * 0.02562 * 10 9 7
12 12 N 1.34771 * 119.99877 * 179.97438 * 10 9 7
13 13 C 1.46502 * 119.99580 * 184.99505 * 12 10 9
14 14 H 1.08992 * 110.45389 * 323.86893 * 13 12 10
15 15 C 1.55931 * 110.40164 * 201.47728 * 13 12 10
16 16 H 1.08993 * 115.92235 * 41.24615 * 15 13 12
17 17 C 1.55929 * 104.49841 * 170.93388 * 15 13 12
18 18 C 1.54584 * 104.64380 * 70.27922 * 17 15 13
19 19 C 1.55936 * 104.64285 * 359.97438 * 18 17 15
20 20 H 1.08998 * 116.52364 * 160.39598 * 19 18 17
21 21 C 1.56948 * 100.65281 * 274.99019 * 15 13 12
22 22 C 1.54584 * 110.40045 * 86.25850 * 13 12 10
23 23 H 1.09000 * 110.40467 * 237.58227 * 22 13 12
24 24 C 1.50702 * 110.39933 * 359.88282 * 22 13 12
25 25 O 1.21274 * 120.00376 * 67.10057 * 24 22 13
26 26 N 1.34773 * 119.99691 * 247.08907 * 24 22 13
27 27 C 1.46989 * 127.25525 * 354.62011 * 26 24 22
28 28 C 1.50586 * 107.13324 * 179.90987 * 27 26 24
29 29 C 1.30391 * 110.12254 * 0.36491 * 28 27 26
30 30 C 1.46988 * 127.25309 * 174.92793 * 26 24 22
31 31 H 0.96995 * 119.99637 * 0.02562 * 1 2 3
32 32 H 1.08999 * 109.47209 * 59.99883 * 9 7 2
33 33 H 1.09000 * 109.46798 * 299.99903 * 9 7 2
34 34 H 0.96997 * 120.00555 * 5.00554 * 12 10 9
35 35 H 1.08992 * 110.40415 * 189.06843 * 17 15 13
36 36 H 1.09001 * 110.40173 * 311.49409 * 17 15 13
37 37 H 1.09002 * 110.40037 * 241.21307 * 18 17 15
38 38 H 1.08993 * 110.50253 * 118.84195 * 18 17 15
39 39 H 1.09000 * 112.02762 * 63.17047 * 21 15 13
40 40 H 1.09001 * 112.02751 * 189.61843 * 21 15 13
41 41 H 1.09004 * 109.90199 * 299.40502 * 27 26 24
42 42 H 1.08993 * 109.90753 * 60.65250 * 27 26 24
43 43 H 1.08010 * 124.94060 * 180.14350 * 28 27 26
44 44 H 1.07997 * 124.94398 * 179.79382 * 29 28 27
45 45 H 1.09001 * 109.90367 * 299.34552 * 30 26 24
46 46 H 1.09000 * 109.90111 * 60.41526 * 30 26 24
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 1.6178 0.0000
4 1 2.4967 2.0464 -1.4001
5 1 1.4466 2.6527 0.7000
6 1 3.5467 1.4402 0.7000
7 6 2.0045 -1.1940 0.0005
8 1 3.0845 -1.1940 0.0001
9 6 1.2511 -2.4991 0.0005
10 6 2.2303 -3.6446 0.0005
11 8 3.4227 -3.4230 0.0010
12 7 1.7810 -4.9152 0.0011
13 6 2.7286 -6.0271 0.1115
14 1 3.6496 -5.7973 -0.4241
15 6 2.0926 -7.3400 -0.4392
16 1 1.5064 -7.2389 -1.3525
17 6 3.2723 -8.3588 -0.4780
18 6 3.5744 -8.6639 1.0070
19 6 2.5490 -7.8001 1.8033
20 1 2.3582 -8.0983 2.8342
21 6 1.3178 -7.8417 0.8302
22 6 3.0306 -6.3322 1.5966
23 1 4.1001 -6.2523 1.7911
24 6 2.2633 -5.3939 2.4922
25 8 1.0536 -5.4603 2.5459
26 7 2.9216 -4.4811 3.2336
27 6 4.3771 -4.3326 3.3760
28 6 4.6158 -3.1724 4.3058
29 6 3.4781 -2.6703 4.6978
30 6 2.3354 -3.4282 4.0752
31 1 -0.4849 0.8400 -0.0004
32 1 0.6247 -2.5571 -0.8897
33 1 0.6241 -2.5567 0.8903
34 1 0.8304 -5.0936 -0.0719
35 1 2.9724 -9.2679 -0.9992
36 1 4.1432 -7.9136 -0.9591
37 1 4.5937 -8.3686 1.2559
38 1 3.4242 -9.7228 1.2174
39 1 0.5346 -7.1465 1.1324
40 1 0.9314 -8.8526 0.7003
41 1 4.8034 -5.2427 3.7982
42 1 4.8258 -4.1257 2.4045
43 1 5.5880 -2.8111 4.6073
44 1 3.3708 -1.8326 5.3709
45 1 1.7339 -2.7559 3.4632
46 1 1.7164 -3.8761 4.8525
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).
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
ZINC001269025135.mol2 46
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 12:02:11
Heat of formation + Delta-G solvation = -58.921857 kcal
Electronic energy + Delta-G solvation = -28746.175603 eV
Core-core repulsion = 25021.274929 eV
Total energy + Delta-G solvation = -3724.900675 eV
No. of doubly occupied orbitals = 60
Molecular weight
(most abundant/longest-lived isotopes) = 318.173 amu
Computer time = 0.71 seconds
Orbital eigenvalues (eV)
-42.39586 -40.49715 -39.81533 -38.38483 -35.17270 -34.98533 -33.21631 -31.52478
-30.94088 -29.62338 -29.50827 -28.48653 -25.97109 -25.34460 -23.32538 -21.49558
-21.18697 -20.65146 -20.44974 -19.60166 -18.65060 -18.33594 -17.76479 -17.31474
-17.06285 -16.64876 -16.30287 -15.84645 -15.74502 -15.59280 -15.30271 -14.69877
-14.59738 -14.27434 -14.18481 -13.88755 -13.61797 -13.40594 -13.35483 -12.92754
-12.81359 -12.61414 -12.52089 -12.32036 -12.24317 -12.08574 -12.04248 -12.00840
-11.78138 -11.71554 -11.49504 -11.17114 -10.73759 -10.66555 -10.65416 -10.44667
-9.96332 -9.38814 -8.26910 -6.35572 1.17078 1.36134 1.38063 1.50354
1.56050 1.85270 1.95709 2.31414 2.49869 3.07844 3.33498 3.41722
3.50001 3.65790 3.67591 3.94850 4.09646 4.15267 4.28595 4.32113
4.33928 4.34784 4.46645 4.49757 4.52568 4.60876 4.62041 4.66804
4.82073 4.86190 4.98076 5.02016 5.05521 5.13613 5.17439 5.18930
5.22137 5.24893 5.34484 5.43742 5.46977 5.60499 5.72940 5.78246
6.01094 6.53001 6.65257 6.80285 7.14690 7.30602 7.48606 8.85852
Molecular weight = 318.17amu
Principal moments of inertia in cm(-1)
A = 0.013684 B = 0.005155 C = 0.004270
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2045.650437 B = 5430.315498 C = 6555.859844
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.928 5.928
2 C 0.007 3.993
3 Si 0.967 3.033
4 H -0.270 1.270
5 H -0.275 1.275
6 H -0.270 1.270
7 C -0.526 4.526
8 H 0.058 0.942
9 C 0.013 3.987
10 C 0.525 3.475
11 O -0.570 6.570
12 N -0.723 5.723
13 C 0.154 3.846
14 H 0.082 0.918
15 C -0.102 4.102
16 H 0.112 0.888
17 C -0.112 4.112
18 C -0.111 4.111
19 C -0.079 4.079
20 H 0.102 0.898
21 C -0.125 4.125
22 C -0.116 4.116
23 H 0.098 0.902
24 C 0.547 3.453
25 O -0.567 6.567
26 N -0.623 5.623
27 C 0.118 3.882
28 C -0.159 4.159
29 C -0.172 4.172
30 C 0.123 3.877
31 H 0.266 0.734
32 H 0.029 0.971
33 H 0.019 0.981
34 H 0.403 0.597
35 H 0.091 0.909
36 H 0.068 0.932
37 H 0.073 0.927
38 H 0.090 0.910
39 H 0.059 0.941
40 H 0.094 0.906
41 H 0.104 0.896
42 H 0.065 0.935
43 H 0.179 0.821
44 H 0.167 0.833
45 H 0.037 0.963
46 H 0.076 0.924
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 9.185 -18.274 6.323 21.407
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 -0.568 5.568
2 C -0.191 4.191
3 Si 0.791 3.209
4 H -0.196 1.196
5 H -0.200 1.200
6 H -0.194 1.194
7 C -0.564 4.564
8 H 0.076 0.924
9 C -0.026 4.026
10 C 0.314 3.686
11 O -0.449 6.449
12 N -0.374 5.374
13 C 0.049 3.951
14 H 0.100 0.900
15 C -0.121 4.121
16 H 0.130 0.870
17 C -0.150 4.150
18 C -0.149 4.149
19 C -0.097 4.097
20 H 0.120 0.880
21 C -0.163 4.163
22 C -0.138 4.138
23 H 0.116 0.884
24 C 0.338 3.662
25 O -0.446 6.446
26 N -0.357 5.357
27 C -0.004 4.004
28 C -0.177 4.177
29 C -0.190 4.190
30 C 0.000 4.000
31 H 0.075 0.925
32 H 0.047 0.953
33 H 0.037 0.963
34 H 0.238 0.762
35 H 0.110 0.890
36 H 0.087 0.913
37 H 0.092 0.908
38 H 0.109 0.891
39 H 0.077 0.923
40 H 0.112 0.888
41 H 0.122 0.878
42 H 0.084 0.916
43 H 0.196 0.804
44 H 0.184 0.816
45 H 0.056 0.944
46 H 0.094 0.906
Dipole moment (debyes) X Y Z Total
from point charges 9.210 -18.115 6.288 21.273
hybrid contribution -0.625 1.527 -0.035 1.651
sum 8.585 -16.588 6.254 19.697
Atomic orbital electron populations
1.70078 1.07457 1.28018 1.51243 1.25869 0.95787 1.02983 0.94443
0.85414 0.78508 0.78263 0.78680 1.19551 1.19976 1.19413 1.21253
0.93479 0.90705 1.50962 0.92398 1.18970 0.94326 0.92095 0.97257
1.21186 0.89801 0.84403 0.73206 1.90463 1.18242 1.85344 1.50880
1.46145 1.10977 1.05001 1.75292 1.22161 0.93291 0.86708 0.92975
0.90029 1.23882 0.97610 0.92042 0.98543 0.86981 1.22587 0.96647
0.98714 0.97070 1.22632 0.98156 1.00242 0.93854 1.23468 0.96494
0.90287 0.99496 0.88022 1.23707 0.96840 1.01839 0.93892 1.23032
1.00352 0.95908 0.94525 0.88359 1.20429 0.87421 0.79961 0.78424
1.90603 1.15361 1.71850 1.66793 1.48341 1.08738 1.31867 1.46730
1.21011 0.80272 0.99476 0.99610 1.23516 1.00323 0.96623 0.97229
1.23366 0.93442 1.00781 1.01425 1.20688 0.96848 0.89157 0.93258
0.92500 0.95297 0.96314 0.76221 0.89022 0.91319 0.90809 0.89099
0.92252 0.88752 0.87782 0.91643 0.80386 0.81583 0.94446 0.90621
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 -0.93 -57.07 13.29 21.45 0.28 -56.78 16
2 C 0.01 0.44 5.46 84.65 0.46 0.90 16
3 Si 0.97 46.35 29.54 68.60 2.03 48.37 16
4 H -0.27 -12.46 7.11 99.48 0.71 -11.75 16
5 H -0.27 -12.53 7.11 99.48 0.71 -11.83 16
6 H -0.27 -12.69 7.11 99.48 0.71 -11.98 16
7 C -0.53 -32.19 8.92 25.60 0.23 -31.96 16
8 H 0.06 3.67 6.75 -2.91 -0.02 3.65 16
9 C 0.01 0.74 5.46 29.10 0.16 0.90 16
10 C 0.52 25.60 6.94 87.66 0.61 26.21 16
11 O -0.57 -29.92 15.14 -3.03 -0.05 -29.97 16
12 N -0.72 -27.76 3.52 -435.22 -1.53 -29.29 16
13 C 0.15 4.61 2.56 46.54 0.12 4.72 16
14 H 0.08 2.63 7.29 -2.39 -0.02 2.62 16
15 C -0.10 -2.19 4.74 -7.38 -0.04 -2.22 16
16 H 0.11 2.28 8.14 -2.39 -0.02 2.26 16
17 C -0.11 -1.72 6.21 32.15 0.20 -1.52 16
18 C -0.11 -1.60 6.21 32.15 0.20 -1.40 16
19 C -0.08 -1.64 4.48 -7.39 -0.03 -1.67 16
20 H 0.10 2.09 8.14 -2.39 -0.02 2.07 16
21 C -0.13 -2.75 6.26 33.38 0.21 -2.55 16
22 C -0.12 -3.21 2.58 -10.01 -0.03 -3.24 16
23 H 0.10 2.48 6.63 -2.39 -0.02 2.47 16
24 C 0.55 19.64 5.16 87.66 0.45 20.09 16
25 O -0.57 -23.64 14.71 -3.01 -0.04 -23.69 16
26 N -0.62 -21.76 3.37 -828.40 -2.79 -24.55 16
27 C 0.12 3.29 5.98 85.50 0.51 3.80 16
28 C -0.16 -3.88 10.86 26.24 0.29 -3.60 16
29 C -0.17 -4.75 10.87 26.24 0.29 -4.46 16
30 C 0.12 4.39 7.00 85.51 0.60 4.99 16
31 H 0.27 15.30 8.31 -92.71 -0.77 14.53 16
32 H 0.03 1.68 8.14 -2.39 -0.02 1.66 16
33 H 0.02 1.15 8.14 -2.39 -0.02 1.13 16
34 H 0.40 15.02 8.57 -92.71 -0.79 14.22 16
35 H 0.09 1.05 8.14 -2.39 -0.02 1.03 16
36 H 0.07 1.08 7.83 -2.39 -0.02 1.06 16
37 H 0.07 0.98 7.83 -2.39 -0.02 0.96 16
38 H 0.09 0.95 8.14 -2.39 -0.02 0.93 16
39 H 0.06 1.72 6.46 -2.39 -0.02 1.70 16
40 H 0.09 1.61 8.14 -2.39 -0.02 1.59 16
41 H 0.10 2.16 8.14 -2.39 -0.02 2.14 16
42 H 0.07 2.10 8.11 -2.39 -0.02 2.08 16
43 H 0.18 3.01 8.06 -2.91 -0.02 2.99 16
44 H 0.17 3.67 8.06 -2.91 -0.02 3.65 16
45 H 0.04 1.67 8.14 -2.39 -0.02 1.65 16
46 H 0.08 2.52 8.14 -2.39 -0.02 2.50 16
Total: -1.00 -77.91 365.91 2.31 -75.60
By element:
Atomic # 1 Polarization: 31.13 SS G_CDS: 0.19 Total: 31.32 kcal
Atomic # 6 Polarization: 4.77 SS G_CDS: 4.22 Total: 8.99 kcal
Atomic # 7 Polarization: -106.59 SS G_CDS: -4.04 Total: -110.63 kcal
Atomic # 8 Polarization: -53.56 SS G_CDS: -0.09 Total: -53.65 kcal
Atomic # 14 Polarization: 46.35 SS G_CDS: 2.03 Total: 48.37 kcal
Total: -77.91 2.31 -75.60 kcal
The number of atoms in the molecule is 46
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.
ZINC001269025135.mol2 46
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 16.680 kcal
(2) G-P(sol) polarization free energy of solvation -77.911 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -61.232 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.310 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -75.601 kcal
(6) G-S(sol) free energy of system = (1) + (5) -58.922 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.71 seconds