Wall clock time and date at job start Sat Apr 11 2020 07:05:46
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 1.31409 * 1
3 3 Si 1.86801 * 120.00264 * 2 1
4 4 H 1.48490 * 109.47261 * 179.97438 * 3 2 1
5 5 H 1.48503 * 109.46720 * 299.99758 * 3 2 1
6 6 H 1.48507 * 109.46976 * 59.99340 * 3 2 1
7 7 C 1.38951 * 119.99704 * 179.97438 * 2 1 3
8 8 H 1.08005 * 119.99796 * 180.02562 * 7 2 1
9 9 N 1.37095 * 120.00323 * 0.02562 * 7 2 1
10 10 C 1.34774 * 120.00325 * 179.97438 * 9 7 2
11 11 O 1.21297 * 119.99787 * 359.97438 * 10 9 7
12 12 C 1.50702 * 120.00089 * 180.02562 * 10 9 7
13 13 N 1.46508 * 109.46831 * 180.02562 * 12 10 9
14 14 C 1.34772 * 119.99535 * 179.97438 * 13 12 10
15 15 O 1.21578 * 120.00518 * 0.02562 * 14 13 12
16 16 C 1.47665 * 119.99762 * 179.97438 * 14 13 12
17 17 C 1.40072 * 119.91904 * 0.02562 * 16 14 13
18 18 C 1.36514 * 120.44298 * 179.97438 * 17 16 14
19 19 C 1.38959 * 120.16298 * 359.71635 * 18 17 16
20 20 C 1.40660 * 120.15843 * 0.57127 * 19 18 17
21 21 C 1.39215 * 119.91728 * 180.02562 * 16 14 13
22 22 N 1.35993 * 107.04838 * 179.66342 * 20 19 18
23 23 C 1.30721 * 109.53533 * 359.74377 * 22 20 19
24 24 O 1.35261 * 125.01768 * 179.97438 * 23 22 20
25 25 N 1.36451 * 109.96500 * 359.97438 * 23 22 20
26 26 C 1.46501 * 126.31798 * 180.02562 * 25 23 22
27 27 C 1.53002 * 117.49747 * 60.02812 * 26 25 23
28 28 C 1.53000 * 60.02940 * 252.51859 * 27 26 25
29 29 H 0.97007 * 119.99951 * 0.02562 * 1 2 3
30 30 H 0.97002 * 119.99840 * 0.02562 * 9 7 2
31 31 H 1.08993 * 109.46869 * 59.99998 * 12 10 9
32 32 H 1.09005 * 109.46994 * 299.99387 * 12 10 9
33 33 H 0.96993 * 120.00278 * 359.97438 * 13 12 10
34 34 H 1.08005 * 119.77745 * 0.02562 * 17 16 14
35 35 H 1.08001 * 119.91995 * 180.02562 * 18 17 16
36 36 H 1.08003 * 120.24101 * 0.04549 * 21 16 14
37 37 H 0.96702 * 114.00268 * 270.03928 * 24 23 22
38 38 H 1.09000 * 115.55824 * 205.71182 * 26 25 23
39 39 H 1.09002 * 117.49918 * 145.01894 * 27 26 25
40 40 H 1.09002 * 117.49754 * 0.02562 * 27 26 25
41 41 H 1.09008 * 117.49673 * 107.47884 * 28 27 26
42 42 H 1.08999 * 117.49942 * 252.47315 * 28 27 26
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 1.3141 0.0000 0.0000
3 14 2.2482 1.6177 0.0000
4 1 3.7081 1.3463 0.0006
5 1 1.8894 2.3963 -1.2126
6 1 1.8893 2.3965 1.2125
7 6 2.0088 -1.2034 0.0005
8 1 3.0888 -1.2034 0.0010
9 7 1.3233 -2.3907 0.0005
10 6 1.9971 -3.5579 0.0005
11 8 3.2101 -3.5579 0.0001
12 6 1.2436 -4.8630 0.0000
13 7 2.1956 -5.9765 0.0007
14 6 1.7463 -7.2471 0.0009
15 8 0.5510 -7.4693 -0.0001
16 6 2.7058 -8.3695 0.0010
17 6 4.0826 -8.1117 0.0016
18 6 4.9792 -9.1412 0.0023
19 6 4.5317 -10.4567 0.0084
20 6 3.1527 -10.7341 0.0018
21 6 2.2399 -9.6814 0.0007
22 7 3.0183 -12.0874 0.0025
23 6 4.2010 -12.6442 0.0034
24 8 4.4314 -13.9770 0.0048
25 7 5.1688 -11.6822 0.0028
26 6 6.6163 -11.9078 0.0030
27 6 7.2099 -12.6872 -1.1722
28 6 7.1079 -13.3431 0.2064
29 1 -0.4850 0.8401 -0.0004
30 1 0.3533 -2.3906 -0.0002
31 1 0.6173 -4.9204 -0.8902
32 1 0.6166 -4.9209 0.8898
33 1 3.1492 -5.7993 0.0011
34 1 4.4373 -7.0915 0.0023
35 1 6.0388 -8.9327 0.0031
36 1 1.1786 -9.8816 -0.0005
37 1 4.4975 -14.3639 0.8885
38 1 7.2173 -11.1045 0.4291
39 1 8.2016 -12.3968 -1.5191
40 1 6.5235 -13.0318 -1.9456
41 1 6.3540 -14.1190 0.3400
42 1 8.0324 -13.4845 0.7661
RHF calculation, no. of doubly occupied orbitals= 63
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
ZINC000597652038.mol2 42
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 07:05:46
Heat of formation + Delta-G solvation = -22.333168 kcal
Electronic energy + Delta-G solvation = -28108.197404 eV
Core-core repulsion = 23861.746136 eV
Total energy + Delta-G solvation = -4246.451267 eV
No. of doubly occupied orbitals = 63
Molecular weight
(most abundant/longest-lived isotopes) = 344.132 amu
Computer time = 0.75 seconds
Orbital eigenvalues (eV)
-43.45627 -41.19468 -40.04420 -39.26059 -38.09282 -37.27319 -36.25752 -35.35234
-33.87799 -33.35874 -31.32565 -30.68844 -28.92324 -26.53743 -24.85452 -24.44987
-23.96138 -23.41704 -21.70655 -21.46468 -21.36327 -20.10869 -19.42143 -19.20414
-18.64233 -17.68327 -17.51568 -17.04563 -16.91169 -16.73771 -16.38037 -15.87653
-15.74980 -15.55755 -15.45380 -15.20335 -14.97656 -14.90701 -14.74128 -13.99359
-13.81030 -13.66677 -13.53500 -13.41557 -13.06266 -12.89509 -12.59896 -12.42166
-12.34122 -12.09437 -12.04941 -11.68715 -11.55980 -11.25724 -11.15108 -11.01242
-10.53943 -10.26143 -10.07079 -9.49031 -9.27151 -8.49227 -5.99167 -0.34444
-0.13965 1.04304 1.36516 1.37115 1.44592 1.58546 1.76700 1.91870
1.92931 2.31292 2.43926 2.69138 2.78122 3.12450 3.13959 3.18244
3.47984 3.62855 3.76000 3.81117 3.88068 4.07237 4.09143 4.19924
4.33006 4.35729 4.45181 4.48584 4.68159 4.75917 4.86486 4.99610
5.10488 5.13085 5.19181 5.20703 5.28101 5.40758 5.53235 5.61355
5.93757 6.44925 6.46265 6.51522 6.54949 7.05157 7.09640 7.46313
7.95880 8.67855
Molecular weight = 344.13amu
Principal moments of inertia in cm(-1)
A = 0.026017 B = 0.001815 C = 0.001706
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1075.964441 B =15421.564475 C =16409.317359
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.917 5.917
2 C -0.013 4.013
3 Si 0.997 3.003
4 H -0.268 1.268
5 H -0.273 1.273
6 H -0.272 1.272
7 C -0.335 4.335
8 H 0.088 0.912
9 N -0.560 5.560
10 C 0.435 3.565
11 O -0.621 6.621
12 C 0.119 3.881
13 N -0.699 5.699
14 C 0.563 3.437
15 O -0.577 6.577
16 C -0.143 4.143
17 C -0.067 4.067
18 C -0.095 4.095
19 C 0.078 3.922
20 C 0.024 3.976
21 C -0.009 4.009
22 N -0.520 5.520
23 C 0.459 3.541
24 O -0.437 6.437
25 N -0.456 5.456
26 C 0.033 3.967
27 C -0.177 4.177
28 C -0.163 4.163
29 H 0.279 0.721
30 H 0.399 0.601
31 H 0.096 0.904
32 H 0.097 0.903
33 H 0.415 0.585
34 H 0.155 0.845
35 H 0.168 0.832
36 H 0.132 0.868
37 H 0.431 0.569
38 H 0.165 0.835
39 H 0.130 0.870
40 H 0.083 0.917
41 H 0.118 0.882
42 H 0.136 0.864
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 16.168 -26.705 1.808 31.270
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 -0.557 5.557
2 C -0.213 4.213
3 Si 0.821 3.179
4 H -0.193 1.193
5 H -0.198 1.198
6 H -0.198 1.198
7 C -0.464 4.464
8 H 0.106 0.894
9 N -0.195 5.195
10 C 0.222 3.778
11 O -0.509 6.509
12 C -0.008 4.008
13 N -0.353 5.353
14 C 0.352 3.648
15 O -0.458 6.458
16 C -0.149 4.149
17 C -0.087 4.087
18 C -0.115 4.115
19 C -0.032 4.032
20 C -0.093 4.093
21 C -0.029 4.029
22 N -0.251 5.251
23 C 0.155 3.845
24 O -0.243 6.243
25 N -0.156 5.156
26 C -0.069 4.069
27 C -0.215 4.215
28 C -0.200 4.200
29 H 0.089 0.911
30 H 0.233 0.767
31 H 0.114 0.886
32 H 0.115 0.885
33 H 0.255 0.745
34 H 0.172 0.828
35 H 0.185 0.815
36 H 0.150 0.850
37 H 0.294 0.706
38 H 0.182 0.818
39 H 0.148 0.852
40 H 0.101 0.899
41 H 0.136 0.864
42 H 0.154 0.846
Dipole moment (debyes) X Y Z Total
from point charges 15.344 -27.199 1.228 31.252
hybrid contribution 0.363 1.123 0.350 1.231
sum 15.707 -26.076 1.579 30.482
Atomic orbital electron populations
1.69692 1.07033 1.29519 1.49438 1.26143 0.96536 1.02736 0.95888
0.84801 0.78209 0.76720 0.78188 1.19253 1.19788 1.19771 1.19789
0.93021 0.83455 1.50137 0.89362 1.41851 1.09624 1.04624 1.63426
1.20353 0.88132 0.85799 0.83547 1.90464 1.14985 1.87506 1.57969
1.20834 0.91685 0.83753 1.04544 1.45543 1.11617 1.04157 1.73987
1.18349 0.87939 0.82813 0.75730 1.90753 1.17628 1.85270 1.52198
1.19404 0.94032 0.91821 1.09598 1.21002 0.90461 1.00547 0.96728
1.19875 1.01856 0.86742 1.03029 1.18937 0.92098 0.87777 1.04381
1.18653 0.92245 0.90183 1.08223 1.20248 0.99395 0.88902 0.94366
1.70658 1.22538 1.06498 1.25451 1.20403 0.82202 0.83571 0.98294
1.84811 1.91610 1.11116 1.36732 1.45246 1.07066 1.04001 1.59269
1.22478 0.76519 1.00230 1.07688 1.23494 1.03413 1.02445 0.92118
1.23816 1.04728 0.92391 0.99036 0.91139 0.76713 0.88558 0.88504
0.74459 0.82759 0.81500 0.85032 0.70551 0.81794 0.85209 0.89868
0.86419 0.84610
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 -0.92 -48.56 13.05 21.66 0.28 -48.28 16
2 C -0.01 -0.65 5.50 84.93 0.47 -0.18 16
3 Si 1.00 41.42 29.55 68.60 2.03 43.44 16
4 H -0.27 -11.07 7.11 99.48 0.71 -10.37 16
5 H -0.27 -10.92 7.11 99.48 0.71 -10.22 16
6 H -0.27 -10.91 7.11 99.48 0.71 -10.20 16
7 C -0.33 -18.21 9.68 84.04 0.81 -17.40 16
8 H 0.09 5.03 7.16 -2.91 -0.02 5.01 16
9 N -0.56 -27.81 5.29 -306.98 -1.62 -29.43 16
10 C 0.43 19.71 7.85 87.66 0.69 20.40 16
11 O -0.62 -31.11 15.24 -3.08 -0.05 -31.16 16
12 C 0.12 4.35 6.15 85.63 0.53 4.88 16
13 N -0.70 -23.11 5.48 -469.86 -2.57 -25.68 16
14 C 0.56 18.74 7.76 86.73 0.67 19.41 16
15 O -0.58 -22.81 16.32 -3.96 -0.06 -22.87 16
16 C -0.14 -3.96 5.87 -20.11 -0.12 -4.08 16
17 C -0.07 -1.42 9.47 22.31 0.21 -1.21 16
18 C -0.09 -1.65 9.96 22.04 0.22 -1.43 16
19 C 0.08 1.65 6.87 38.92 0.27 1.92 16
20 C 0.02 0.65 7.21 39.36 0.28 0.94 16
21 C -0.01 -0.25 9.64 22.77 0.22 -0.03 16
22 N -0.52 -13.93 11.31 -306.54 -3.47 -17.40 16
23 C 0.46 8.79 8.83 179.74 1.59 10.38 16
24 O -0.44 -4.99 10.94 -85.45 -0.93 -5.93 16
25 N -0.46 -7.47 3.15 -608.95 -1.92 -9.39 16
26 C 0.03 0.27 6.88 45.02 0.31 0.58 16
27 C -0.18 -1.21 10.40 30.60 0.32 -0.89 16
28 C -0.16 -0.59 9.87 30.62 0.30 -0.29 16
29 H 0.28 13.82 8.31 -92.70 -0.77 13.05 16
30 H 0.40 19.12 7.90 -92.71 -0.73 18.39 16
31 H 0.10 3.36 8.14 -2.39 -0.02 3.34 16
32 H 0.10 3.36 8.14 -2.38 -0.02 3.34 16
33 H 0.42 12.94 5.44 -92.71 -0.50 12.44 16
34 H 0.15 2.85 6.36 -2.91 -0.02 2.83 16
35 H 0.17 1.66 8.06 -2.91 -0.02 1.64 16
36 H 0.13 4.07 7.63 -2.91 -0.02 4.04 16
37 H 0.43 0.28 8.57 -74.06 -0.63 -0.35 16
38 H 0.16 0.67 8.14 -2.39 -0.02 0.65 16
39 H 0.13 0.40 8.14 -2.39 -0.02 0.38 16
40 H 0.08 0.95 8.14 -2.39 -0.02 0.93 16
41 H 0.12 0.38 5.01 -2.38 -0.01 0.37 16
42 H 0.14 -0.11 8.14 -2.39 -0.02 -0.13 16
Total: -1.00 -76.27 366.90 -2.28 -78.55
By element:
Atomic # 1 Polarization: 35.89 SS G_CDS: -0.73 Total: 35.15 kcal
Atomic # 6 Polarization: 26.22 SS G_CDS: 6.77 Total: 32.99 kcal
Atomic # 7 Polarization: -120.88 SS G_CDS: -9.30 Total: -130.18 kcal
Atomic # 8 Polarization: -58.92 SS G_CDS: -1.05 Total: -59.97 kcal
Atomic # 14 Polarization: 41.42 SS G_CDS: 2.03 Total: 43.44 kcal
Total: -76.27 -2.28 -78.55 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.
ZINC000597652038.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 56.221 kcal
(2) G-P(sol) polarization free energy of solvation -76.272 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.051 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.282 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.554 kcal
(6) G-S(sol) free energy of system = (1) + (5) -22.333 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.75 seconds