Wall clock time and date at job start Sat Apr 11 2020 06:41:13
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 N 1.46497 * 1
3 3 C 1.37099 * 119.99554 * 2 1
4 4 H 1.08007 * 119.99985 * 184.60387 * 3 2 1
5 5 C 1.38949 * 120.00123 * 4.60791 * 3 2 1
6 6 N 1.31409 * 119.99948 * 5.37986 * 5 3 2
7 7 Si 1.86806 * 119.99991 * 185.37552 * 5 3 2
8 8 H 1.48500 * 109.47210 * 359.97438 * 7 5 3
9 9 H 1.48499 * 109.46962 * 120.00019 * 7 5 3
10 10 H 1.48502 * 109.46806 * 240.00016 * 7 5 3
11 11 C 1.34773 * 120.00220 * 180.02562 * 2 1 3
12 12 O 1.21288 * 120.00316 * 354.83415 * 11 2 1
13 13 C 1.50701 * 119.99690 * 174.55587 * 11 2 1
14 14 C 1.52994 * 109.46136 * 62.84660 * 13 11 2
15 15 C 1.53045 * 109.46104 * 302.87128 * 13 11 2
16 16 C 1.53193 * 109.31120 * 178.61477 * 15 13 11
17 17 N 1.46930 * 108.77635 * 54.63808 * 16 15 13
18 18 C 1.34773 * 120.63214 * 126.36857 * 17 16 15
19 19 O 1.21513 * 120.00237 * 180.02562 * 18 17 16
20 20 O 1.34641 * 119.99711 * 359.97438 * 18 17 16
21 21 C 1.45201 * 116.99860 * 179.97438 * 20 18 17
22 22 C 1.53008 * 109.46942 * 59.99960 * 21 20 18
23 23 C 1.52997 * 109.47287 * 180.02562 * 21 20 18
24 24 C 1.52999 * 109.47249 * 300.00589 * 21 20 18
25 25 C 1.46923 * 118.73615 * 306.39191 * 17 16 15
26 26 C 1.53040 * 109.45985 * 182.82117 * 13 11 2
27 27 H 1.09003 * 109.49440 * 301.33617 * 26 13 11
28 28 O 1.42901 * 109.50065 * 61.43117 * 26 13 11
29 29 H 1.09004 * 109.47029 * 174.83891 * 1 2 3
30 30 H 1.09002 * 109.47149 * 294.83589 * 1 2 3
31 31 H 1.08989 * 109.47697 * 54.83894 * 1 2 3
32 32 H 0.96999 * 120.00029 * 180.02562 * 6 5 3
33 33 H 1.09006 * 109.47105 * 65.51678 * 14 13 11
34 34 H 1.09007 * 109.47320 * 185.51538 * 14 13 11
35 35 H 1.08993 * 109.47105 * 305.51685 * 14 13 11
36 36 H 1.09002 * 109.49715 * 298.56530 * 15 13 11
37 37 H 1.08995 * 109.49479 * 58.66603 * 15 13 11
38 38 H 1.09004 * 109.58926 * 174.42122 * 16 15 13
39 39 H 1.08993 * 109.59012 * 294.85200 * 16 15 13
40 40 H 1.09001 * 109.46851 * 60.00646 * 22 21 20
41 41 H 1.09004 * 109.46942 * 179.97438 * 22 21 20
42 42 H 1.08995 * 109.47327 * 300.00134 * 22 21 20
43 43 H 1.08997 * 109.47314 * 59.99881 * 23 21 20
44 44 H 1.09000 * 109.47221 * 180.02562 * 23 21 20
45 45 H 1.09006 * 109.47135 * 299.99869 * 23 21 20
46 46 H 1.08995 * 109.47360 * 59.99658 * 24 21 20
47 47 H 1.09004 * 109.47043 * 180.02562 * 24 21 20
48 48 H 1.09004 * 109.46632 * 299.99260 * 24 21 20
49 49 H 1.09006 * 109.58699 * 173.39718 * 25 17 16
50 50 H 1.09006 * 109.58848 * 293.67280 * 25 17 16
51 51 H 0.96703 * 113.99975 * 180.02562 * 28 26 13
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 7 1.4650 0.0000 0.0000
3 6 2.1504 1.1874 0.0000
4 1 3.2278 1.1890 -0.0751
5 6 1.4589 2.3887 0.0967
6 7 0.1598 2.3850 0.2943
7 14 2.3762 4.0091 -0.0541
8 1 3.8207 3.7419 -0.2712
9 1 1.8363 4.7783 -1.2039
10 1 2.2007 4.7951 1.1935
11 6 2.1389 -1.1671 -0.0005
12 8 1.5362 -2.2155 0.0936
13 6 3.6408 -1.1699 -0.1243
14 6 4.2529 -0.4529 1.0806
15 6 4.0478 -0.4454 -1.4096
16 6 5.5759 -0.4200 -1.5146
17 7 6.0800 -1.7963 -1.4122
18 6 6.8977 -2.3002 -2.3576
19 8 7.3075 -3.4401 -2.2618
20 8 7.2597 -1.5408 -3.4089
21 6 8.1429 -2.1487 -4.3881
22 6 7.4675 -3.3843 -4.9866
23 6 8.4419 -1.1412 -5.5001
24 6 9.4505 -2.5610 -3.7090
25 6 5.6752 -2.6129 -0.2599
26 6 4.1460 -2.6138 -0.1692
27 1 3.8357 -3.1361 0.7358
28 8 3.6006 -3.2747 -1.3128
29 1 -0.3633 -1.0235 -0.0924
30 1 -0.3633 0.4316 0.9326
31 1 -0.3634 0.5917 -0.8400
32 1 -0.3230 3.2237 0.3614
33 1 4.0451 -1.0225 1.9865
34 1 5.3311 -0.3683 0.9440
35 1 3.8188 0.5428 1.1699
36 1 3.6327 -0.9702 -2.2701
37 1 3.6676 0.5758 -1.3875
38 1 5.8692 0.0061 -2.4741
39 1 5.9879 0.1812 -0.7042
40 1 6.5360 -3.0905 -5.4704
41 1 8.1304 -3.8403 -5.7220
42 1 7.2549 -4.1018 -4.1942
43 1 8.9232 -0.2613 -5.0734
44 1 9.1046 -1.5977 -6.2353
45 1 7.5105 -0.8472 -5.9840
46 1 9.2379 -3.2785 -2.9165
47 1 10.1137 -3.0169 -4.4441
48 1 9.9317 -1.6807 -3.2826
49 1 6.0341 -3.6338 -0.3914
50 1 6.0975 -2.1920 0.6527
51 1 3.8789 -4.1963 -1.4044
RHF calculation, no. of doubly occupied orbitals= 66
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
ZINC001179055142.mol2 51
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 06:41:13
Heat of formation + Delta-G solvation = -149.740838 kcal
Electronic energy + Delta-G solvation = -33408.395405 eV
Core-core repulsion = 29115.795323 eV
Total energy + Delta-G solvation = -4292.600082 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 342.203 amu
Computer time = 0.81 seconds
Orbital eigenvalues (eV)
-42.17465 -41.26766 -39.33263 -37.76591 -36.96979 -36.35476 -35.15433 -34.34384
-33.18462 -31.43489 -28.93003 -28.31430 -28.24860 -27.90470 -27.01427 -25.58053
-24.31907 -23.14654 -21.45816 -20.63901 -19.83423 -19.49633 -18.67342 -18.03268
-17.53865 -17.42710 -17.09616 -16.29980 -16.16417 -15.93549 -15.82415 -15.66265
-15.60356 -15.16381 -14.95016 -14.80944 -14.37966 -13.96515 -13.90366 -13.58016
-13.43536 -13.32583 -13.14567 -13.01263 -12.97146 -12.90199 -12.81427 -12.73856
-12.70724 -12.55321 -12.48716 -12.33167 -12.20433 -12.05376 -11.90497 -11.68804
-11.33002 -11.13221 -10.98740 -10.91778 -10.85085 -10.18765 -9.81759 -9.52463
-8.13289 -5.78604 1.17239 1.47464 1.53424 1.65184 1.81557 2.12121
2.33653 2.83942 3.01278 3.23212 3.37057 3.72466 3.80622 3.85192
3.87229 3.93107 4.00095 4.11332 4.25123 4.34770 4.50719 4.57418
4.65198 4.66188 4.66783 4.68985 4.69905 4.78672 4.80999 4.88174
4.89392 4.92169 5.02181 5.05677 5.15298 5.16987 5.17792 5.27837
5.33035 5.36516 5.44736 5.47243 5.52354 5.54549 5.67372 5.86162
6.36104 6.49147 6.91328 7.19612 7.32110 7.69740 8.09435 8.82488
Molecular weight = 342.20amu
Principal moments of inertia in cm(-1)
A = 0.014266 B = 0.003746 C = 0.003271
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1962.172431 B = 7473.016883 C = 8557.688391
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.139 3.861
2 N -0.462 5.462
3 C -0.347 4.347
4 H 0.147 0.853
5 C -0.017 4.017
6 N -0.910 5.910
7 Si 0.985 3.015
8 H -0.237 1.237
9 H -0.287 1.287
10 H -0.285 1.285
11 C 0.453 3.547
12 O -0.638 6.638
13 C -0.045 4.045
14 C -0.157 4.157
15 C -0.125 4.125
16 C 0.119 3.881
17 N -0.583 5.583
18 C 0.652 3.348
19 O -0.593 6.593
20 O -0.368 6.368
21 C 0.123 3.877
22 C -0.179 4.179
23 C -0.136 4.136
24 C -0.176 4.176
25 C 0.105 3.895
26 C 0.121 3.879
27 H 0.063 0.937
28 O -0.566 6.566
29 H 0.021 0.979
30 H 0.054 0.946
31 H 0.046 0.954
32 H 0.265 0.735
33 H 0.055 0.945
34 H 0.092 0.908
35 H 0.088 0.912
36 H 0.041 0.959
37 H 0.104 0.896
38 H 0.098 0.902
39 H 0.100 0.900
40 H 0.052 0.948
41 H 0.091 0.909
42 H 0.062 0.938
43 H 0.071 0.929
44 H 0.103 0.897
45 H 0.063 0.937
46 H 0.062 0.938
47 H 0.090 0.910
48 H 0.063 0.937
49 H 0.099 0.901
50 H 0.107 0.893
51 H 0.379 0.621
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 19.286 -2.945 -6.359 20.520
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 -0.004 4.004
2 N -0.179 5.179
3 C -0.473 4.473
4 H 0.164 0.836
5 C -0.217 4.217
6 N -0.550 5.550
7 Si 0.808 3.192
8 H -0.160 1.160
9 H -0.213 1.213
10 H -0.211 1.211
11 C 0.242 3.758
12 O -0.526 6.526
13 C -0.048 4.048
14 C -0.214 4.214
15 C -0.163 4.163
16 C -0.003 4.003
17 N -0.322 5.322
18 C 0.408 3.592
19 O -0.485 6.485
20 O -0.283 6.283
21 C 0.087 3.913
22 C -0.236 4.236
23 C -0.193 4.193
24 C -0.233 4.233
25 C -0.017 4.017
26 C 0.060 3.940
27 H 0.080 0.920
28 O -0.371 6.371
29 H 0.040 0.960
30 H 0.072 0.928
31 H 0.065 0.935
32 H 0.075 0.925
33 H 0.074 0.926
34 H 0.110 0.890
35 H 0.106 0.894
36 H 0.060 0.940
37 H 0.122 0.878
38 H 0.116 0.884
39 H 0.118 0.882
40 H 0.071 0.929
41 H 0.110 0.890
42 H 0.081 0.919
43 H 0.090 0.910
44 H 0.121 0.879
45 H 0.082 0.918
46 H 0.081 0.919
47 H 0.109 0.891
48 H 0.082 0.918
49 H 0.117 0.883
50 H 0.125 0.875
51 H 0.226 0.774
Dipole moment (debyes) X Y Z Total
from point charges 18.710 -3.029 -6.429 20.014
hybrid contribution -0.658 0.021 0.123 0.670
sum 18.051 -3.008 -6.306 19.356
Atomic orbital electron populations
1.21205 0.81314 0.96002 1.01900 1.43919 1.05700 1.05807 1.62513
1.20785 0.94460 0.82329 1.49759 0.83627 1.26270 0.96436 1.03031
0.95994 1.70360 1.08582 1.27686 1.48408 0.84970 0.79859 0.77068
0.77294 1.15973 1.21317 1.21079 1.20598 0.90615 0.82783 0.81779
1.90482 1.71092 1.32862 1.58199 1.20380 0.91059 0.95050 0.98348
1.22265 1.01784 1.02494 0.94856 1.22079 0.96023 1.02694 0.95490
1.21886 0.92530 0.81363 1.04528 1.46893 1.47529 1.15374 1.22443
1.18040 0.78758 0.82599 0.79823 1.90841 1.60019 1.18701 1.78968
1.86316 1.63964 1.45334 1.32640 1.22406 0.88198 0.94128 0.86570
1.22465 1.01263 0.97884 1.02020 1.21880 1.03022 0.98479 0.95908
1.22444 0.95899 1.02551 1.02415 1.22472 0.93877 0.97377 0.87983
1.21885 0.91041 0.92163 0.88871 0.91966 1.86615 1.74326 1.29207
1.46965 0.95994 0.92762 0.93528 0.92534 0.92624 0.88977 0.89378
0.94016 0.87828 0.88355 0.88238 0.92874 0.88978 0.91925 0.90966
0.87872 0.91812 0.91855 0.89111 0.91805 0.88295 0.87498 0.77364
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 C 0.14 7.38 8.85 127.77 1.13 8.51 16
2 N -0.46 -23.43 3.02 -658.90 -1.99 -25.42 16
3 C -0.35 -16.17 6.79 84.04 0.57 -15.60 16
4 H 0.15 5.89 3.01 -2.91 -0.01 5.88 16
5 C -0.02 -0.82 5.42 84.93 0.46 -0.36 16
6 N -0.91 -47.01 9.52 21.66 0.21 -46.81 16
7 Si 0.98 36.52 29.56 68.60 2.03 38.55 16
8 H -0.24 -7.62 7.11 99.48 0.71 -6.92 16
9 H -0.29 -10.94 7.11 99.48 0.71 -10.23 16
10 H -0.28 -10.71 7.11 99.48 0.71 -10.00 16
11 C 0.45 22.03 6.31 87.66 0.55 22.58 16
12 O -0.64 -35.32 14.73 12.72 0.19 -35.13 16
13 C -0.05 -1.65 0.33 -52.90 -0.02 -1.67 16
14 C -0.16 -4.77 7.35 71.98 0.53 -4.24 16
15 C -0.12 -4.27 4.43 30.67 0.14 -4.13 16
16 C 0.12 3.10 5.98 86.36 0.52 3.61 16
17 N -0.58 -15.87 2.91 -949.24 -2.77 -18.63 16
18 C 0.65 18.92 7.74 129.79 1.00 19.92 16
19 O -0.59 -18.75 11.29 19.80 0.22 -18.53 16
20 O -0.37 -9.64 8.53 -55.51 -0.47 -10.11 16
21 C 0.12 2.53 1.13 -10.79 -0.01 2.52 16
22 C -0.18 -3.81 8.37 71.98 0.60 -3.21 16
23 C -0.14 -1.96 8.85 71.98 0.64 -1.32 16
24 C -0.18 -3.29 8.37 71.98 0.60 -2.69 16
25 C 0.10 2.68 5.61 86.36 0.48 3.17 16
26 C 0.12 3.97 2.30 30.67 0.07 4.05 16
27 H 0.06 2.12 8.04 -2.39 -0.02 2.10 16
28 O -0.57 -21.07 11.57 -133.20 -1.54 -22.61 16
29 H 0.02 1.16 6.95 -2.38 -0.02 1.14 16
30 H 0.05 2.96 6.94 -2.39 -0.02 2.94 16
31 H 0.05 2.51 7.18 -2.39 -0.02 2.50 16
32 H 0.26 13.03 8.31 -92.71 -0.77 12.26 16
33 H 0.05 1.66 8.14 -2.38 -0.02 1.64 16
34 H 0.09 2.08 5.00 -2.38 -0.01 2.07 16
35 H 0.09 3.00 4.75 -2.39 -0.01 2.99 16
36 H 0.04 1.67 7.61 -2.39 -0.02 1.65 16
37 H 0.10 3.75 4.75 -2.39 -0.01 3.74 16
38 H 0.10 2.43 6.93 -2.38 -0.02 2.41 16
39 H 0.10 2.11 6.57 -2.39 -0.02 2.09 16
40 H 0.05 1.18 8.14 -2.39 -0.02 1.16 16
41 H 0.09 1.44 8.14 -2.38 -0.02 1.42 16
42 H 0.06 1.68 5.88 -2.39 -0.01 1.66 16
43 H 0.07 0.97 8.14 -2.39 -0.02 0.95 16
44 H 0.10 0.97 8.14 -2.39 -0.02 0.95 16
45 H 0.06 0.98 8.14 -2.38 -0.02 0.96 16
46 H 0.06 1.53 5.88 -2.39 -0.01 1.52 16
47 H 0.09 1.24 8.14 -2.38 -0.02 1.22 16
48 H 0.06 1.11 8.14 -2.38 -0.02 1.09 16
49 H 0.10 2.51 7.00 -2.38 -0.02 2.49 16
50 H 0.11 2.20 6.83 -2.38 -0.02 2.19 16
51 H 0.38 11.09 9.08 -74.06 -0.67 10.42 16
Total: -1.00 -68.69 376.12 3.44 -65.25
By element:
Atomic # 1 Polarization: 42.00 SS G_CDS: 0.30 Total: 42.29 kcal
Atomic # 6 Polarization: 23.87 SS G_CDS: 7.27 Total: 31.14 kcal
Atomic # 7 Polarization: -86.31 SS G_CDS: -4.55 Total: -90.86 kcal
Atomic # 8 Polarization: -84.77 SS G_CDS: -1.60 Total: -86.37 kcal
Atomic # 14 Polarization: 36.52 SS G_CDS: 2.03 Total: 38.55 kcal
Total: -68.69 3.44 -65.25 kcal
The number of atoms in the molecule is 51
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.
ZINC001179055142.mol2 51
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 -84.488 kcal
(2) G-P(sol) polarization free energy of solvation -68.692 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -153.180 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.439 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -65.253 kcal
(6) G-S(sol) free energy of system = (1) + (5) -149.741 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.81 seconds