Wall clock time and date at job start Tue Mar 31 2020 12:41:09
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 C 1.52997 * 109.47311 * 2 1
4 4 N 1.46503 * 109.47615 * 180.02562 * 3 2 1
5 5 C 1.36938 * 119.99492 * 272.19929 * 4 3 2
6 6 H 1.07999 * 120.00408 * 8.53166 * 5 4 3
7 7 C 1.38816 * 119.99476 * 188.53442 * 5 4 3
8 8 N 1.31620 * 120.00408 * 24.79487 * 7 5 4
9 9 Si 1.86800 * 119.99773 * 204.79988 * 7 5 4
10 10 H 1.48503 * 109.47209 * 359.97438 * 9 7 5
11 11 H 1.48500 * 109.47378 * 120.00026 * 9 7 5
12 12 H 1.48501 * 109.47212 * 239.99973 * 9 7 5
13 13 C 1.46495 * 120.00198 * 92.19163 * 4 3 2
14 14 C 1.50703 * 109.47117 * 90.00266 * 13 4 3
15 15 O 1.21288 * 119.99657 * 0.02562 * 14 13 4
16 16 N 1.34776 * 119.99998 * 179.97438 * 14 13 4
17 17 C 1.46496 * 119.99650 * 180.02562 * 16 14 13
18 18 H 1.09002 * 109.47472 * 324.99996 * 17 16 14
19 19 C 1.53002 * 109.47470 * 85.00272 * 17 16 14
20 20 C 1.50706 * 109.47078 * 205.00176 * 17 16 14
21 21 C 1.38233 * 120.00141 * 140.00452 * 20 17 16
22 22 C 1.38237 * 120.00021 * 180.02562 * 21 20 17
23 23 C 1.38239 * 119.99626 * 359.97438 * 22 21 20
24 24 C 1.50701 * 119.99356 * 179.97438 * 23 22 21
25 25 C 1.52999 * 109.47185 * 90.00229 * 24 23 22
26 26 C 1.38232 * 120.00266 * 0.25035 * 23 22 21
27 27 C 1.38236 * 119.99932 * 359.47714 * 26 23 22
28 28 H 1.09002 * 109.46895 * 300.00218 * 1 2 3
29 29 H 1.09003 * 109.46848 * 60.00123 * 1 2 3
30 30 H 1.08991 * 109.46781 * 179.97438 * 1 2 3
31 31 H 1.08996 * 109.47184 * 240.00104 * 2 1 3
32 32 H 1.08998 * 109.47515 * 120.00137 * 2 1 3
33 33 H 1.09002 * 109.47319 * 60.00042 * 3 2 1
34 34 H 1.09007 * 109.46980 * 300.00229 * 3 2 1
35 35 H 0.96992 * 120.00230 * 180.02562 * 8 7 5
36 36 H 1.09002 * 109.47312 * 330.00497 * 13 4 3
37 37 H 1.08997 * 109.47478 * 210.00808 * 13 4 3
38 38 H 0.97001 * 120.00163 * 0.02562 * 16 14 13
39 39 H 1.09002 * 109.46998 * 59.99434 * 19 17 16
40 40 H 1.08992 * 109.47371 * 180.02562 * 19 17 16
41 41 H 1.08998 * 109.46624 * 300.00103 * 19 17 16
42 42 H 1.07999 * 120.00190 * 359.97438 * 21 20 17
43 43 H 1.07993 * 119.99963 * 179.97438 * 22 21 20
44 44 H 1.08994 * 109.47381 * 329.99319 * 24 23 22
45 45 H 1.09005 * 109.46938 * 209.99438 * 24 23 22
46 46 H 1.09005 * 109.46537 * 299.99455 * 25 24 23
47 47 H 1.09004 * 109.47239 * 179.97438 * 25 24 23
48 48 H 1.08994 * 109.47704 * 59.99287 * 25 24 23
49 49 H 1.07996 * 119.99892 * 179.72873 * 26 23 22
50 50 H 1.08000 * 120.00328 * 180.27627 * 27 26 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 6 2.0401 1.4425 0.0000
4 7 3.5051 1.4425 -0.0006
5 6 4.1902 1.3969 1.1842
6 1 3.6595 1.2224 2.1085
7 6 5.5668 1.5750 1.1971
8 7 6.1527 2.2469 0.2288
9 14 6.5879 0.8609 2.5889
10 1 5.6970 0.1558 3.5451
11 1 7.5780 -0.0974 2.0352
12 1 7.3004 1.9571 3.2931
13 6 4.2371 1.4913 -1.2686
14 6 4.4881 2.9278 -1.6489
15 8 4.0947 3.8227 -0.9310
16 7 5.1506 3.2180 -2.7861
17 6 5.3951 4.6144 -3.1554
18 1 4.5485 5.2262 -2.8438
19 6 6.6655 5.1105 -2.4619
20 6 5.5657 4.7165 -4.6493
21 6 5.0124 5.7802 -5.3371
22 6 5.1685 5.8736 -6.7074
23 6 5.8784 4.9033 -7.3898
24 6 6.0480 5.0048 -8.8838
25 6 7.3197 5.7945 -9.2002
26 6 6.4277 3.8371 -6.7026
27 6 6.2764 3.7468 -5.3316
28 1 -0.3633 0.5139 0.8900
29 1 -0.3633 0.5138 -0.8900
30 1 -0.3632 -1.0276 -0.0005
31 1 1.8934 -0.5138 -0.8900
32 1 1.8934 -0.5138 0.8899
33 1 1.6768 1.9563 0.8900
34 1 1.6767 1.9563 -0.8900
35 1 7.1146 2.3710 0.2377
36 1 3.6477 1.0070 -2.0473
37 1 5.1895 0.9728 -1.1586
38 1 5.4656 2.5022 -3.3601
39 1 7.5121 4.4987 -2.7735
40 1 6.8471 6.1496 -2.7363
41 1 6.5420 5.0366 -1.3815
42 1 4.4575 6.5380 -4.8040
43 1 4.7359 6.7044 -7.2448
44 1 5.1865 5.5159 -9.3134
45 1 6.1263 4.0044 -9.3094
46 1 7.2413 6.7950 -8.7747
47 1 7.4426 5.8675 -10.2808
48 1 8.1812 5.2834 -8.7706
49 1 6.9785 3.0769 -7.2364
50 1 6.7094 2.9161 -4.7940
RHF calculation, no. of doubly occupied orbitals= 61
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
ZINC000049981150.mol2 50
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 12:41:09
Heat of formation + Delta-G solvation = -20.280553 kcal
Electronic energy + Delta-G solvation = -27059.784399 eV
Core-core repulsion = 23472.392432 eV
Total energy + Delta-G solvation = -3587.391967 eV
No. of doubly occupied orbitals = 61
Molecular weight
(most abundant/longest-lived isotopes) = 318.205 amu
Computer time = 0.95 seconds
Orbital eigenvalues (eV)
-40.89353 -39.82249 -37.70692 -36.45792 -34.60657 -34.29736 -32.46308 -31.94674
-31.63481 -29.41077 -28.53384 -27.27514 -25.31804 -24.03815 -23.72140 -22.90470
-21.87359 -21.26395 -20.77079 -18.90381 -17.88246 -17.30600 -16.89335 -16.45696
-16.11107 -15.92764 -15.69952 -15.47885 -15.20689 -14.71513 -14.66449 -14.56283
-14.44838 -14.26535 -14.06807 -13.94204 -13.50379 -13.31691 -13.28391 -13.07854
-12.93417 -12.63126 -12.52928 -12.44215 -12.25612 -12.17313 -12.03304 -12.01957
-11.92289 -11.73054 -11.62240 -11.56342 -11.35871 -10.65718 -10.19391 -9.80393
-9.68487 -9.40127 -8.79929 -7.82871 -5.08846 0.40468 0.52300 1.46205
1.49680 1.58884 2.46624 2.53272 2.72288 2.94961 3.31570 3.68227
3.70121 3.92311 3.99034 4.15852 4.24074 4.25430 4.38415 4.42762
4.45854 4.54920 4.56992 4.61261 4.65777 4.68558 4.75293 4.78403
4.79735 4.88614 4.94845 5.06910 5.08960 5.12488 5.14196 5.22779
5.25191 5.29565 5.29863 5.32392 5.43026 5.44612 5.54572 5.64264
5.68080 5.70527 5.75439 6.03415 6.13040 6.30399 7.03310 7.21931
7.86445 8.09718 8.31712 9.23769
Molecular weight = 318.20amu
Principal moments of inertia in cm(-1)
A = 0.014713 B = 0.003163 C = 0.002800
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1902.653787 B = 8850.218058 C = 9999.279165
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.140 4.140
2 C -0.129 4.129
3 C 0.151 3.849
4 N -0.592 5.592
5 C -0.253 4.253
6 H 0.068 0.932
7 C -0.049 4.049
8 N -0.909 5.909
9 Si 0.959 3.041
10 H -0.274 1.274
11 H -0.286 1.286
12 H -0.306 1.306
13 C 0.164 3.836
14 C 0.533 3.467
15 O -0.584 6.584
16 N -0.730 5.730
17 C 0.194 3.806
18 H 0.059 0.941
19 C -0.138 4.138
20 C -0.096 4.096
21 C -0.120 4.120
22 C -0.118 4.118
23 C -0.088 4.088
24 C -0.082 4.082
25 C -0.145 4.145
26 C -0.118 4.118
27 C -0.116 4.116
28 H 0.050 0.950
29 H 0.057 0.943
30 H 0.066 0.934
31 H 0.056 0.944
32 H 0.046 0.954
33 H 0.027 0.973
34 H 0.037 0.963
35 H 0.244 0.756
36 H 0.065 0.935
37 H 0.085 0.915
38 H 0.398 0.602
39 H 0.057 0.943
40 H 0.068 0.932
41 H 0.028 0.972
42 H 0.124 0.876
43 H 0.141 0.859
44 H 0.080 0.920
45 H 0.080 0.920
46 H 0.051 0.949
47 H 0.071 0.929
48 H 0.050 0.950
49 H 0.141 0.859
50 H 0.124 0.876
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -0.803 2.176 -19.910 20.045
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 -0.198 4.198
2 C -0.169 4.169
3 C 0.025 3.975
4 N -0.311 5.311
5 C -0.383 4.383
6 H 0.086 0.914
7 C -0.244 4.244
8 N -0.556 5.556
9 Si 0.789 3.211
10 H -0.199 1.199
11 H -0.212 1.212
12 H -0.234 1.234
13 C 0.034 3.966
14 C 0.321 3.679
15 O -0.462 6.462
16 N -0.384 5.384
17 C 0.088 3.912
18 H 0.077 0.923
19 C -0.197 4.197
20 C -0.097 4.097
21 C -0.138 4.138
22 C -0.136 4.136
23 C -0.088 4.088
24 C -0.119 4.119
25 C -0.203 4.203
26 C -0.136 4.136
27 C -0.134 4.134
28 H 0.069 0.931
29 H 0.076 0.924
30 H 0.085 0.915
31 H 0.075 0.925
32 H 0.065 0.935
33 H 0.046 0.954
34 H 0.055 0.945
35 H 0.054 0.946
36 H 0.083 0.917
37 H 0.103 0.897
38 H 0.233 0.767
39 H 0.076 0.924
40 H 0.087 0.913
41 H 0.047 0.953
42 H 0.142 0.858
43 H 0.159 0.841
44 H 0.099 0.901
45 H 0.099 0.901
46 H 0.070 0.930
47 H 0.090 0.910
48 H 0.069 0.931
49 H 0.158 0.842
50 H 0.142 0.858
Dipole moment (debyes) X Y Z Total
from point charges -0.969 2.829 -19.347 19.577
hybrid contribution 1.058 -0.178 1.219 1.624
sum 0.089 2.651 -18.128 18.321
Atomic orbital electron populations
1.21665 0.94371 1.02063 1.01686 1.21927 0.96137 0.97643 1.01191
1.20899 0.82815 0.95312 0.98432 1.44127 1.01037 1.84027 1.01945
1.19412 0.90180 1.41475 0.87185 0.91436 1.25297 0.98113 1.00443
1.00521 1.70077 1.08694 1.40820 1.36040 0.85338 0.78780 0.77589
0.79428 1.19932 1.21243 1.23418 1.20681 0.97683 0.91271 0.86955
1.22065 0.74409 0.93436 0.78029 1.90467 1.54178 1.50274 1.51279
1.46134 1.60386 1.06934 1.24989 1.19428 0.97024 0.84373 0.90347
0.92330 1.21947 0.97330 1.00885 0.99499 1.19889 0.99420 0.96709
0.93661 1.21140 0.99809 0.97795 0.95060 1.21217 0.99415 0.99545
0.93424 1.20222 0.97061 0.94447 0.97119 1.20579 0.99440 1.02118
0.89780 1.21739 0.96679 0.99848 1.01990 1.21234 1.00124 0.98717
0.93482 1.21046 0.98760 0.98640 0.94995 0.93116 0.92409 0.91503
0.92494 0.93505 0.95437 0.94497 0.94619 0.91704 0.89679 0.76678
0.92391 0.91269 0.95259 0.85832 0.84142 0.90121 0.90115 0.93008
0.91048 0.93058 0.84151 0.85834
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 17.
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 -3.76 9.91 71.98 0.71 -3.04 16
2 C -0.13 -4.49 6.25 30.59 0.19 -4.30 16
3 C 0.15 6.52 5.67 86.38 0.49 7.01 16
4 N -0.59 -30.04 2.02 -706.33 -1.43 -31.47 16
5 C -0.25 -14.16 9.70 84.03 0.82 -13.35 16
6 H 0.07 3.80 7.94 -2.91 -0.02 3.77 16
7 C -0.05 -2.71 4.90 84.86 0.42 -2.30 16
8 N -0.91 -51.90 8.96 21.65 0.19 -51.71 16
9 Si 0.96 45.89 29.62 68.60 2.03 47.92 16
10 H -0.27 -12.73 7.11 99.48 0.71 -12.02 16
11 H -0.29 -13.34 7.11 99.48 0.71 -12.63 16
12 H -0.31 -15.13 7.11 99.48 0.71 -14.42 16
13 C 0.16 7.69 5.42 85.64 0.46 8.15 16
14 C 0.53 25.66 5.86 87.66 0.51 26.17 16
15 O -0.58 -33.84 15.82 -3.05 -0.05 -33.89 16
16 N -0.73 -28.02 5.03 -446.08 -2.24 -30.26 16
17 C 0.19 6.87 2.78 44.25 0.12 6.99 16
18 H 0.06 2.36 7.44 -2.39 -0.02 2.34 16
19 C -0.14 -5.03 9.46 71.98 0.68 -4.35 16
20 C -0.10 -2.69 4.95 -19.86 -0.10 -2.79 16
21 C -0.12 -2.96 9.67 22.27 0.22 -2.74 16
22 C -0.12 -2.38 9.70 22.27 0.22 -2.16 16
23 C -0.09 -1.65 5.13 -19.87 -0.10 -1.75 16
24 C -0.08 -1.05 6.07 29.85 0.18 -0.87 16
25 C -0.15 -1.72 9.89 71.98 0.71 -1.01 16
26 C -0.12 -2.37 9.70 22.27 0.22 -2.15 16
27 C -0.12 -2.84 9.05 22.27 0.20 -2.64 16
28 H 0.05 1.35 8.14 -2.39 -0.02 1.33 16
29 H 0.06 1.44 8.14 -2.39 -0.02 1.42 16
30 H 0.07 1.52 8.14 -2.39 -0.02 1.50 16
31 H 0.06 1.91 8.14 -2.39 -0.02 1.89 16
32 H 0.05 1.75 8.14 -2.39 -0.02 1.73 16
33 H 0.03 1.25 8.06 -2.39 -0.02 1.23 16
34 H 0.04 1.54 8.06 -2.38 -0.02 1.53 16
35 H 0.24 13.78 8.31 -92.71 -0.77 13.01 16
36 H 0.07 2.57 8.07 -2.39 -0.02 2.55 16
37 H 0.09 4.27 6.29 -2.39 -0.02 4.25 16
38 H 0.40 13.01 6.87 -92.71 -0.64 12.37 16
39 H 0.06 1.98 8.14 -2.39 -0.02 1.96 16
40 H 0.07 2.16 8.14 -2.39 -0.02 2.14 16
41 H 0.03 1.32 8.14 -2.39 -0.02 1.30 16
42 H 0.12 2.90 8.04 -2.91 -0.02 2.88 16
43 H 0.14 2.14 8.06 -2.91 -0.02 2.12 16
44 H 0.08 0.89 8.08 -2.39 -0.02 0.87 16
45 H 0.08 0.89 8.08 -2.38 -0.02 0.88 16
46 H 0.05 0.66 8.14 -2.38 -0.02 0.64 16
47 H 0.07 0.64 8.14 -2.39 -0.02 0.62 16
48 H 0.05 0.66 8.14 -2.39 -0.02 0.64 16
49 H 0.14 2.17 8.06 -2.91 -0.02 2.15 16
50 H 0.12 2.92 6.92 -2.91 -0.02 2.90 16
Total: -1.00 -70.31 404.74 4.71 -65.60
By element:
Atomic # 1 Polarization: 28.67 SS G_CDS: 0.26 Total: 28.93 kcal
Atomic # 6 Polarization: -1.08 SS G_CDS: 5.95 Total: 4.87 kcal
Atomic # 7 Polarization: -109.96 SS G_CDS: -3.48 Total: -113.43 kcal
Atomic # 8 Polarization: -33.84 SS G_CDS: -0.05 Total: -33.89 kcal
Atomic # 14 Polarization: 45.89 SS G_CDS: 2.03 Total: 47.92 kcal
Total: -70.31 4.71 -65.60 kcal
The number of atoms in the molecule is 50
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.
ZINC000049981150.mol2 50
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 45.316 kcal
(2) G-P(sol) polarization free energy of solvation -70.311 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -24.995 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.714 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -65.597 kcal
(6) G-S(sol) free energy of system = (1) + (5) -20.281 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.95 seconds