Wall clock time and date at job start Sat Apr 11 2020 07:09:16
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 1.31616 * 1
3 3 Si 1.86805 * 119.99772 * 2 1
4 4 H 1.48498 * 109.47324 * 270.00191 * 3 2 1
5 5 H 1.48499 * 109.46948 * 29.99970 * 3 2 1
6 6 H 1.48494 * 109.47256 * 149.99612 * 3 2 1
7 7 C 1.38806 * 120.00427 * 180.02562 * 2 1 3
8 8 H 1.07996 * 120.00154 * 359.97438 * 7 2 1
9 9 N 1.36937 * 120.00115 * 180.02562 * 7 2 1
10 10 C 1.46508 * 120.00112 * 179.97438 * 9 7 2
11 11 C 1.53003 * 109.46967 * 175.02176 * 10 9 7
12 12 N 1.46499 * 109.54650 * 305.59000 * 11 10 9
13 13 C 1.34780 * 119.99307 * 304.15961 * 12 11 10
14 14 O 1.21575 * 120.00609 * 354.68035 * 13 12 11
15 15 C 1.47605 * 119.99534 * 174.68596 * 13 12 11
16 16 C 1.38564 * 119.74135 * 0.02562 * 15 13 12
17 17 N 1.33774 * 122.05617 * 180.02562 * 16 15 13
18 18 H 0.97004 * 119.63001 * 179.97438 * 17 16 15
19 19 C 1.37228 * 120.73821 * 359.95289 * 17 16 15
20 20 N 1.31998 * 134.47292 * 180.02562 * 19 17 16
21 21 C 1.33404 * 110.93611 * 179.97438 * 20 19 17
22 22 C 1.35788 * 110.88926 * 359.97438 * 21 20 19
23 23 C 1.41386 * 106.45092 * 0.02562 * 22 21 20
24 24 C 1.38754 * 135.64813 * 180.02562 * 23 22 21
25 25 C 1.53182 * 109.54154 * 65.76503 * 11 10 9
26 26 C 1.53273 * 109.06273 * 176.84716 * 25 11 10
27 27 O 1.42903 * 109.46543 * 302.44666 * 26 25 11
28 28 C 1.42904 * 114.09553 * 61.15767 * 27 26 25
29 29 C 1.53092 * 109.41472 * 298.84170 * 28 27 26
30 30 H 0.96997 * 120.00554 * 359.97438 * 1 2 3
31 31 H 0.97003 * 120.00304 * 359.97438 * 9 7 2
32 32 H 1.08998 * 109.46640 * 55.02766 * 10 9 7
33 33 H 1.08994 * 109.46977 * 295.02271 * 10 9 7
34 34 H 0.96989 * 120.00066 * 124.15895 * 12 11 10
35 35 H 1.08000 * 118.97151 * 359.97438 * 16 15 13
36 36 H 1.08000 * 124.55933 * 179.97438 * 21 20 19
37 37 H 1.08000 * 126.77311 * 179.97438 * 22 21 20
38 38 H 1.08001 * 120.73609 * 359.70171 * 24 23 22
39 39 H 1.09000 * 109.52185 * 296.83997 * 25 11 10
40 40 H 1.09001 * 109.52222 * 57.02615 * 25 11 10
41 41 H 1.09004 * 109.46261 * 182.44926 * 26 25 11
42 42 H 1.09002 * 109.46760 * 62.44818 * 26 25 11
43 43 H 1.08997 * 109.48174 * 178.86635 * 28 27 26
44 44 H 1.08996 * 109.49104 * 58.83094 * 28 27 26
45 45 H 1.09000 * 109.52933 * 297.70770 * 29 28 27
46 46 H 1.08997 * 109.57957 * 177.54565 * 29 28 27
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 1.3162 0.0000 0.0000
3 14 2.2501 1.6178 0.0000
4 1 2.4976 2.0466 -1.4000
5 1 1.4475 2.6527 0.7000
6 1 3.5476 1.4404 0.7001
7 6 2.0103 -1.2020 -0.0005
8 1 1.4704 -2.1374 -0.0005
9 7 3.3796 -1.2020 0.0000
10 6 4.1123 -2.4707 0.0000
11 6 5.6119 -2.1937 -0.1245
12 7 5.8606 -1.3640 -1.3060
13 6 5.4352 -1.7726 -2.5179
14 8 4.9318 -2.8717 -2.6469
15 6 5.5806 -0.8855 -3.6887
16 6 6.1557 0.3658 -3.5358
17 7 6.3097 1.2069 -4.5646
18 1 6.7167 2.0751 -4.4175
19 6 5.8988 0.8552 -5.8258
20 7 5.9162 1.4505 -7.0037
21 6 5.3840 0.6660 -7.9423
22 6 4.9799 -0.5171 -7.4124
23 6 5.2851 -0.4631 -6.0329
24 6 5.1369 -1.3174 -4.9497
25 6 6.1035 -1.4619 1.1281
26 6 7.6195 -1.2600 1.0274
27 8 8.2595 -2.5283 0.8719
28 6 7.8721 -3.2365 -0.3073
29 6 6.3682 -3.5188 -0.2604
30 1 -0.4851 0.8400 0.0004
31 1 3.8647 -0.3619 0.0004
32 1 3.7841 -3.0796 -0.8424
33 1 3.9172 -3.0029 0.9310
34 1 6.3312 -0.5207 -1.2161
35 1 6.4892 0.6720 -2.5553
36 1 5.2875 0.9355 -8.9837
37 1 4.5160 -1.3372 -7.9403
38 1 4.6854 -2.2909 -5.0723
39 1 5.6090 -0.4933 1.2018
40 1 5.8735 -2.0574 2.0117
41 1 7.9829 -0.7785 1.9353
42 1 7.8458 -0.6307 0.1666
43 1 8.4172 -4.1788 -0.3609
44 1 8.1015 -2.6333 -1.1857
45 1 6.1435 -4.1557 0.5951
46 1 6.0619 -4.0204 -1.1783
RHF calculation, no. of doubly occupied orbitals= 64
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
ZINC001733830882.mol2 46
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 07:09:16
Heat of formation + Delta-G solvation = 4.039551 kcal
Electronic energy + Delta-G solvation = -31196.882229 eV
Core-core repulsion = 27087.407663 eV
Total energy + Delta-G solvation = -4109.474566 eV
No. of doubly occupied orbitals = 64
Molecular weight
(most abundant/longest-lived isotopes) = 344.164 amu
Computer time = 0.98 seconds
Orbital eigenvalues (eV)
-42.61873 -41.72164 -39.75561 -38.91798 -37.34282 -35.56160 -34.94139 -33.53871
-32.65530 -32.04586 -30.44700 -29.89347 -28.46181 -25.37086 -25.20193 -24.97769
-24.41044 -22.99540 -22.54923 -21.52039 -20.58348 -19.78288 -19.16403 -18.42036
-17.82004 -17.47782 -17.05443 -16.94437 -16.71741 -16.46631 -16.40461 -15.94711
-15.83565 -15.44060 -15.27573 -15.09562 -14.78932 -14.47634 -14.14837 -13.96568
-13.73715 -13.55328 -13.47602 -13.30915 -13.09410 -12.89208 -12.84252 -12.78152
-12.25943 -12.12885 -11.86370 -11.83446 -11.72061 -11.39529 -11.06440 -10.78351
-10.63203 -10.53470 -10.00824 -9.27950 -9.23699 -8.89071 -8.01163 -5.34757
-0.85389 -0.09379 1.27963 1.28027 1.39627 1.48108 1.77653 2.01762
2.34729 2.48791 2.57323 3.02182 3.12358 3.29065 3.34092 3.46145
3.50036 3.66740 3.82464 3.84628 3.98182 4.05849 4.10141 4.13832
4.31629 4.45931 4.55083 4.66198 4.77224 4.78176 4.84205 4.85434
4.88067 4.90479 4.94848 5.09542 5.15383 5.18117 5.23315 5.26175
5.54094 5.59114 5.74724 5.76747 6.06590 6.20385 6.31736 6.52897
6.96107 7.09240 7.23466 7.81339 8.07271 9.21171
Molecular weight = 344.16amu
Principal moments of inertia in cm(-1)
A = 0.007996 B = 0.004913 C = 0.003590
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 3500.710259 B = 5697.965732 C = 7798.005884
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.990 5.990
2 C -0.071 4.071
3 Si 0.956 3.044
4 H -0.278 1.278
5 H -0.302 1.302
6 H -0.228 1.228
7 C -0.230 4.230
8 H 0.041 0.959
9 N -0.739 5.739
10 C 0.145 3.855
11 C 0.183 3.817
12 N -0.706 5.706
13 C 0.584 3.416
14 O -0.557 6.557
15 C -0.247 4.247
16 C 0.215 3.785
17 N -0.467 5.467
18 H 0.447 0.553
19 C 0.227 3.773
20 N -0.553 5.553
21 C 0.031 3.969
22 C -0.232 4.232
23 C -0.201 4.201
24 C 0.084 3.916
25 C -0.154 4.154
26 C 0.062 3.938
27 O -0.394 6.394
28 C 0.072 3.928
29 C -0.159 4.159
30 H 0.256 0.744
31 H 0.368 0.632
32 H 0.028 0.972
33 H 0.023 0.977
34 H 0.409 0.591
35 H 0.233 0.767
36 H 0.179 0.821
37 H 0.150 0.850
38 H 0.140 0.860
39 H 0.085 0.915
40 H 0.084 0.916
41 H 0.115 0.885
42 H 0.073 0.927
43 H 0.102 0.898
44 H 0.060 0.940
45 H 0.077 0.923
46 H 0.078 0.922
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 23.984 2.239 -3.547 24.348
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 -0.641 5.641
2 C -0.261 4.261
3 Si 0.782 3.218
4 H -0.204 1.204
5 H -0.229 1.229
6 H -0.152 1.152
7 C -0.361 4.361
8 H 0.059 0.941
9 N -0.385 5.385
10 C 0.018 3.982
11 C 0.096 3.904
12 N -0.360 5.360
13 C 0.372 3.628
14 O -0.436 6.436
15 C -0.257 4.257
16 C 0.068 3.932
17 N -0.061 5.061
18 H 0.290 0.710
19 C -0.022 4.022
20 N -0.273 5.273
21 C -0.111 4.111
22 C -0.255 4.255
23 C -0.209 4.209
24 C 0.060 3.940
25 C -0.192 4.192
26 C -0.015 4.015
27 O -0.313 6.313
28 C -0.004 4.004
29 C -0.198 4.198
30 H 0.064 0.936
31 H 0.203 0.797
32 H 0.046 0.954
33 H 0.041 0.959
34 H 0.247 0.753
35 H 0.249 0.751
36 H 0.196 0.804
37 H 0.168 0.832
38 H 0.158 0.842
39 H 0.103 0.897
40 H 0.103 0.897
41 H 0.133 0.867
42 H 0.091 0.909
43 H 0.121 0.879
44 H 0.078 0.922
45 H 0.096 0.904
46 H 0.097 0.903
Dipole moment (debyes) X Y Z Total
from point charges 23.925 2.281 -3.847 24.339
hybrid contribution -1.195 0.538 -0.210 1.327
sum 22.729 2.819 -4.057 23.260
Atomic orbital electron populations
1.69922 1.07624 1.26625 1.59881 1.25622 0.96164 1.01726 1.02635
0.85398 0.79591 0.78680 0.78114 1.20406 1.22903 1.15173 1.18935
0.83049 0.92994 1.41131 0.94105 1.42312 1.01826 1.03554 1.90841
1.21115 0.90559 0.88199 0.98330 1.20452 0.93181 0.91700 0.85026
1.45705 1.59597 1.24905 1.05819 1.17654 0.76965 0.85621 0.82587
1.90753 1.44788 1.22766 1.85265 1.19318 1.14500 0.97129 0.94741
1.22904 0.89748 0.87848 0.92699 1.40272 1.43992 1.18399 1.03474
0.71049 1.20607 1.01122 0.93210 0.87223 1.69472 1.26201 1.34117
0.97465 1.22683 0.98539 0.91175 0.98743 1.21706 1.09932 1.01564
0.92256 1.20275 1.09199 0.95523 0.95857 1.21478 0.85052 0.97784
0.89681 1.22512 0.98180 1.02168 0.96383 1.22791 0.89660 0.85284
1.03734 1.87933 1.66323 1.32842 1.44187 1.22515 0.92777 0.97520
0.87618 1.22490 0.96812 0.96497 1.03980 0.93564 0.79710 0.95364
0.95918 0.75273 0.75115 0.80384 0.83219 0.84188 0.89661 0.89739
0.86720 0.90885 0.87944 0.92181 0.90447 0.90345
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 18.
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 -0.99 -63.79 13.97 21.65 0.30 -63.48 16
2 C -0.07 -4.10 5.50 84.86 0.47 -3.63 16
3 Si 0.96 41.82 27.74 68.60 1.90 43.72 16
4 H -0.28 -11.74 7.11 99.48 0.71 -11.03 16
5 H -0.30 -13.80 7.11 99.48 0.71 -13.09 16
6 H -0.23 -7.97 6.52 99.48 0.65 -7.33 16
7 C -0.23 -13.01 10.47 84.03 0.88 -12.13 16
8 H 0.04 2.65 8.06 -2.91 -0.02 2.63 16
9 N -0.74 -31.85 5.02 -343.45 -1.72 -33.57 16
10 C 0.15 5.38 4.79 86.38 0.41 5.79 16
11 C 0.18 4.44 0.32 3.73 0.00 4.44 16
12 N -0.71 -14.11 3.69 -425.43 -1.57 -15.68 16
13 C 0.58 15.27 7.17 86.72 0.62 15.89 16
14 O -0.56 -19.56 12.64 -3.95 -0.05 -19.61 16
15 C -0.25 -5.47 5.86 -20.18 -0.12 -5.59 16
16 C 0.22 2.69 10.64 84.48 0.90 3.59 16
17 N -0.47 -6.73 5.27 -186.74 -0.98 -7.71 16
18 H 0.45 2.88 8.91 -92.71 -0.83 2.06 16
19 C 0.23 5.77 8.64 135.82 1.17 6.94 16
20 N -0.55 -16.02 11.16 -188.99 -2.11 -18.13 16
21 C 0.03 0.85 11.69 83.89 0.98 1.83 16
22 C -0.23 -6.41 10.99 22.48 0.25 -6.16 16
23 C -0.20 -5.64 6.41 -20.12 -0.13 -5.77 16
24 C 0.08 2.26 9.71 22.94 0.22 2.49 16
25 C -0.15 -2.96 4.84 30.75 0.15 -2.81 16
26 C 0.06 0.80 6.67 72.07 0.48 1.28 16
27 O -0.39 -6.99 10.77 -148.98 -1.60 -8.60 16
28 C 0.07 1.23 6.68 72.01 0.48 1.71 16
29 C -0.16 -3.59 4.82 30.68 0.15 -3.44 16
30 H 0.26 15.70 8.31 -92.71 -0.77 14.93 16
31 H 0.37 13.91 4.37 -92.71 -0.41 13.51 16
32 H 0.03 1.24 6.25 -2.39 -0.01 1.23 16
33 H 0.02 0.88 8.14 -2.39 -0.02 0.86 16
34 H 0.41 4.37 5.36 -92.72 -0.50 3.88 16
35 H 0.23 0.16 6.26 -2.91 -0.02 0.14 16
36 H 0.18 3.77 8.06 -2.91 -0.02 3.75 16
37 H 0.15 3.54 8.06 -2.91 -0.02 3.52 16
38 H 0.14 3.94 7.67 -2.91 -0.02 3.92 16
39 H 0.08 1.65 7.22 -2.39 -0.02 1.64 16
40 H 0.08 1.80 8.14 -2.39 -0.02 1.78 16
41 H 0.11 1.13 8.14 -2.38 -0.02 1.11 16
42 H 0.07 0.54 7.01 -2.39 -0.02 0.52 16
43 H 0.10 1.54 8.14 -2.39 -0.02 1.52 16
44 H 0.06 0.88 7.75 -2.39 -0.02 0.87 16
45 H 0.08 1.78 8.14 -2.39 -0.02 1.77 16
46 H 0.08 2.11 6.26 -2.39 -0.01 2.10 16
Total: -1.00 -88.73 366.44 0.35 -88.38
By element:
Atomic # 1 Polarization: 30.98 SS G_CDS: -0.73 Total: 30.26 kcal
Atomic # 6 Polarization: -2.48 SS G_CDS: 6.92 Total: 4.44 kcal
Atomic # 7 Polarization: -132.49 SS G_CDS: -6.09 Total: -138.58 kcal
Atomic # 8 Polarization: -26.56 SS G_CDS: -1.65 Total: -28.21 kcal
Atomic # 14 Polarization: 41.82 SS G_CDS: 1.90 Total: 43.72 kcal
Total: -88.73 0.35 -88.38 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.
ZINC001733830882.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 92.418 kcal
(2) G-P(sol) polarization free energy of solvation -88.731 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 3.687 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.353 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.378 kcal
(6) G-S(sol) free energy of system = (1) + (5) 4.040 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.98 seconds