Wall clock time and date at job start Wed Apr 1 2020 06:23:59
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 1.53007 * 1
3 3 C 1.52993 * 109.47056 * 2 1
4 4 C 1.53000 * 109.47057 * 120.00111 * 2 1 3
5 5 C 1.50696 * 109.47390 * 64.99882 * 4 2 1
6 6 N 1.30858 * 125.41814 * 304.97658 * 5 4 2
7 7 C 1.33324 * 109.68638 * 179.78235 * 6 5 4
8 8 C 1.36667 * 107.78331 * 0.37865 * 7 6 5
9 9 C 1.46761 * 126.84110 * 179.89286 * 8 7 6
10 10 O 1.21681 * 120.00252 * 7.43860 * 9 8 7
11 11 N 1.34783 * 119.99664 * 187.43716 * 9 8 7
12 12 C 1.49628 * 126.07264 * 357.42744 * 11 9 8
13 13 C 1.51774 * 102.36952 * 154.28557 * 12 11 9
14 14 H 1.09001 * 111.32166 * 288.41719 * 13 12 11
15 15 C 1.51557 * 123.68423 * 151.94655 * 13 12 11
16 16 C 1.56342 * 101.81217 * 208.01513 * 15 13 12
17 17 C 1.55314 * 105.74789 * 25.82428 * 16 15 13
18 18 H 1.08999 * 110.85399 * 125.34549 * 17 16 15
19 19 N 1.46499 * 109.87768 * 247.87204 * 17 16 15
20 20 C 1.36934 * 119.99883 * 269.59185 * 19 17 16
21 21 H 1.08007 * 120.00429 * 0.02562 * 20 19 17
22 22 C 1.38816 * 120.00136 * 179.97438 * 20 19 17
23 23 N 1.31624 * 119.99891 * 0.02562 * 22 20 19
24 24 Si 1.86803 * 120.00305 * 180.02562 * 22 20 19
25 25 H 1.48509 * 109.46933 * 0.02562 * 24 22 20
26 26 H 1.48493 * 109.46887 * 120.00350 * 24 22 20
27 27 H 1.48496 * 109.47318 * 240.00732 * 24 22 20
28 28 C 1.49708 * 104.32266 * 6.36583 * 17 16 15
29 29 H 1.09004 * 107.87890 * 78.30429 * 28 17 16
30 30 C 1.49286 * 126.07257 * 177.73771 * 11 9 8
31 31 N 1.34493 * 125.41923 * 124.99945 * 5 4 2
32 32 H 0.96995 * 126.47454 * 0.02562 * 31 5 4
33 33 H 1.08996 * 109.46785 * 300.00101 * 1 2 3
34 34 H 1.08996 * 109.47217 * 60.00143 * 1 2 3
35 35 H 1.09005 * 109.46806 * 180.02562 * 1 2 3
36 36 H 1.08996 * 109.46785 * 239.99899 * 2 1 3
37 37 H 1.08998 * 109.47489 * 180.02562 * 3 2 1
38 38 H 1.09007 * 109.47338 * 299.99687 * 3 2 1
39 39 H 1.08998 * 109.47284 * 59.99756 * 3 2 1
40 40 H 1.09005 * 109.46869 * 304.99757 * 4 2 1
41 41 H 1.09002 * 109.46997 * 185.00052 * 4 2 1
42 42 H 1.07993 * 126.10578 * 180.26968 * 7 6 5
43 43 H 1.09007 * 110.80149 * 272.62037 * 12 11 9
44 44 H 1.08999 * 110.80312 * 36.11902 * 12 11 9
45 45 H 1.09002 * 110.96174 * 326.14286 * 15 13 12
46 46 H 1.09000 * 110.96280 * 89.84869 * 15 13 12
47 47 H 1.09000 * 110.18514 * 144.51491 * 16 15 13
48 48 H 1.08996 * 110.18914 * 266.35881 * 16 15 13
49 49 H 0.96998 * 120.00278 * 89.60113 * 19 17 16
50 50 H 0.96996 * 119.99751 * 179.97438 * 23 22 20
51 51 H 1.09002 * 110.39659 * 292.39269 * 30 11 9
52 52 H 1.09000 * 110.39517 * 54.67036 * 30 11 9
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 1.5301 0.0000 0.0000
3 6 2.0400 1.4424 0.0000
4 6 2.0401 -0.7213 1.2492
5 6 1.6414 -2.1733 1.1889
6 7 0.4208 -2.6188 1.0338
7 6 0.4276 -3.9519 1.0200
8 6 1.7203 -4.3644 1.1833
9 6 2.2023 -5.7497 1.2328
10 8 1.4418 -6.6677 0.9885
11 7 3.4874 -6.0052 1.5489
12 6 4.5477 -4.9847 1.8195
13 6 5.5096 -5.7446 2.7143
14 1 5.0868 -5.9033 3.7064
15 6 6.9942 -5.4503 2.7941
16 6 7.5763 -6.8461 3.1907
17 6 6.5556 -7.8928 2.6667
18 1 7.0453 -8.6244 2.0241
19 7 5.8991 -8.5568 3.7957
20 6 6.4355 -9.7010 4.3231
21 1 7.3427 -10.1138 3.9071
22 6 5.8138 -10.3299 5.3931
23 7 4.7084 -9.8266 5.9004
24 14 6.5458 -11.8904 6.1131
25 1 7.7811 -12.2465 5.3696
26 1 6.8764 -11.6678 7.5436
27 1 5.5624 -12.9971 5.9987
28 6 5.5662 -7.0861 1.8847
29 1 6.0119 -6.8568 0.9168
30 6 4.1073 -7.3564 1.6849
31 7 2.4834 -3.2175 1.2864
32 1 3.4448 -3.1736 1.4071
33 1 -0.3633 0.5138 0.8900
34 1 -0.3633 0.5138 -0.8900
35 1 -0.3633 -1.0277 0.0005
36 1 1.8933 -0.5138 -0.8900
37 1 3.1300 1.4425 -0.0005
38 1 1.6767 1.9563 -0.8901
39 1 1.6767 1.9563 0.8899
40 1 1.6054 -0.2617 2.1370
41 1 3.1264 -0.6443 1.2951
42 1 -0.4346 -4.5916 0.9027
43 1 5.0357 -4.6787 0.8941
44 1 4.1316 -4.1234 2.3421
45 1 7.3802 -5.1273 1.8272
46 1 7.2036 -4.7070 3.5634
47 1 8.5436 -6.9999 2.7123
48 1 7.6760 -6.9181 4.2737
49 1 5.0844 -8.1860 4.1694
50 1 4.2738 -10.2662 6.6479
51 1 3.6958 -7.8779 2.5491
52 1 3.9480 -7.9404 0.7785
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
ZINC001026268001.mol2 52
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 06:23:59
Heat of formation + Delta-G solvation = 31.988696 kcal
Electronic energy + Delta-G solvation = -30954.653669 eV
Core-core repulsion = 26954.912685 eV
Total energy + Delta-G solvation = -3999.740984 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 346.211 amu
Computer time = 1.93 seconds
Orbital eigenvalues (eV)
-43.42568 -41.69799 -39.75331 -37.19783 -36.87129 -35.14460 -33.91412 -32.62350
-31.90506 -30.58794 -30.00473 -27.96068 -27.77153 -27.10050 -25.23270 -24.99329
-22.97908 -22.40073 -21.61130 -21.14476 -20.48438 -20.28751 -19.38718 -18.74577
-17.57034 -17.28339 -16.94797 -16.57217 -16.17653 -16.09901 -15.84062 -15.69681
-15.36439 -15.18910 -14.84661 -14.72652 -14.59212 -14.22765 -13.94347 -13.77443
-13.44507 -13.34993 -13.11504 -13.00317 -12.93898 -12.69927 -12.68624 -12.45933
-12.21809 -12.18046 -12.06266 -11.91108 -11.68628 -11.54963 -11.53834 -11.40092
-11.34346 -11.25992 -11.02761 -10.93030 -10.79175 -10.02945 -9.51612 -8.98588
-7.94166 -5.21360 0.17741 1.45309 1.46336 1.50802 1.55683 1.69969
1.90505 2.19688 2.55743 2.88971 3.22467 3.40352 3.43876 3.68837
3.75620 3.91765 4.00758 4.01850 4.04615 4.13002 4.16043 4.22263
4.34600 4.39548 4.43870 4.53735 4.60145 4.66050 4.66728 4.75272
4.80768 4.82665 4.86909 4.92626 4.95424 4.96944 5.02747 5.10247
5.17969 5.21343 5.22226 5.35271 5.37297 5.42856 5.43603 5.52660
5.55704 5.67899 5.77462 6.20554 6.27124 6.28506 6.81192 6.89530
7.34257 8.12373 8.32881 9.29416
Molecular weight = 346.21amu
Principal moments of inertia in cm(-1)
A = 0.018390 B = 0.002324 C = 0.002183
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1522.162616 B =12045.846696 C =12823.935330
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.160 4.160
2 C -0.082 4.082
3 C -0.144 4.144
4 C -0.035 4.035
5 C 0.252 3.748
6 N -0.506 5.506
7 C 0.057 3.943
8 C -0.094 4.094
9 C 0.602 3.398
10 O -0.575 6.575
11 N -0.621 5.621
12 C 0.110 3.890
13 C -0.111 4.111
14 H 0.058 0.942
15 C -0.081 4.081
16 C -0.138 4.138
17 C 0.182 3.818
18 H 0.054 0.946
19 N -0.731 5.731
20 C -0.230 4.230
21 H 0.079 0.921
22 C -0.080 4.080
23 N -0.972 5.972
24 Si 0.967 3.033
25 H -0.263 1.263
26 H -0.296 1.296
27 H -0.300 1.300
28 C -0.121 4.121
29 H 0.105 0.895
30 C 0.138 3.862
31 N -0.541 5.541
32 H 0.435 0.565
33 H 0.052 0.948
34 H 0.047 0.953
35 H 0.069 0.931
36 H 0.063 0.937
37 H 0.067 0.933
38 H 0.057 0.943
39 H 0.061 0.939
40 H 0.105 0.895
41 H 0.113 0.887
42 H 0.179 0.821
43 H 0.117 0.883
44 H 0.089 0.911
45 H 0.102 0.898
46 H 0.078 0.922
47 H 0.075 0.925
48 H 0.044 0.956
49 H 0.370 0.630
50 H 0.247 0.753
51 H 0.039 0.961
52 H 0.067 0.933
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.065 25.690 -13.570 29.127
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 -0.217 4.217
2 C -0.102 4.102
3 C -0.201 4.201
4 C -0.074 4.074
5 C -0.012 4.012
6 N -0.226 5.226
7 C -0.097 4.097
8 C -0.210 4.210
9 C 0.392 3.608
10 O -0.455 6.455
11 N -0.354 5.354
12 C -0.011 4.011
13 C -0.130 4.130
14 H 0.076 0.924
15 C -0.119 4.119
16 C -0.178 4.178
17 C 0.073 3.927
18 H 0.072 0.928
19 N -0.371 5.371
20 C -0.362 4.362
21 H 0.097 0.903
22 C -0.272 4.272
23 N -0.624 5.624
24 Si 0.798 3.202
25 H -0.187 1.187
26 H -0.224 1.224
27 H -0.228 1.228
28 C -0.141 4.141
29 H 0.123 0.877
30 C 0.016 3.984
31 N -0.152 5.152
32 H 0.282 0.718
33 H 0.071 0.929
34 H 0.066 0.934
35 H 0.088 0.912
36 H 0.082 0.918
37 H 0.086 0.914
38 H 0.076 0.924
39 H 0.081 0.919
40 H 0.123 0.877
41 H 0.131 0.869
42 H 0.196 0.804
43 H 0.135 0.865
44 H 0.107 0.893
45 H 0.121 0.879
46 H 0.096 0.904
47 H 0.094 0.906
48 H 0.063 0.937
49 H 0.203 0.797
50 H 0.056 0.944
51 H 0.058 0.942
52 H 0.085 0.915
Dipole moment (debyes) X Y Z Total
from point charges 1.062 25.514 -13.799 29.026
hybrid contribution 0.469 -2.199 1.235 2.565
sum 1.531 23.315 -12.563 26.529
Atomic orbital electron populations
1.22061 0.95267 1.03387 1.00993 1.20958 0.96301 0.96628 0.96289
1.21817 1.01596 0.94230 1.02445 1.20512 1.03271 0.82572 1.01050
1.24136 0.85179 0.92918 0.99014 1.70178 1.21212 1.09228 1.21972
1.22803 0.95216 0.91864 0.99797 1.20681 0.93771 0.86159 1.20344
1.16859 0.80526 0.86804 0.76575 1.90833 1.55908 1.46216 1.52556
1.49767 1.08550 1.08767 1.68351 1.22291 0.87826 0.90391 1.00564
1.22553 0.97127 0.95605 0.97713 0.92354 1.21796 0.90467 0.96289
1.03354 1.23539 0.99070 0.94760 1.00471 1.20309 0.91938 0.92668
0.87778 0.92763 1.42642 1.29543 1.28208 1.36742 1.19689 1.05840
1.00864 1.09805 0.90319 1.25518 0.98487 1.02715 1.00508 1.69830
1.21460 1.42784 1.28278 0.85145 0.77709 0.79610 0.77769 1.18705
1.22383 1.22788 1.21930 0.93016 0.98131 1.00980 0.87691 1.20752
0.93474 0.83477 1.00676 1.43852 1.11855 1.04856 1.54663 0.71770
0.92887 0.93356 0.91246 0.91833 0.91362 0.92430 0.91942 0.87693
0.86877 0.80407 0.86513 0.89326 0.87937 0.90382 0.90607 0.93703
0.79749 0.94395 0.94216 0.91486
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 -0.16 -2.30 8.92 71.98 0.64 -1.66 16
2 C -0.08 -0.85 2.91 -10.79 -0.03 -0.88 16
3 C -0.14 -0.94 9.19 71.98 0.66 -0.28 16
4 C -0.04 -0.33 5.32 29.85 0.16 -0.17 16
5 C 0.25 4.38 7.36 138.20 1.02 5.40 16
6 N -0.51 -11.92 8.51 -187.40 -1.59 -13.51 16
7 C 0.06 1.54 11.67 84.10 0.98 2.52 16
8 C -0.09 -2.45 6.87 40.01 0.27 -2.18 16
9 C 0.60 19.77 7.85 86.47 0.68 20.45 16
10 O -0.58 -24.01 17.28 -4.29 -0.07 -24.08 16
11 N -0.62 -17.76 3.42 -819.23 -2.80 -20.56 16
12 C 0.11 1.98 5.38 85.37 0.46 2.44 16
13 C -0.11 -2.58 3.08 -9.96 -0.03 -2.62 16
14 H 0.06 1.85 7.88 -2.39 -0.02 1.83 16
15 C -0.08 -1.52 6.63 31.28 0.21 -1.31 16
16 C -0.14 -3.88 6.69 32.55 0.22 -3.66 16
17 C 0.18 6.33 3.46 44.73 0.15 6.49 16
18 H 0.05 1.92 8.09 -2.39 -0.02 1.90 16
19 N -0.73 -34.98 4.80 -324.18 -1.56 -36.53 16
20 C -0.23 -12.39 9.96 84.03 0.84 -11.55 16
21 H 0.08 4.04 7.83 -2.91 -0.02 4.02 16
22 C -0.08 -4.62 5.50 84.86 0.47 -4.15 16
23 N -0.97 -60.32 13.06 21.65 0.28 -60.04 16
24 Si 0.97 46.44 29.55 68.60 2.03 48.46 16
25 H -0.26 -11.67 7.11 99.48 0.71 -10.97 16
26 H -0.30 -14.28 7.11 99.48 0.71 -13.57 16
27 H -0.30 -14.69 7.11 99.48 0.71 -13.98 16
28 C -0.12 -3.40 2.26 -11.19 -0.03 -3.43 16
29 H 0.10 2.28 7.99 -2.38 -0.02 2.26 16
30 C 0.14 4.67 6.67 84.78 0.57 5.24 16
31 N -0.54 -9.37 5.48 -176.12 -0.97 -10.34 16
32 H 0.43 4.72 5.35 -92.71 -0.50 4.23 16
33 H 0.05 0.73 8.14 -2.39 -0.02 0.71 16
34 H 0.05 0.65 8.14 -2.39 -0.02 0.63 16
35 H 0.07 1.36 5.49 -2.38 -0.01 1.35 16
36 H 0.06 0.75 8.14 -2.39 -0.02 0.73 16
37 H 0.07 0.28 8.14 -2.39 -0.02 0.27 16
38 H 0.06 0.41 8.14 -2.38 -0.02 0.39 16
39 H 0.06 0.37 8.14 -2.39 -0.02 0.35 16
40 H 0.10 0.89 8.14 -2.38 -0.02 0.87 16
41 H 0.11 0.36 8.14 -2.39 -0.02 0.34 16
42 H 0.18 4.74 8.06 -2.91 -0.02 4.71 16
43 H 0.12 1.27 8.14 -2.38 -0.02 1.25 16
44 H 0.09 1.25 5.49 -2.39 -0.01 1.24 16
45 H 0.10 1.23 8.14 -2.39 -0.02 1.21 16
46 H 0.08 1.31 8.14 -2.39 -0.02 1.29 16
47 H 0.08 1.81 8.14 -2.39 -0.02 1.79 16
48 H 0.04 1.57 7.96 -2.39 -0.02 1.55 16
49 H 0.37 19.65 6.72 -92.71 -0.62 19.03 16
50 H 0.25 15.04 8.31 -92.71 -0.77 14.26 16
51 H 0.04 1.72 7.22 -2.39 -0.02 1.70 16
52 H 0.07 2.30 8.14 -2.39 -0.02 2.28 16
Total: -1.00 -76.67 405.38 2.36 -74.31
By element:
Atomic # 1 Polarization: 31.84 SS G_CDS: -0.19 Total: 31.65 kcal
Atomic # 6 Polarization: 3.41 SS G_CDS: 7.24 Total: 10.65 kcal
Atomic # 7 Polarization: -134.35 SS G_CDS: -6.64 Total: -140.99 kcal
Atomic # 8 Polarization: -24.01 SS G_CDS: -0.07 Total: -24.08 kcal
Atomic # 14 Polarization: 46.44 SS G_CDS: 2.03 Total: 48.46 kcal
Total: -76.67 2.36 -74.31 kcal
The number of atoms in the molecule is 52
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.
ZINC001026268001.mol2 52
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 106.298 kcal
(2) G-P(sol) polarization free energy of solvation -76.670 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 29.628 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.361 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.309 kcal
(6) G-S(sol) free energy of system = (1) + (5) 31.989 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.94 seconds