Wall clock time and date at job start Wed Apr 1 2020 04:32:03
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 1.50698 * 1
3 3 C 1.38358 * 119.41165 * 2 1
4 4 C 1.38340 * 119.45675 * 180.25035 * 3 2 1
5 5 C 1.50699 * 120.82098 * 179.75126 * 4 3 2
6 6 C 1.39984 * 118.34927 * 359.47993 * 4 3 2
7 7 C 1.47528 * 120.59157 * 180.22956 * 6 4 3
8 8 O 1.21586 * 119.99849 * 90.00124 * 7 6 4
9 9 N 1.34776 * 119.99806 * 269.99179 * 7 6 4
10 10 C 1.46507 * 119.99783 * 180.02562 * 9 7 6
11 11 C 1.52998 * 109.46808 * 180.02562 * 10 9 7
12 12 C 1.53002 * 109.46685 * 179.97438 * 11 10 9
13 13 C 1.53039 * 109.45978 * 295.02180 * 12 11 10
14 14 C 1.53196 * 109.30983 * 178.60199 * 13 12 11
15 15 N 1.46921 * 108.76809 * 54.65996 * 14 13 12
16 16 C 1.36928 * 120.63616 * 126.40135 * 15 14 13
17 17 H 1.08007 * 120.00022 * 331.82847 * 16 15 14
18 18 C 1.38813 * 120.00425 * 151.82313 * 16 15 14
19 19 N 1.31622 * 119.99754 * 343.08546 * 18 16 15
20 20 Si 1.86804 * 120.00082 * 163.08379 * 18 16 15
21 21 H 1.48490 * 109.47383 * 60.00197 * 20 18 16
22 22 H 1.48495 * 109.46954 * 180.02562 * 20 18 16
23 23 H 1.48501 * 109.46818 * 299.99736 * 20 18 16
24 24 C 1.46937 * 118.73747 * 306.38490 * 15 14 13
25 25 C 1.53041 * 109.45670 * 174.97171 * 12 11 10
26 26 C 1.40274 * 118.80789 * 0.25049 * 6 4 3
27 27 O 1.35427 * 119.79859 * 180.02562 * 26 6 4
28 28 N 1.31886 * 119.40650 * 179.71470 * 2 1 3
29 29 H 1.09000 * 109.47512 * 270.28492 * 1 2 3
30 30 H 1.09002 * 109.46805 * 30.28040 * 1 2 3
31 31 H 1.08999 * 109.47280 * 150.27721 * 1 2 3
32 32 H 1.07998 * 120.26831 * 359.97438 * 3 2 1
33 33 H 1.09003 * 109.46992 * 269.71760 * 5 4 3
34 34 H 1.09001 * 109.47056 * 149.71981 * 5 4 3
35 35 H 1.09003 * 109.47286 * 29.71748 * 5 4 3
36 36 H 0.97000 * 120.00157 * 0.02562 * 9 7 6
37 37 H 1.09001 * 109.47061 * 300.00282 * 10 9 7
38 38 H 1.08996 * 109.47083 * 60.00217 * 10 9 7
39 39 H 1.09001 * 109.47042 * 299.99684 * 11 10 9
40 40 H 1.08996 * 109.47619 * 59.99935 * 11 10 9
41 41 H 1.08992 * 109.46228 * 55.00170 * 12 11 10
42 42 H 1.08996 * 109.50304 * 298.56880 * 13 12 11
43 43 H 1.08997 * 109.49452 * 58.67162 * 13 12 11
44 44 H 1.08998 * 109.59834 * 294.86856 * 14 13 12
45 45 H 1.08999 * 109.70274 * 174.50986 * 14 13 12
46 46 H 0.97002 * 119.99656 * 179.97438 * 19 18 16
47 47 H 1.08999 * 109.58123 * 293.81940 * 24 15 14
48 48 H 1.08994 * 109.70176 * 173.46507 * 24 15 14
49 49 H 1.09000 * 109.50020 * 301.33598 * 25 12 11
50 50 H 1.08997 * 109.49927 * 61.43446 * 25 12 11
51 51 H 0.96703 * 114.00283 * 90.00015 * 27 26 6
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 1.5070 0.0000 0.0000
3 6 2.1864 1.2053 0.0000
4 6 3.5698 1.2064 -0.0053
5 6 4.3409 2.5011 -0.0110
6 6 4.2355 -0.0251 0.0007
7 6 5.7097 -0.0816 0.0006
8 8 6.3175 -0.0996 1.0535
9 7 6.3827 -0.1134 -1.1666
10 6 7.8467 -0.1701 -1.1667
11 6 8.3559 -0.1963 -2.6093
12 6 9.8848 -0.2549 -2.6094
13 6 10.4445 1.0350 -2.0052
14 6 11.9742 0.9581 -1.9748
15 7 12.4598 0.6669 -3.3305
16 6 13.3996 1.4680 -3.9221
17 1 13.4676 2.5113 -3.6512
18 6 14.2650 0.9393 -4.8700
19 7 14.4195 -0.3643 -4.9655
20 14 15.2102 2.0779 -6.0101
21 1 16.0694 2.9828 -5.2051
22 1 16.0590 1.2711 -6.9231
23 1 14.2529 2.8848 -6.8087
24 6 11.9181 -0.5006 -4.0394
25 6 10.3890 -0.4075 -4.0462
26 6 3.4757 -1.2042 0.0064
27 8 4.0991 -2.4064 0.0128
28 7 2.1545 -1.1489 0.0057
29 1 -0.3634 0.0051 1.0276
30 1 -0.3633 0.8875 -0.5182
31 1 -0.3634 -0.8924 -0.5095
32 1 1.6412 2.1375 -0.0004
33 1 4.5272 2.8084 -1.0401
34 1 5.2913 2.3603 0.5038
35 1 3.7619 3.2711 0.4989
36 1 5.8979 -0.0988 -2.0066
37 1 8.2444 0.7076 -0.6573
38 1 8.1755 -1.0709 -0.6486
39 1 7.9583 -1.0739 -3.1190
40 1 8.0272 0.7046 -3.1271
41 1 10.2156 -1.1073 -2.0161
42 1 10.1347 1.8855 -2.6123
43 1 10.0663 1.1551 -0.9900
44 1 12.2870 0.1645 -1.2963
45 1 12.3834 1.9101 -1.6368
46 1 15.0240 -0.7338 -5.6281
47 1 12.2264 -1.4132 -3.5292
48 1 12.2881 -0.5123 -5.0646
49 1 9.9713 -1.3141 -4.4841
50 1 10.0798 0.4567 -4.6340
51 1 4.2798 -2.7512 0.8981
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
ZINC001715203127.mol2 51
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 04:32:03
Heat of formation + Delta-G solvation = -67.277833 kcal
Electronic energy + Delta-G solvation = -30148.180720 eV
Core-core repulsion = 26046.416555 eV
Total energy + Delta-G solvation = -4101.764166 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 347.200 amu
Computer time = 1.30 seconds
Orbital eigenvalues (eV)
-42.05276 -40.37934 -39.47388 -38.44563 -36.74745 -35.34033 -35.01952 -33.10503
-32.75541 -31.60756 -30.37464 -29.21563 -28.44776 -26.82474 -24.92658 -24.27088
-23.60648 -22.75691 -22.19550 -21.52944 -20.62849 -19.52788 -18.84741 -18.69945
-18.28269 -17.32213 -16.83493 -16.66173 -16.35396 -15.88821 -15.59753 -15.29632
-15.25650 -15.13647 -14.86175 -14.77145 -14.36373 -14.22195 -14.13694 -13.95967
-13.86801 -13.81968 -13.25264 -13.03950 -12.99246 -12.92747 -12.88360 -12.81269
-12.64065 -12.52939 -12.31121 -12.16799 -11.95114 -11.80753 -11.61301 -11.40328
-11.03014 -10.99490 -10.64945 -10.52578 -10.49704 -10.17708 -9.88403 -8.66101
-7.86484 -5.32184 -0.31961 0.01780 1.35521 1.46313 1.48573 1.55583
2.03475 2.26892 2.51632 2.62743 3.27380 3.38826 3.53684 3.60936
3.73336 3.81421 3.91565 3.97311 4.11925 4.18295 4.26576 4.30035
4.41716 4.50526 4.57588 4.58864 4.63739 4.65507 4.74747 4.76925
4.81012 4.89196 4.95119 5.00705 5.01895 5.03372 5.10289 5.11585
5.18595 5.26536 5.32530 5.36630 5.40695 5.46512 5.50306 5.56728
5.67359 5.81027 6.36506 6.38204 6.40134 6.78679 7.03179 7.16073
7.88315 8.40128 9.19399
Molecular weight = 347.20amu
Principal moments of inertia in cm(-1)
A = 0.025192 B = 0.001786 C = 0.001755
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1111.187376 B =15672.808315 C =15949.789982
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.106 4.106
2 C 0.161 3.839
3 C -0.177 4.177
4 C 0.009 3.991
5 C -0.124 4.124
6 C -0.222 4.222
7 C 0.580 3.420
8 O -0.574 6.574
9 N -0.703 5.703
10 C 0.123 3.877
11 C -0.108 4.108
12 C -0.070 4.070
13 C -0.116 4.116
14 C 0.137 3.863
15 N -0.611 5.611
16 C -0.263 4.263
17 H 0.065 0.935
18 C -0.053 4.053
19 N -0.936 5.936
20 Si 0.968 3.032
21 H -0.276 1.276
22 H -0.294 1.294
23 H -0.277 1.277
24 C 0.174 3.826
25 C -0.121 4.121
26 C 0.341 3.659
27 O -0.490 6.490
28 N -0.532 5.532
29 H 0.096 0.904
30 H 0.108 0.892
31 H 0.074 0.926
32 H 0.183 0.817
33 H 0.100 0.900
34 H 0.054 0.946
35 H 0.106 0.894
36 H 0.412 0.588
37 H 0.068 0.932
38 H 0.058 0.942
39 H 0.079 0.921
40 H 0.080 0.920
41 H 0.058 0.942
42 H 0.058 0.942
43 H 0.076 0.924
44 H 0.008 0.992
45 H 0.050 0.950
46 H 0.249 0.751
47 H -0.009 1.009
48 H 0.051 0.949
49 H 0.068 0.932
50 H 0.053 0.947
51 H 0.419 0.581
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -31.659 3.961 9.376 33.255
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 -0.163 4.163
2 C 0.024 3.976
3 C -0.196 4.196
4 C 0.001 3.999
5 C -0.181 4.181
6 C -0.229 4.229
7 C 0.365 3.635
8 O -0.454 6.454
9 N -0.354 5.354
10 C 0.000 4.000
11 C -0.146 4.146
12 C -0.089 4.089
13 C -0.155 4.155
14 C 0.012 3.988
15 N -0.335 5.335
16 C -0.394 4.394
17 H 0.083 0.917
18 C -0.248 4.248
19 N -0.583 5.583
20 Si 0.796 3.204
21 H -0.202 1.202
22 H -0.220 1.220
23 H -0.203 1.203
24 C 0.049 3.951
25 C -0.160 4.160
26 C 0.162 3.838
27 O -0.300 6.300
28 N -0.253 5.253
29 H 0.114 0.886
30 H 0.126 0.874
31 H 0.093 0.907
32 H 0.200 0.800
33 H 0.118 0.882
34 H 0.073 0.927
35 H 0.124 0.876
36 H 0.248 0.752
37 H 0.086 0.914
38 H 0.076 0.924
39 H 0.098 0.902
40 H 0.099 0.901
41 H 0.077 0.923
42 H 0.077 0.923
43 H 0.094 0.906
44 H 0.026 0.974
45 H 0.068 0.932
46 H 0.058 0.942
47 H 0.009 0.991
48 H 0.069 0.931
49 H 0.086 0.914
50 H 0.072 0.928
51 H 0.280 0.720
Dipole moment (debyes) X Y Z Total
from point charges -31.515 3.102 9.425 33.041
hybrid contribution 1.710 0.404 -0.440 1.811
sum -29.806 3.506 8.986 31.327
Atomic orbital electron populations
1.20937 0.85649 1.05048 1.04648 1.21880 0.98648 0.86782 0.90304
1.22179 0.92934 1.00814 1.03668 1.20586 0.94647 0.93939 0.90756
1.21012 0.99588 0.92870 1.04580 1.20820 0.93769 0.95149 1.13170
1.17996 0.86673 0.75040 0.83791 1.90806 1.70336 1.51631 1.32616
1.45959 1.07777 1.73150 1.08467 1.21436 0.78407 1.02019 0.98171
1.21701 0.94534 1.03683 0.94697 1.20873 0.94119 0.97775 0.96110
1.21969 0.95406 0.97567 1.00581 1.21081 0.94067 0.97730 0.85923
1.44328 1.45664 1.30741 1.12734 1.19492 1.09118 0.91395 1.19370
0.91738 1.25827 0.98710 0.96951 1.03333 1.70194 1.39697 1.11688
1.36676 0.85333 0.78185 0.78109 0.78782 1.20163 1.22035 1.20286
1.20606 0.90677 0.87257 0.96599 1.22018 0.96455 1.00966 0.96543
1.19128 0.86769 0.84493 0.93407 1.84637 1.76789 1.32987 1.35629
1.67120 1.08914 1.32045 1.17208 0.88597 0.87369 0.90729 0.79984
0.88206 0.92660 0.87554 0.75154 0.91353 0.92384 0.90232 0.90149
0.92318 0.92306 0.90590 0.97429 0.93189 0.94156 0.99103 0.93074
0.91389 0.92798 0.72016
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 16.
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 -0.11 -0.65 10.16 71.24 0.72 0.07 16
2 C 0.16 2.18 6.78 42.58 0.29 2.47 16
3 C -0.18 -1.86 9.41 22.32 0.21 -1.65 16
4 C 0.01 0.13 5.95 -19.42 -0.12 0.01 16
5 C -0.12 -1.39 9.69 71.24 0.69 -0.70 16
6 C -0.22 -4.54 5.66 -19.91 -0.11 -4.65 16
7 C 0.58 13.98 5.42 86.69 0.47 14.45 16
8 O -0.57 -18.28 17.11 -3.99 -0.07 -18.34 16
9 N -0.70 -14.27 5.55 -466.27 -2.59 -16.86 16
10 C 0.12 2.77 5.43 86.38 0.47 3.24 16
11 C -0.11 -2.36 4.80 30.59 0.15 -2.22 16
12 C -0.07 -2.10 2.15 -10.77 -0.02 -2.12 16
13 C -0.12 -3.77 5.14 30.67 0.16 -3.61 16
14 C 0.14 5.82 6.52 86.36 0.56 6.38 16
15 N -0.61 -31.31 2.99 -699.08 -2.09 -33.41 16
16 C -0.26 -14.78 9.58 84.04 0.81 -13.98 16
17 H 0.06 3.52 7.89 -2.91 -0.02 3.50 16
18 C -0.05 -3.01 4.92 84.86 0.42 -2.60 16
19 N -0.94 -56.46 11.19 21.65 0.24 -56.21 16
20 Si 0.97 45.37 29.59 68.60 2.03 47.40 16
21 H -0.28 -12.51 7.11 99.48 0.71 -11.80 16
22 H -0.29 -13.84 7.11 99.48 0.71 -13.13 16
23 H -0.28 -12.53 7.11 99.48 0.71 -11.82 16
24 C 0.17 8.52 5.30 86.36 0.46 8.98 16
25 C -0.12 -4.36 5.36 30.67 0.16 -4.20 16
26 C 0.34 7.34 7.77 85.13 0.66 8.00 16
27 O -0.49 -10.29 13.01 -87.22 -1.14 -11.43 16
28 N -0.53 -10.72 10.28 -296.06 -3.04 -13.77 16
29 H 0.10 0.39 8.14 -2.39 -0.02 0.37 16
30 H 0.11 0.08 8.07 -2.39 -0.02 0.06 16
31 H 0.07 0.59 8.14 -2.39 -0.02 0.57 16
32 H 0.18 0.47 8.06 -2.91 -0.02 0.45 16
33 H 0.10 0.85 8.14 -2.39 -0.02 0.83 16
34 H 0.05 0.91 7.19 -2.39 -0.02 0.89 16
35 H 0.11 0.65 8.10 -2.39 -0.02 0.63 16
36 H 0.41 6.54 8.46 -92.71 -0.78 5.76 16
37 H 0.07 1.65 6.53 -2.39 -0.02 1.63 16
38 H 0.06 1.47 8.14 -2.39 -0.02 1.45 16
39 H 0.08 1.58 8.14 -2.39 -0.02 1.56 16
40 H 0.08 1.60 8.14 -2.39 -0.02 1.58 16
41 H 0.06 1.88 8.14 -2.39 -0.02 1.86 16
42 H 0.06 1.91 8.14 -2.39 -0.02 1.89 16
43 H 0.08 2.10 6.50 -2.39 -0.02 2.09 16
44 H 0.01 0.34 8.14 -2.39 -0.02 0.32 16
45 H 0.05 2.09 7.93 -2.39 -0.02 2.07 16
46 H 0.25 14.57 8.31 -92.71 -0.77 13.80 16
47 H -0.01 -0.48 8.14 -2.39 -0.02 -0.50 16
48 H 0.05 2.83 6.06 -2.39 -0.01 2.82 16
49 H 0.07 2.17 8.14 -2.39 -0.02 2.15 16
50 H 0.05 1.96 8.14 -2.39 -0.02 1.94 16
51 H 0.42 5.75 9.06 -74.06 -0.67 5.08 16
Total: -1.00 -77.50 410.95 -1.19 -78.69
By element:
Atomic # 1 Polarization: 16.55 SS G_CDS: -0.51 Total: 16.04 kcal
Atomic # 6 Polarization: 1.91 SS G_CDS: 5.97 Total: 7.88 kcal
Atomic # 7 Polarization: -112.76 SS G_CDS: -7.48 Total: -120.24 kcal
Atomic # 8 Polarization: -28.57 SS G_CDS: -1.20 Total: -29.77 kcal
Atomic # 14 Polarization: 45.37 SS G_CDS: 2.03 Total: 47.40 kcal
Total: -77.50 -1.19 -78.69 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.
ZINC001715203127.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 11.411 kcal
(2) G-P(sol) polarization free energy of solvation -77.501 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -66.090 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.187 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.688 kcal
(6) G-S(sol) free energy of system = (1) + (5) -67.278 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.30 seconds