Wall clock time and date at job start Tue Mar 31 2020 13:30:35
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 1.46502 * 1
3 3 C 1.46508 * 119.99805 * 2 1
4 4 C 1.50707 * 109.47048 * 279.82137 * 3 2 1
5 5 H 1.07999 * 119.99644 * 0.02562 * 4 3 2
6 6 C 1.37870 * 119.99847 * 179.97438 * 4 3 2
7 7 N 1.31506 * 120.00352 * 359.97438 * 6 4 3
8 8 Si 1.86803 * 119.99770 * 179.97438 * 6 4 3
9 9 H 1.48507 * 109.47206 * 0.02562 * 8 6 4
10 10 H 1.48496 * 109.46996 * 120.00060 * 8 6 4
11 11 H 1.48501 * 109.47392 * 240.00056 * 8 6 4
12 12 S 1.65600 * 120.00563 * 179.97438 * 2 1 3
13 13 O 1.42094 * 106.40477 * 161.40885 * 12 2 1
14 14 O 1.42098 * 106.39835 * 28.48863 * 12 2 1
15 15 N 1.65603 * 107.21446 * 274.95094 * 12 2 1
16 16 C 1.46918 * 120.63269 * 53.56149 * 15 12 2
17 17 C 1.53196 * 108.77767 * 233.62563 * 16 15 12
18 18 C 1.53032 * 109.31491 * 305.36903 * 17 16 15
19 19 C 1.53048 * 109.53791 * 61.36175 * 18 17 16
20 20 C 1.46930 * 120.62550 * 233.58409 * 15 12 2
21 21 H 1.09007 * 109.58335 * 246.15514 * 20 15 12
22 22 C 1.52998 * 109.58737 * 6.44088 * 20 15 12
23 23 C 1.50700 * 109.47015 * 289.31357 * 22 20 15
24 24 O 1.20823 * 120.00030 * 4.75453 * 23 22 20
25 25 O 1.34226 * 119.99647 * 184.75495 * 23 22 20
26 26 H 1.09004 * 109.46862 * 269.99908 * 1 2 3
27 27 H 1.08998 * 109.47435 * 30.00347 * 1 2 3
28 28 H 1.08997 * 109.46663 * 150.00272 * 1 2 3
29 29 H 1.08997 * 109.46959 * 39.81665 * 3 2 1
30 30 H 1.08997 * 109.47406 * 159.82193 * 3 2 1
31 31 H 0.97004 * 120.00472 * 179.97438 * 7 6 4
32 32 H 1.09003 * 109.58953 * 353.41979 * 16 15 12
33 33 H 1.09002 * 109.58797 * 113.84244 * 16 15 12
34 34 H 1.09002 * 109.49090 * 65.32111 * 17 16 15
35 35 H 1.09003 * 109.49609 * 185.41170 * 17 16 15
36 36 H 1.09001 * 109.45732 * 301.34339 * 18 17 16
37 37 H 1.08991 * 109.46491 * 181.38277 * 18 17 16
38 38 H 1.09001 * 109.49326 * 178.68911 * 19 18 17
39 39 H 1.08994 * 109.49477 * 58.58847 * 19 18 17
40 40 H 1.08993 * 109.46984 * 49.31785 * 22 20 15
41 41 H 1.09008 * 109.46886 * 169.31655 * 22 20 15
42 42 H 0.96700 * 117.00050 * 180.02562 * 25 23 22
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 2.1975 1.2688 0.0000
4 6 2.2388 1.8250 -1.4001
5 1 1.7662 1.2874 -2.2088
6 6 2.8788 3.0207 -1.6482
7 7 3.4529 3.6761 -0.6632
8 14 2.9305 3.7098 -3.3837
9 1 2.2156 2.7888 -4.3035
10 1 2.2732 5.0411 -3.4075
11 1 4.3434 3.8475 -3.8198
12 16 2.2932 -1.4341 0.0006
13 8 3.6127 -1.1357 -0.4341
14 8 1.4562 -2.3809 -0.6492
15 7 2.4200 -1.9260 1.5768
16 6 1.2247 -2.0436 2.4229
17 6 1.4433 -1.2284 3.7014
18 6 2.7387 -1.6840 4.3768
19 6 3.9209 -1.4352 3.4372
20 6 3.7303 -2.2528 2.1558
21 1 3.7706 -3.3163 2.3915
22 6 4.8342 -1.9072 1.1543
23 6 4.7919 -2.8803 0.0044
24 8 3.9120 -3.7060 -0.0562
25 8 5.7319 -2.8297 -0.9524
26 1 -0.3633 0.0000 1.0277
27 1 -0.3634 0.8899 -0.5139
28 1 -0.3632 -0.8900 -0.5138
29 1 1.6956 1.9781 0.6580
30 1 3.2145 1.1013 0.3545
31 1 3.9035 4.5172 -0.8378
32 1 0.3580 -1.6569 1.8867
33 1 1.0607 -3.0900 2.6804
34 1 1.5167 -0.1703 3.4500
35 1 0.6047 -1.3842 4.3801
36 1 2.6743 -2.7478 4.6055
37 1 2.8841 -1.1226 5.2997
38 1 4.8457 -1.7384 3.9279
39 1 3.9710 -0.3752 3.1884
40 1 4.6810 -0.8952 0.7797
41 1 5.8044 -1.9692 1.6473
42 1 5.6629 -3.4741 -1.6701
RHF calculation, no. of doubly occupied orbitals= 58
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).
S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990)
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
ZINC001593728811.mol2 42
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 13:30:35
Heat of formation + Delta-G solvation = -160.261928 kcal
Electronic energy + Delta-G solvation = -28141.531131 eV
Core-core repulsion = 24248.702305 eV
Total energy + Delta-G solvation = -3892.828826 eV
No. of doubly occupied orbitals = 58
Molecular weight
(most abundant/longest-lived isotopes) = 320.128 amu
Computer time = 0.68 seconds
Orbital eigenvalues (eV)
-41.64478 -39.50386 -38.51870 -37.35848 -37.14834 -36.78904 -34.54901 -33.83342
-33.15831 -29.70832 -29.25463 -26.89880 -25.32959 -24.28347 -23.99853 -22.21233
-21.30314 -20.11776 -19.21185 -18.69937 -18.59086 -17.93862 -17.45262 -17.33876
-17.23074 -16.52020 -15.85619 -15.61971 -15.46116 -15.09119 -14.88883 -14.67749
-14.53787 -14.20398 -14.04028 -13.86972 -13.63824 -13.32290 -13.14556 -13.04086
-12.97948 -12.93785 -12.55622 -12.47322 -12.41558 -12.19419 -12.08195 -11.89255
-11.75233 -11.64798 -11.48511 -11.43218 -10.96373 -10.61049 -9.92428 -9.81865
-8.22207 -6.33873 -0.42627 1.31461 1.36849 1.39522 1.50496 2.02802
2.28390 2.37235 2.49338 3.08926 3.40678 3.43886 3.80417 4.01255
4.03589 4.15448 4.22896 4.29458 4.37898 4.51508 4.58858 4.60878
4.68959 4.75930 4.78211 4.99363 5.01348 5.04551 5.14961 5.19461
5.27530 5.29765 5.37412 5.41999 5.56837 5.65777 5.68770 5.71774
5.90478 6.09347 6.74009 7.02127 7.35153 8.85225
Molecular weight = 320.13amu
Principal moments of inertia in cm(-1)
A = 0.013973 B = 0.006053 C = 0.005337
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2003.398845 B = 4624.711231 C = 5244.727812
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C 0.083 3.917
2 N -1.002 6.002
3 C 0.276 3.724
4 C -0.553 4.553
5 H 0.046 0.954
6 C 0.019 3.981
7 N -0.917 5.917
8 Si 0.952 3.048
9 H -0.275 1.275
10 H -0.269 1.269
11 H -0.277 1.277
12 S 2.787 3.213
13 O -0.992 6.992
14 O -1.018 7.018
15 N -0.998 5.998
16 C 0.115 3.885
17 C -0.132 4.132
18 C -0.111 4.111
19 C -0.126 4.126
20 C 0.170 3.830
21 H 0.091 0.909
22 C -0.162 4.162
23 C 0.506 3.494
24 O -0.588 6.588
25 O -0.509 6.509
26 H 0.079 0.921
27 H 0.075 0.925
28 H 0.066 0.934
29 H 0.027 0.973
30 H 0.027 0.973
31 H 0.268 0.732
32 H 0.074 0.926
33 H 0.082 0.918
34 H 0.057 0.943
35 H 0.099 0.901
36 H 0.076 0.924
37 H 0.084 0.916
38 H 0.104 0.896
39 H 0.061 0.939
40 H 0.149 0.851
41 H 0.141 0.859
42 H 0.418 0.582
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -0.140 -10.196 12.383 16.041
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 -0.063 4.063
2 N -0.844 5.844
3 C 0.152 3.848
4 C -0.592 4.592
5 H 0.064 0.936
6 C -0.181 4.181
7 N -0.556 5.556
8 Si 0.777 3.223
9 H -0.199 1.199
10 H -0.194 1.194
11 H -0.203 1.203
12 S 2.800 3.200
13 O -0.977 6.977
14 O -1.001 7.001
15 N -0.841 5.841
16 C -0.009 4.009
17 C -0.171 4.171
18 C -0.148 4.148
19 C -0.165 4.165
20 C 0.065 3.935
21 H 0.109 0.891
22 C -0.201 4.201
23 C 0.355 3.645
24 O -0.485 6.485
25 O -0.321 6.321
26 H 0.097 0.903
27 H 0.093 0.907
28 H 0.084 0.916
29 H 0.045 0.955
30 H 0.045 0.955
31 H 0.077 0.923
32 H 0.092 0.908
33 H 0.100 0.900
34 H 0.076 0.924
35 H 0.117 0.883
36 H 0.095 0.905
37 H 0.103 0.897
38 H 0.123 0.877
39 H 0.080 0.920
40 H 0.166 0.834
41 H 0.159 0.841
42 H 0.277 0.723
Dipole moment (debyes) X Y Z Total
from point charges 0.045 -10.397 11.926 15.822
hybrid contribution -0.129 0.300 -1.661 1.693
sum -0.084 -10.097 10.265 14.399
Atomic orbital electron populations
1.21656 0.78518 1.03453 1.02629 1.57452 1.15592 1.22044 1.89287
1.18629 0.90701 0.79548 0.95876 1.21800 1.35637 1.06436 0.95332
0.93565 1.25643 0.94592 0.96908 1.00980 1.69987 1.36327 1.16472
1.32853 0.85608 0.78116 0.78468 0.80116 1.19924 1.19409 1.20273
1.01791 0.72347 0.71924 0.73893 1.93525 1.36767 1.84350 1.83051
1.93463 1.70227 1.62095 1.74307 1.57877 1.13806 1.82600 1.29768
1.21663 0.84812 1.01865 0.92564 1.21930 0.99846 0.99517 0.95795
1.21454 0.92928 1.02458 0.97991 1.21993 1.00909 0.99953 0.93675
1.21025 0.78816 1.00784 0.92924 0.89130 1.22734 1.03573 1.02531
0.91284 1.23532 0.77311 0.80198 0.83504 1.90756 1.37685 1.41002
1.79082 1.84474 1.51774 1.59937 1.35887 0.90311 0.90669 0.91557
0.95512 0.95550 0.92269 0.90813 0.89985 0.92384 0.88295 0.90544
0.89716 0.87715 0.91992 0.83407 0.84097 0.72268
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 C 0.08 2.89 9.67 127.77 1.24 4.12 16
2 N -1.00 -42.49 3.21 -543.20 -1.74 -44.24 16
3 C 0.28 13.75 5.19 85.63 0.44 14.20 16
4 C -0.55 -31.09 9.33 25.60 0.24 -30.85 16
5 H 0.05 2.66 7.81 -2.91 -0.02 2.64 16
6 C 0.02 1.06 5.46 84.65 0.46 1.53 16
7 N -0.92 -52.28 13.29 21.44 0.28 -52.00 16
8 Si 0.95 44.19 29.54 68.60 2.03 46.22 16
9 H -0.27 -12.73 7.11 99.48 0.71 -12.02 16
10 H -0.27 -11.82 7.11 99.48 0.71 -11.11 16
11 H -0.28 -12.61 7.11 99.48 0.71 -11.91 16
12 S 2.79 117.74 4.03 -56.49 -0.23 117.51 16
13 O -0.99 -45.51 9.09 -117.34 -1.07 -46.57 16
14 O -1.02 -48.76 16.43 -123.64 -2.03 -50.79 16
15 N -1.00 -31.57 3.14 -490.76 -1.54 -33.11 16
16 C 0.12 2.82 6.53 86.37 0.56 3.38 16
17 C -0.13 -2.45 6.08 30.67 0.19 -2.26 16
18 C -0.11 -1.74 5.88 30.62 0.18 -1.56 16
19 C -0.13 -2.44 5.36 30.67 0.16 -2.27 16
20 C 0.17 4.50 2.46 44.97 0.11 4.61 16
21 H 0.09 2.23 7.83 -2.38 -0.02 2.22 16
22 C -0.16 -4.89 4.78 29.85 0.14 -4.75 16
23 C 0.51 18.13 5.23 71.24 0.37 18.50 16
24 O -0.59 -23.96 14.60 29.92 0.44 -23.52 16
25 O -0.51 -16.43 13.41 -46.40 -0.62 -17.05 16
26 H 0.08 2.11 7.10 -2.38 -0.02 2.10 16
27 H 0.07 2.69 8.07 -2.39 -0.02 2.67 16
28 H 0.07 2.28 7.07 -2.39 -0.02 2.26 16
29 H 0.03 1.35 8.14 -2.39 -0.02 1.33 16
30 H 0.03 1.39 7.30 -2.39 -0.02 1.38 16
31 H 0.27 14.34 8.31 -92.71 -0.77 13.57 16
32 H 0.07 1.81 5.69 -2.39 -0.01 1.80 16
33 H 0.08 1.77 8.14 -2.39 -0.02 1.75 16
34 H 0.06 1.27 8.14 -2.39 -0.02 1.25 16
35 H 0.10 1.31 8.14 -2.39 -0.02 1.30 16
36 H 0.08 1.03 8.14 -2.39 -0.02 1.01 16
37 H 0.08 1.06 8.14 -2.39 -0.02 1.04 16
38 H 0.10 1.41 8.14 -2.39 -0.02 1.39 16
39 H 0.06 1.40 8.14 -2.39 -0.02 1.38 16
40 H 0.15 5.43 5.46 -62.87 -0.34 5.08 16
41 H 0.14 3.01 8.12 -2.38 -0.02 2.99 16
42 H 0.42 9.93 9.10 -74.06 -0.67 9.26 16
Total: -1.00 -77.19 341.04 -0.35 -77.54
By element:
Atomic # 1 Polarization: 21.33 SS G_CDS: 0.03 Total: 21.36 kcal
Atomic # 6 Polarization: 0.55 SS G_CDS: 4.10 Total: 4.65 kcal
Atomic # 7 Polarization: -126.34 SS G_CDS: -3.00 Total: -129.35 kcal
Atomic # 8 Polarization: -134.65 SS G_CDS: -3.28 Total: -137.94 kcal
Atomic # 14 Polarization: 44.19 SS G_CDS: 2.03 Total: 46.22 kcal
Atomic # 16 Polarization: 117.74 SS G_CDS: -0.23 Total: 117.51 kcal
Total: -77.19 -0.35 -77.54 kcal
The number of atoms in the molecule is 42
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.
ZINC001593728811.mol2 42
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 -82.721 kcal
(2) G-P(sol) polarization free energy of solvation -77.187 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -159.909 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) -77.540 kcal
(6) G-S(sol) free energy of system = (1) + (5) -160.262 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.68 seconds