Wall clock time and date at job start Tue Mar 31 2020 03:22:07
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.
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* 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 1.13599 * 1
3 3 C 1.47205 * 179.97438 * 2 1
4 4 C 1.52995 * 109.47075 * 118.88379 * 3 2 1
5 5 N 1.46501 * 109.47472 * 179.97438 * 4 3 2
6 6 C 1.46497 * 120.00300 * 270.00443 * 5 4 3
7 7 C 1.50707 * 109.46907 * 269.99281 * 6 5 4
8 8 H 1.07996 * 119.99528 * 0.02562 * 7 6 5
9 9 C 1.37874 * 119.99813 * 180.02562 * 7 6 5
10 10 N 1.31512 * 120.00106 * 0.02562 * 9 7 6
11 11 Si 1.86800 * 119.99933 * 180.02562 * 9 7 6
12 12 H 1.48504 * 109.46919 * 0.02562 * 11 9 7
13 13 H 1.48510 * 109.46846 * 120.00038 * 11 9 7
14 14 H 1.48490 * 109.47327 * 240.00135 * 11 9 7
15 15 C 1.34784 * 119.99392 * 89.99586 * 5 4 3
16 16 O 1.21280 * 119.99668 * 180.02562 * 15 5 4
17 17 C 1.50703 * 120.00276 * 0.02562 * 15 5 4
18 18 N 1.46491 * 109.46899 * 179.97438 * 17 15 5
19 19 C 1.44545 * 120.61733 * 269.99881 * 18 17 15
20 20 C 1.53419 * 111.71899 * 180.02562 * 19 18 17
21 21 S 1.82066 * 103.93828 * 359.78517 * 20 19 18
22 22 C 1.33005 * 120.61505 * 90.02440 * 18 17 15
23 23 O 1.21623 * 125.19972 * 359.93640 * 22 18 17
24 24 H 1.08999 * 109.47594 * 358.87834 * 3 2 1
25 25 H 1.09003 * 109.46722 * 238.88272 * 3 2 1
26 26 H 1.09002 * 109.47441 * 59.99835 * 4 3 2
27 27 H 1.09002 * 109.47388 * 300.00095 * 4 3 2
28 28 H 1.08996 * 109.47063 * 29.99437 * 6 5 4
29 29 H 1.08999 * 109.46976 * 149.99578 * 6 5 4
30 30 H 0.97004 * 120.00023 * 180.02562 * 10 9 7
31 31 H 1.08992 * 109.46878 * 59.99172 * 17 15 5
32 32 H 1.09007 * 109.46441 * 299.99463 * 17 15 5
33 33 H 1.09002 * 109.03281 * 300.61906 * 19 18 17
34 34 H 1.08999 * 109.04019 * 59.42901 * 19 18 17
35 35 H 1.09006 * 110.53710 * 118.61245 * 20 19 18
36 36 H 1.08995 * 110.53947 * 241.24259 * 20 19 18
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 1.1360 0.0000 0.0000
3 6 2.6080 0.0007 0.0000
4 6 3.1177 0.6976 -1.2630
5 7 4.5827 0.6989 -1.2628
6 6 5.3142 1.8104 -0.6500
7 6 5.5648 2.8777 -1.6841
8 1 5.2138 2.7417 -2.6963
9 6 6.2421 4.0276 -1.3378
10 7 6.6699 4.1928 -0.1052
11 14 6.5521 5.3508 -2.6193
12 1 5.9736 4.9259 -3.9194
13 1 5.9139 6.6196 -2.1851
14 1 8.0143 5.5591 -2.7721
15 6 5.2575 -0.3228 -1.8263
16 8 6.4703 -0.3220 -1.8258
17 6 4.5049 -1.4660 -2.4571
18 7 5.4578 -2.4400 -2.9950
19 6 5.9362 -2.3284 -4.3544
20 6 6.9217 -3.4513 -4.7035
21 16 7.0309 -4.4305 -3.1724
22 6 5.8983 -3.4438 -2.2418
23 8 5.5750 -3.6483 -1.0873
24 1 2.9719 -1.0266 0.0201
25 1 2.9711 0.5319 0.8798
26 1 2.7539 1.7250 -1.2831
27 1 2.7546 0.1664 -2.1429
28 1 4.7247 2.2270 0.1667
29 1 6.2668 1.4488 -0.2628
30 1 7.1461 5.0021 0.1385
31 1 3.8784 -1.0870 -3.2644
32 1 3.8783 -1.9469 -1.7059
33 1 5.0865 -2.3766 -5.0354
34 1 6.4343 -1.3669 -4.4783
35 1 6.5355 -4.0581 -5.5225
36 1 7.8965 -3.0379 -4.9620
RHF calculation, no. of doubly occupied orbitals= 52
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
ZINC000049377394.mol2 36
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 03:22:07
Heat of formation + Delta-G solvation = -53.017743 kcal
Electronic energy + Delta-G solvation = -21759.520340 eV
Core-core repulsion = 18369.677260 eV
Total energy + Delta-G solvation = -3389.843079 eV
No. of doubly occupied orbitals = 52
Molecular weight
(most abundant/longest-lived isotopes) = 297.093 amu
Computer time = 0.36 seconds
Orbital eigenvalues (eV)
-41.56317 -40.11695 -38.05257 -37.67106 -36.67035 -34.88515 -32.63647 -32.15758
-30.06056 -28.38090 -25.82503 -25.33800 -24.58499 -22.19008 -20.08826 -19.25380
-18.87306 -18.38735 -18.36737 -17.83314 -17.06946 -16.74475 -16.12802 -16.06864
-15.72382 -15.40896 -15.20509 -15.13607 -14.82284 -14.39115 -14.31630 -13.79047
-13.66089 -13.55617 -13.30997 -13.10317 -13.04867 -12.83505 -12.69481 -12.54539
-12.16678 -11.93917 -11.88426 -11.64070 -11.06296 -11.00655 -10.59643 -10.10524
-9.51873 -9.22749 -8.17550 -6.30349 0.06245 0.92041 1.09091 1.41219
1.43167 1.53720 1.63863 1.82940 1.84313 1.96809 2.33321 2.46806
3.08076 3.15449 3.32697 3.67406 3.94114 3.99904 4.04443 4.13352
4.28371 4.49006 4.55864 4.61169 4.74789 4.81399 4.89157 5.04316
5.11650 5.32788 5.59491 5.79789 5.85439 6.11499 6.45327 6.59159
6.70022 6.80929 7.31614 7.46010 8.89923
Molecular weight = 297.09amu
Principal moments of inertia in cm(-1)
A = 0.011280 B = 0.005271 C = 0.003952
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2481.733313 B = 5310.329228 C = 7083.880276
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.486 5.486
2 C 0.247 3.753
3 C -0.042 4.042
4 C 0.112 3.888
5 N -0.594 5.594
6 C 0.259 3.741
7 C -0.534 4.534
8 H 0.061 0.939
9 C 0.007 3.993
10 N -0.930 5.930
11 Si 0.961 3.039
12 H -0.261 1.261
13 H -0.277 1.277
14 H -0.288 1.288
15 C 0.485 3.515
16 O -0.582 6.582
17 C 0.100 3.900
18 N -0.589 5.589
19 C 0.089 3.911
20 C -0.079 4.079
21 S -0.209 6.209
22 C 0.537 3.463
23 O -0.533 6.533
24 H 0.127 0.873
25 H 0.117 0.883
26 H 0.091 0.909
27 H 0.117 0.883
28 H 0.032 0.968
29 H -0.004 1.004
30 H 0.264 0.736
31 H 0.162 0.838
32 H 0.129 0.871
33 H 0.137 0.863
34 H 0.084 0.916
35 H 0.158 0.842
36 H 0.127 0.873
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -5.524 -13.190 -12.321 18.875
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 -0.164 5.164
2 C -0.070 4.070
3 C -0.083 4.083
4 C -0.012 4.012
5 N -0.325 5.325
6 C 0.138 3.862
7 C -0.573 4.573
8 H 0.080 0.920
9 C -0.192 4.192
10 N -0.570 5.570
11 Si 0.787 3.213
12 H -0.185 1.185
13 H -0.202 1.202
14 H -0.214 1.214
15 C 0.272 3.728
16 O -0.461 6.461
17 C -0.029 4.029
18 N -0.323 5.323
19 C -0.034 4.034
20 C -0.227 4.227
21 S 0.017 5.983
22 C 0.217 3.783
23 O -0.414 6.414
24 H 0.145 0.855
25 H 0.135 0.865
26 H 0.109 0.891
27 H 0.135 0.865
28 H 0.050 0.950
29 H 0.015 0.985
30 H 0.073 0.927
31 H 0.179 0.821
32 H 0.147 0.853
33 H 0.155 0.845
34 H 0.102 0.898
35 H 0.176 0.824
36 H 0.146 0.854
Dipole moment (debyes) X Y Z Total
from point charges -6.014 -14.181 -11.348 19.132
hybrid contribution 0.517 2.118 -0.008 2.180
sum -5.496 -12.063 -11.356 17.455
Atomic orbital electron populations
1.81255 1.14245 1.10760 1.10113 1.29036 0.94787 0.91425 0.91786
1.19833 0.80383 1.05721 1.02376 1.21622 0.78623 1.03489 0.97503
1.48088 1.06953 1.20959 1.56466 1.18809 0.91231 0.83195 0.92962
1.21755 1.36136 1.02318 0.97049 0.92028 1.25793 0.95281 1.00797
0.97282 1.70055 1.39260 1.28248 1.19457 0.85454 0.77536 0.78830
0.79503 1.18466 1.20211 1.21406 1.21651 0.88212 0.84050 0.78910
1.90690 1.16434 1.79397 1.59588 1.21781 0.90851 0.87489 1.02776
1.47618 1.45201 1.25436 1.14008 1.21772 1.00566 1.00043 0.81009
1.24461 1.04975 0.97278 0.96001 1.87396 1.56256 1.39680 1.14987
1.22055 0.83856 0.83950 0.88480 1.90816 1.61674 1.72459 1.16461
0.85469 0.86531 0.89056 0.86460 0.94953 0.98537 0.92686 0.82073
0.85329 0.84521 0.89755 0.82439 0.85435
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 N -0.49 -13.25 18.54 20.01 0.37 -12.88 16
2 C 0.25 5.32 15.43 89.44 1.38 6.70 16
3 C -0.04 -0.78 6.03 28.79 0.17 -0.61 16
4 C 0.11 2.46 5.17 86.38 0.45 2.91 16
5 N -0.59 -20.29 2.46 -826.14 -2.03 -22.32 16
6 C 0.26 12.33 5.16 85.64 0.44 12.77 16
7 C -0.53 -27.67 9.39 25.60 0.24 -27.43 16
8 H 0.06 3.08 7.81 -2.91 -0.02 3.06 16
9 C 0.01 0.39 5.46 84.65 0.46 0.85 16
10 N -0.93 -53.71 13.29 21.45 0.28 -53.42 16
11 Si 0.96 42.18 29.54 68.60 2.03 44.20 16
12 H -0.26 -10.78 7.11 99.48 0.71 -10.07 16
13 H -0.28 -11.75 7.11 99.48 0.71 -11.04 16
14 H -0.29 -12.77 7.11 99.48 0.71 -12.07 16
15 C 0.48 16.71 7.74 87.66 0.68 17.39 16
16 O -0.58 -27.00 16.01 -3.03 -0.05 -27.05 16
17 C 0.10 2.15 4.60 85.64 0.39 2.54 16
18 N -0.59 -13.68 2.27 -844.70 -1.91 -15.60 16
19 C 0.09 1.28 6.80 86.88 0.59 1.87 16
20 C -0.08 -0.93 7.42 72.12 0.54 -0.40 16
21 S -0.21 -4.90 23.25 -56.49 -1.31 -6.21 16
22 C 0.54 16.08 8.27 130.07 1.08 17.16 16
23 O -0.53 -20.02 17.28 -4.10 -0.07 -20.09 16
24 H 0.13 1.98 7.22 -2.39 -0.02 1.97 16
25 H 0.12 2.32 8.14 -2.39 -0.02 2.30 16
26 H 0.09 2.19 8.07 -2.39 -0.02 2.17 16
27 H 0.12 1.61 6.44 -2.39 -0.02 1.59 16
28 H 0.03 1.54 8.07 -2.39 -0.02 1.53 16
29 H 0.00 -0.20 7.42 -2.39 -0.02 -0.22 16
30 H 0.26 14.46 8.31 -92.71 -0.77 13.69 16
31 H 0.16 1.85 7.34 -2.39 -0.02 1.83 16
32 H 0.13 2.42 6.70 -2.38 -0.02 2.41 16
33 H 0.14 0.76 8.14 -2.39 -0.02 0.74 16
34 H 0.08 1.49 8.14 -2.39 -0.02 1.47 16
35 H 0.16 0.64 8.14 -2.38 -0.02 0.62 16
36 H 0.13 1.32 8.14 -2.39 -0.02 1.30 16
Total: -1.00 -83.17 333.49 4.83 -78.33
By element:
Atomic # 1 Polarization: 0.16 SS G_CDS: 1.11 Total: 1.27 kcal
Atomic # 6 Polarization: 27.35 SS G_CDS: 6.42 Total: 33.76 kcal
Atomic # 7 Polarization: -100.93 SS G_CDS: -3.29 Total: -104.22 kcal
Atomic # 8 Polarization: -47.02 SS G_CDS: -0.12 Total: -47.14 kcal
Atomic # 14 Polarization: 42.18 SS G_CDS: 2.03 Total: 44.20 kcal
Atomic # 16 Polarization: -4.90 SS G_CDS: -1.31 Total: -6.21 kcal
Total: -83.17 4.83 -78.33 kcal
The number of atoms in the molecule is 36
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.
ZINC000049377394.mol2 36
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 25.316 kcal
(2) G-P(sol) polarization free energy of solvation -83.166 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -57.850 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.832 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.334 kcal
(6) G-S(sol) free energy of system = (1) + (5) -53.018 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.36 seconds