Wall clock time and date at job start Sat Apr 11 2020 06:47:06
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
* DEV - DEVELOPER OPTIONS ARE ALLOWED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS USER-SPECIFIED
* DIELEC - THE SOLVENT DIELECTRIC CONSTANT IS 2.06
* IOFR - THE SOLVENT INDEX OF REFRACTION IS 1.4345
* ALPHA - THE SOLVENT ALPHA IS 0.00
* BETA - THE SOLVENT BETA IS 0.00
* GAMMA - THE SOLVENT MACROSCOPIC SURFACE TENSION IS
* 38.93 CAL MOL^-1 ANGSTROM^-2
* FACARB - THE FRACTION OF AROMATIC CARBONS IS 0.00
* FEHALO - THE FRACTION OF ELECTRONEGATIVE HALOGENS IS 0.00
*******************************************************************************
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 1.30640 * 1
3 3 Si 1.86801 * 120.00312 * 2 1
4 4 H 1.48501 * 109.46895 * 359.97438 * 3 2 1
5 5 H 1.48498 * 109.47086 * 119.99674 * 3 2 1
6 6 H 1.48491 * 109.47072 * 240.00027 * 3 2 1
7 7 C 1.40309 * 119.99778 * 179.97438 * 2 1 3
8 8 H 1.08002 * 119.99558 * 159.33536 * 7 2 1
9 9 C 1.40530 * 120.00320 * 339.34545 * 7 2 1
10 10 C 1.44188 * 123.71334 * 335.81209 * 9 7 2
11 11 C 1.32762 * 114.43297 * 179.97438 * 10 9 7
12 12 S 1.75475 * 111.36200 * 359.97438 * 11 10 9
13 13 C 1.39544 * 123.72036 * 155.51826 * 9 7 2
14 14 C 1.46244 * 125.22461 * 359.97438 * 13 9 7
15 15 O 1.21761 * 119.99968 * 359.97438 * 14 13 9
16 16 N 1.34775 * 119.99665 * 180.02562 * 14 13 9
17 17 C 1.46502 * 119.99552 * 179.97438 * 16 14 13
18 18 C 1.50699 * 109.47128 * 179.97438 * 17 16 14
19 19 C 1.38719 * 119.78664 * 269.73204 * 18 17 16
20 20 C 1.37668 * 120.50428 * 179.69830 * 19 18 17
21 21 C 1.39713 * 119.77498 * 0.59038 * 20 19 18
22 22 N 1.35901 * 133.44494 * 179.68634 * 21 20 19
23 23 C 1.30760 * 109.61823 * 179.97438 * 22 21 20
24 24 O 1.35284 * 125.02798 * 179.97438 * 23 22 21
25 25 N 1.36377 * 109.93886 * 0.02562 * 23 22 21
26 26 H 0.97002 * 126.36643 * 179.97438 * 25 23 22
27 27 C 1.38451 * 107.26998 * 359.97438 * 25 23 22
28 28 C 1.37934 * 119.78022 * 90.00286 * 18 17 16
29 29 H 0.96999 * 120.00259 * 174.00398 * 1 2 3
30 30 H 1.07997 * 122.78433 * 359.92679 * 10 9 7
31 31 H 1.08005 * 124.32243 * 179.97438 * 11 10 9
32 32 H 0.96997 * 120.00268 * 359.97438 * 16 14 13
33 33 H 1.08996 * 109.47568 * 300.00237 * 17 16 14
34 34 H 1.09005 * 109.46945 * 60.00480 * 17 16 14
35 35 H 1.07995 * 119.74636 * 359.97438 * 19 18 17
36 36 H 1.07998 * 120.11362 * 180.27636 * 20 19 18
37 37 H 0.96692 * 114.00115 * 90.03027 * 24 23 22
38 38 H 1.08006 * 120.07505 * 0.02562 * 28 18 17
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 1.3064 0.0000 0.0000
3 14 2.2405 1.6177 0.0000
4 1 1.2755 2.7464 -0.0006
5 1 3.0942 1.6963 1.2125
6 1 3.0942 1.6963 -1.2124
7 6 2.0079 -1.2151 0.0005
8 1 3.0358 -1.2453 -0.3295
9 6 1.3730 -2.3929 0.4303
10 6 0.2445 -2.4120 1.3276
11 6 -0.2109 -3.6264 1.6115
12 16 0.7196 -4.8663 0.7892
13 6 1.7615 -3.6723 0.0312
14 6 2.8669 -3.9730 -0.8779
15 8 3.5301 -3.0677 -1.3503
16 7 3.1507 -5.2522 -1.1936
17 6 4.2577 -5.5534 -2.1047
18 6 4.3635 -7.0451 -2.2909
19 6 5.1699 -7.7899 -1.4428
20 6 5.2725 -9.1542 -1.5956
21 6 4.5689 -9.7925 -2.6200
22 7 4.4716 -11.0874 -3.0208
23 6 3.6690 -11.1693 -4.0499
24 8 3.3509 -12.3137 -4.6974
25 7 3.2010 -9.9301 -4.3745
26 1 2.5912 -9.7170 -5.0981
27 6 3.7582 -9.0329 -3.4793
28 6 3.6621 -7.6601 -3.3069
29 1 -0.4850 -0.8354 -0.0877
30 1 -0.1935 -1.5131 1.7356
31 1 -1.0473 -3.8257 2.2650
32 1 2.6221 -5.9733 -0.8176
33 1 4.0744 -5.0787 -3.0686
34 1 5.1885 -5.1733 -1.6837
35 1 5.7179 -7.2963 -0.6539
36 1 5.8987 -9.7285 -0.9289
37 1 2.5723 -12.7635 -4.3418
38 1 3.0397 -7.0740 -3.9669
RHF calculation, no. of doubly occupied orbitals= 59
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=GENORG IOFR=1.4345 ALPHA=0.00 BETA=0.00 GAMMA=38.93
& DIELEC=2.06 FACARB=0.00 FEHALO=0.00 DEV
ZINC001623793838.mol2 38
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 06:47:06
Heat of formation + Delta-G solvation = 13.869850 kcal
Electronic energy + Delta-G solvation = -25449.495358 eV
Core-core repulsion = 21576.959659 eV
Total energy + Delta-G solvation = -3872.535699 eV
No. of doubly occupied orbitals = 59
Molecular weight
(most abundant/longest-lived isotopes) = 343.078 amu
Computer time = 1.53 seconds
Orbital eigenvalues (eV)
-42.37877 -38.93259 -38.19413 -37.04030 -36.31323 -33.87262 -33.21538 -33.04429
-30.36875 -29.78942 -28.89275 -26.42885 -24.87020 -23.18710 -22.54889 -21.97984
-21.48796 -20.11399 -19.35165 -19.07183 -18.12413 -17.61300 -17.16409 -16.37555
-16.18050 -15.28945 -15.04941 -14.62188 -14.41775 -14.21196 -14.12578 -13.95621
-13.82297 -13.63703 -13.07874 -12.65137 -12.28175 -12.18709 -11.91981 -11.89283
-11.67745 -11.47858 -11.38242 -11.07469 -10.98624 -10.71931 -10.45598 -10.28060
-10.10855 -9.76784 -9.18119 -8.69445 -8.55660 -8.31531 -8.21161 -7.79586
-7.37594 -7.33908 -4.61238 0.60390 1.27337 2.00744 2.03275 2.37832
2.92061 3.04505 3.09857 3.31172 3.42688 3.52600 3.57454 3.65775
3.89636 4.22628 4.31943 4.38206 4.72189 4.79250 4.98997 5.08320
5.13490 5.18288 5.45665 5.72610 5.80418 5.82768 5.93713 6.07491
6.19978 6.38537 6.39493 6.51491 6.62635 6.74960 6.95489 7.15597
7.24610 7.25222 7.27288 7.46065 7.74616 7.91532 8.38991 8.47073
8.71930 9.51940 9.74747
Molecular weight = 343.08amu
Principal moments of inertia in cm(-1)
A = 0.019617 B = 0.002365 C = 0.002244
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 1426.989019 B =11835.886570 C =12473.577124
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.777 5.777
2 C 0.029 3.971
3 Si 1.074 2.926
4 H -0.272 1.272
5 H -0.271 1.271
6 H -0.269 1.269
7 C -0.424 4.424
8 H 0.110 0.890
9 C 0.112 3.888
10 C -0.143 4.143
11 C -0.186 4.186
12 S -0.036 6.036
13 C -0.437 4.437
14 C 0.600 3.400
15 O -0.563 6.563
16 N -0.747 5.747
17 C 0.170 3.830
18 C -0.073 4.073
19 C -0.103 4.103
20 C -0.067 4.067
21 C 0.058 3.942
22 N -0.486 5.486
23 C 0.449 3.551
24 O -0.444 6.444
25 N -0.602 5.602
26 H 0.423 0.577
27 C 0.056 3.944
28 C -0.091 4.091
29 H 0.300 0.700
30 H 0.131 0.869
31 H 0.141 0.859
32 H 0.391 0.609
33 H 0.068 0.932
34 H 0.072 0.928
35 H 0.136 0.864
36 H 0.134 0.866
37 H 0.410 0.590
38 H 0.128 0.872
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.445 -15.180 -5.043 16.182
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 -0.400 5.400
2 C -0.195 4.195
3 Si 0.895 3.105
4 H -0.197 1.197
5 H -0.196 1.196
6 H -0.194 1.194
7 C -0.454 4.454
8 H 0.128 0.872
9 C 0.102 3.898
10 C -0.176 4.176
11 C -0.321 4.321
12 S 0.219 5.781
13 C -0.555 4.555
14 C 0.397 3.603
15 O -0.447 6.447
16 N -0.401 5.401
17 C 0.046 3.954
18 C -0.075 4.075
19 C -0.123 4.123
20 C -0.086 4.086
21 C -0.060 4.060
22 N -0.218 5.218
23 C 0.144 3.856
24 O -0.246 6.246
25 N -0.226 5.226
26 H 0.262 0.738
27 C -0.052 4.052
28 C -0.113 4.113
29 H 0.115 0.885
30 H 0.149 0.851
31 H 0.158 0.842
32 H 0.224 0.776
33 H 0.086 0.914
34 H 0.090 0.910
35 H 0.154 0.846
36 H 0.152 0.848
37 H 0.268 0.732
38 H 0.146 0.854
Dipole moment (debyes) X Y Z Total
from point charges 3.503 -15.127 -5.336 16.418
hybrid contribution -1.526 -0.341 -0.421 1.619
sum 1.978 -15.468 -5.757 16.622
Atomic orbital electron populations
1.70441 1.08401 1.34529 1.26667 1.27560 0.95661 1.05278 0.91047
0.83505 0.75573 0.72672 0.78716 1.19679 1.19569 1.19399 1.20978
1.02115 0.91297 1.31012 0.87222 1.17893 0.89510 0.92390 0.90045
1.21593 0.98696 0.96925 1.00386 1.24947 1.04496 0.96637 1.06014
1.82785 1.31172 1.12580 1.51530 1.22411 1.14679 0.94425 1.24027
1.16796 0.82739 0.80882 0.79865 1.90665 1.52648 1.45146 1.56202
1.45874 1.35050 1.08327 1.50870 1.19947 0.91766 0.88640 0.95046
1.19787 0.96811 0.95888 0.95056 1.20933 0.99171 0.92813 0.99432
1.20254 0.98620 0.93698 0.96065 1.18815 1.00545 0.88266 0.98330
1.70664 1.20438 1.19750 1.10960 1.20328 0.94271 0.80300 0.90661
1.84826 1.52136 1.31577 1.56030 1.43390 1.42351 1.06905 1.29970
0.73764 1.18581 1.00720 0.92322 0.93607 1.19875 1.01620 0.89725
1.00076 0.88526 0.85144 0.84158 0.77606 0.91354 0.90967 0.84604
0.84844 0.73174 0.85368
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 -0.78 -19.33 12.48 55.57 0.69 -18.64 16
2 C 0.03 0.70 5.23 -17.28 -0.09 0.61 16
3 Si 1.07 20.99 29.99 -169.99 -5.10 15.89 16
4 H -0.27 -5.17 7.11 56.52 0.40 -4.77 16
5 H -0.27 -5.06 7.11 56.52 0.40 -4.66 16
6 H -0.27 -5.17 7.11 56.52 0.40 -4.77 16
7 C -0.42 -11.25 8.44 -37.94 -0.32 -11.57 16
8 H 0.11 3.08 6.14 -52.49 -0.32 2.76 16
9 C 0.11 2.91 5.41 -106.21 -0.57 2.33 16
10 C -0.14 -3.31 8.19 -39.12 -0.32 -3.63 16
11 C -0.19 -3.85 11.07 28.86 0.32 -3.53 16
12 S -0.04 -0.75 22.25 -107.50 -2.39 -3.14 16
13 C -0.44 -10.76 6.51 -35.88 -0.23 -10.99 16
14 C 0.60 14.31 7.76 -13.05 -0.10 14.20 16
15 O -0.56 -15.08 14.46 5.13 0.07 -15.01 16
16 N -0.75 -13.92 5.54 -62.93 -0.35 -14.27 16
17 C 0.17 2.61 5.79 -5.19 -0.03 2.58 16
18 C -0.07 -0.93 5.25 -104.56 -0.55 -1.48 16
19 C -0.10 -1.20 9.66 -39.61 -0.38 -1.58 16
20 C -0.07 -0.78 10.10 -39.24 -0.40 -1.18 16
21 C 0.06 0.76 7.22 -84.68 -0.61 0.15 16
22 N -0.49 -6.38 11.31 -12.24 -0.14 -6.52 16
23 C 0.45 4.62 9.39 -88.93 -0.84 3.79 16
24 O -0.44 -3.18 13.63 -17.55 -0.24 -3.42 16
25 N -0.60 -5.54 6.26 -11.90 -0.07 -5.61 16
26 H 0.42 2.53 8.96 -40.82 -0.37 2.16 16
27 C 0.06 0.66 7.30 -83.87 -0.61 0.05 16
28 C -0.09 -1.08 9.70 -39.53 -0.38 -1.47 16
29 H 0.30 7.58 6.22 -40.82 -0.25 7.33 16
30 H 0.13 2.98 6.77 -52.49 -0.36 2.63 16
31 H 0.14 2.42 8.06 -52.48 -0.42 1.99 16
32 H 0.39 6.82 7.54 -40.82 -0.31 6.51 16
33 H 0.07 1.08 8.08 -51.93 -0.42 0.66 16
34 H 0.07 1.12 8.08 -51.93 -0.42 0.70 16
35 H 0.14 1.40 8.06 -52.49 -0.42 0.98 16
36 H 0.13 1.33 8.06 -52.49 -0.42 0.90 16
37 H 0.41 0.69 9.06 45.56 0.41 1.11 16
38 H 0.13 1.37 8.06 -52.48 -0.42 0.95 16
LS Contribution 347.34 15.07 5.23 5.23
Total: -1.00 -32.82 347.34 -9.93 -42.74
By element:
Atomic # 1 Polarization: 16.99 SS G_CDS: -2.52 Total: 14.47 kcal
Atomic # 6 Polarization: -6.60 SS G_CDS: -5.12 Total: -11.73 kcal
Atomic # 7 Polarization: -45.18 SS G_CDS: 0.13 Total: -45.05 kcal
Atomic # 8 Polarization: -18.26 SS G_CDS: -0.16 Total: -18.43 kcal
Atomic # 14 Polarization: 20.99 SS G_CDS: -5.10 Total: 15.89 kcal
Atomic # 16 Polarization: -0.75 SS G_CDS: -2.39 Total: -3.14 kcal
Total LS contribution 5.23 Total: 5.23 kcal
Total: -32.82 -9.93 -42.74 kcal
The number of atoms in the molecule is 38
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.
ZINC001623793838.mol2 38
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 56.613 kcal
(2) G-P(sol) polarization free energy of solvation -32.815 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system 23.798 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -9.928 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -42.743 kcal
(6) G-S(sol) free energy of system = (1) + (5) 13.870 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.53 seconds