Wall clock time and date at job start Tue Mar 31 2020 22:31:32
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 N
2 2 C 1.30632 * 1
3 3 Si 1.86801 * 120.00012 * 2 1
4 4 H 1.48503 * 109.46931 * 270.00401 * 3 2 1
5 5 H 1.48498 * 109.46965 * 30.00038 * 3 2 1
6 6 H 1.48500 * 109.47328 * 150.00442 * 3 2 1
7 7 C 1.40250 * 120.00017 * 180.02562 * 2 1 3
8 8 H 1.08000 * 119.99801 * 197.73545 * 7 2 1
9 9 C 1.41091 * 119.99951 * 17.74137 * 7 2 1
10 10 C 1.40901 * 120.09822 * 24.79101 * 9 7 2
11 11 C 1.36300 * 119.89267 * 180.23439 * 10 9 7
12 12 C 1.40059 * 120.10451 * 359.51999 * 11 10 9
13 13 C 1.47511 * 119.90250 * 180.27974 * 12 11 10
14 14 O 1.21509 * 119.99712 * 359.97438 * 13 12 11
15 15 O 1.34779 * 120.00122 * 180.02562 * 13 12 11
16 16 C 1.45197 * 117.00027 * 179.97438 * 15 13 12
17 17 H 1.09001 * 109.47171 * 30.00019 * 16 15 13
18 18 C 1.53003 * 109.47174 * 149.99641 * 16 15 13
19 19 C 1.50702 * 109.47028 * 295.00452 * 18 16 15
20 20 C 1.38241 * 119.99582 * 269.72238 * 19 18 16
21 21 C 1.38234 * 119.99615 * 179.76718 * 20 19 18
22 22 C 1.38228 * 119.99979 * 0.50816 * 21 20 19
23 23 C 1.38234 * 120.00644 * 359.74684 * 22 21 20
24 24 C 1.38228 * 120.00150 * 89.99774 * 19 18 16
25 25 C 1.50695 * 109.47405 * 269.99749 * 16 15 13
26 26 N 1.34772 * 120.00571 * 179.97438 * 25 16 15
27 27 O 1.21288 * 119.99795 * 359.97438 * 25 16 15
28 28 C 1.40067 * 120.20103 * 0.25631 * 12 11 10
29 29 C 1.36301 * 120.09773 * 359.97438 * 28 12 11
30 30 H 0.97002 * 120.00168 * 359.97438 * 1 2 3
31 31 H 1.08000 * 120.05183 * 0.02562 * 10 9 7
32 32 H 1.08010 * 119.94686 * 179.80160 * 11 10 9
33 33 H 1.09004 * 109.46530 * 54.99935 * 18 16 15
34 34 H 1.08998 * 109.47268 * 175.00176 * 18 16 15
35 35 H 1.07997 * 120.00012 * 0.02562 * 20 19 18
36 36 H 1.08007 * 119.99539 * 180.22954 * 21 20 19
37 37 H 1.08002 * 120.00033 * 179.72141 * 22 21 20
38 38 H 1.07993 * 120.00376 * 179.97438 * 23 22 21
39 39 H 1.07997 * 120.00358 * 0.02562 * 24 19 18
40 40 H 0.97003 * 119.99546 * 0.02562 * 26 25 16
41 41 H 0.96999 * 120.00204 * 179.97438 * 26 25 16
42 42 H 1.07992 * 119.95311 * 180.02562 * 28 12 11
43 43 H 1.08003 * 120.04977 * 180.02562 * 29 28 12
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 1.3063 0.0000 0.0000
3 14 2.2403 1.6177 0.0000
4 1 2.4877 2.0464 -1.4001
5 1 1.4378 2.6526 0.7000
6 1 3.5379 1.4402 0.6999
7 6 2.0076 -1.2146 -0.0005
8 1 3.0491 -1.2369 0.2844
9 6 1.3524 -2.4073 -0.3734
10 6 0.2236 -2.3599 -1.2153
11 6 -0.4089 -3.5142 -1.5690
12 6 0.0675 -4.7469 -1.1051
13 6 -0.6168 -5.9939 -1.4957
14 8 -1.5926 -5.9507 -2.2185
15 8 -0.1604 -7.1812 -1.0501
16 6 -0.8835 -8.3667 -1.4742
17 1 -1.3245 -8.1917 -2.4555
18 6 0.0812 -9.5517 -1.5527
19 6 1.1008 -9.2987 -2.6332
20 6 0.8548 -9.7177 -3.9274
21 6 1.7880 -9.4813 -4.9195
22 6 2.9715 -8.8353 -4.6153
23 6 3.2199 -8.4210 -3.3201
24 6 2.2844 -8.6527 -2.3290
25 6 -1.9744 -8.6721 -0.4805
26 7 -2.7804 -9.7355 -0.6700
27 8 -2.1272 -7.9609 0.4900
28 6 1.1921 -4.7992 -0.2719
29 6 1.8282 -3.6496 0.0908
30 1 -0.4850 0.8400 0.0004
31 1 -0.1418 -1.4101 -1.5770
32 1 -1.2763 -3.4787 -2.2118
33 1 0.5884 -9.6712 -0.5953
34 1 -0.4762 -10.4593 -1.7844
35 1 -0.0682 -10.2260 -4.1642
36 1 1.5941 -9.8054 -5.9314
37 1 3.7026 -8.6546 -5.3895
38 1 4.1448 -7.9166 -3.0825
39 1 2.4787 -8.3296 -1.3170
40 1 -2.6580 -10.3046 -1.4460
41 1 -3.4824 -9.9323 -0.0302
42 1 1.5563 -5.7519 0.0832
43 1 2.6955 -3.6909 0.7330
RHF calculation, no. of doubly occupied orbitals= 62
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
ZINC000754863715.mol2 43
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 22:31:32
Heat of formation + Delta-G solvation = -111.474323 kcal
Electronic energy + Delta-G solvation = -28414.893555 eV
Core-core repulsion = 24388.166049 eV
Total energy + Delta-G solvation = -4026.727506 eV
No. of doubly occupied orbitals = 62
Molecular weight
(most abundant/longest-lived isotopes) = 339.130 amu
Computer time = 0.87 seconds
Orbital eigenvalues (eV)
-41.82709 -40.34688 -39.95097 -39.16601 -37.29758 -35.78219 -35.31175 -33.98987
-32.14623 -31.71911 -31.49461 -30.27348 -27.97215 -25.87918 -24.32858 -23.43075
-23.02684 -22.26243 -21.83885 -21.27702 -19.44718 -19.02956 -18.84820 -18.11718
-17.61351 -17.37603 -17.12504 -16.32907 -16.23399 -15.99036 -15.79181 -15.67153
-15.27607 -15.01219 -14.95251 -14.38032 -14.24115 -14.06770 -13.85835 -13.81958
-13.69134 -13.28080 -13.21231 -12.88636 -12.74306 -12.51638 -12.45316 -12.38649
-12.02427 -11.84629 -11.79017 -11.42815 -11.28610 -11.17913 -10.94575 -10.80593
-9.75764 -9.65554 -9.60714 -9.53825 -8.85710 -6.56399 0.22684 0.42943
0.56306 1.12274 1.35673 1.39866 1.40538 1.54345 1.67938 1.89067
2.14094 2.42072 2.68544 2.90460 3.58996 3.62587 3.74893 3.89576
3.97464 4.09273 4.18201 4.21706 4.31942 4.34403 4.39390 4.52570
4.65755 4.76464 4.83572 4.90905 4.96426 5.12167 5.16295 5.19123
5.21820 5.35029 5.53050 5.60015 5.68037 5.72553 5.75554 5.78366
5.90999 5.96345 6.13029 6.17157 6.27748 6.47518 6.68689 6.80813
6.97837 7.20143 8.09315
Molecular weight = 339.13amu
Principal moments of inertia in cm(-1)
A = 0.012739 B = 0.003049 C = 0.002633
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2197.375493 B = 9180.160955 C =10631.444633
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 N -0.795 5.795
2 C 0.033 3.967
3 Si 0.994 3.006
4 H -0.259 1.259
5 H -0.266 1.266
6 H -0.250 1.250
7 C -0.458 4.458
8 H 0.097 0.903
9 C 0.106 3.894
10 C -0.200 4.200
11 C -0.043 4.043
12 C -0.290 4.290
13 C 0.523 3.477
14 O -0.572 6.572
15 O -0.329 6.329
16 C 0.070 3.930
17 H 0.110 0.890
18 C -0.060 4.060
19 C -0.102 4.102
20 C -0.120 4.120
21 C -0.130 4.130
22 C -0.130 4.130
23 C -0.137 4.137
24 C -0.119 4.119
25 C 0.502 3.498
26 N -0.820 5.820
27 O -0.582 6.582
28 C -0.019 4.019
29 C -0.249 4.249
30 H 0.299 0.701
31 H 0.112 0.888
32 H 0.097 0.903
33 H 0.090 0.910
34 H 0.141 0.859
35 H 0.152 0.848
36 H 0.145 0.855
37 H 0.138 0.862
38 H 0.128 0.872
39 H 0.117 0.883
40 H 0.422 0.578
41 H 0.413 0.587
42 H 0.124 0.876
43 H 0.118 0.882
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.319 -18.913 -7.026 20.309
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 -0.418 5.418
2 C -0.187 4.187
3 Si 0.813 3.187
4 H -0.184 1.184
5 H -0.191 1.191
6 H -0.173 1.173
7 C -0.484 4.484
8 H 0.115 0.885
9 C 0.102 3.898
10 C -0.220 4.220
11 C -0.062 4.062
12 C -0.293 4.293
13 C 0.376 3.624
14 O -0.467 6.467
15 O -0.245 6.245
16 C 0.011 3.989
17 H 0.127 0.873
18 C -0.097 4.097
19 C -0.102 4.102
20 C -0.137 4.137
21 C -0.148 4.148
22 C -0.148 4.148
23 C -0.155 4.155
24 C -0.137 4.137
25 C 0.286 3.714
26 N -0.387 5.387
27 O -0.461 6.461
28 C -0.038 4.038
29 C -0.268 4.268
30 H 0.110 0.890
31 H 0.130 0.870
32 H 0.115 0.885
33 H 0.109 0.891
34 H 0.159 0.841
35 H 0.169 0.831
36 H 0.163 0.837
37 H 0.155 0.845
38 H 0.146 0.854
39 H 0.135 0.865
40 H 0.255 0.745
41 H 0.246 0.754
42 H 0.142 0.858
43 H 0.136 0.864
Dipole moment (debyes) X Y Z Total
from point charges 1.877 -18.251 -6.651 19.516
hybrid contribution -0.406 0.667 0.021 0.782
sum 1.471 -17.584 -6.630 18.850
Atomic orbital electron populations
1.69791 1.09699 1.32001 1.30326 1.27129 0.95502 1.05445 0.90644
0.85008 0.79191 0.74579 0.79898 1.18351 1.19052 1.17309 1.20280
0.99034 0.91842 1.37234 0.88453 1.18189 0.90632 0.93595 0.87344
1.20927 1.00994 0.96510 1.03525 1.20517 0.97103 0.91824 0.96711
1.18424 1.05241 0.89165 1.16434 1.21360 0.81126 0.84118 0.75834
1.90641 1.28829 1.87794 1.39476 1.86668 1.54340 1.14292 1.69166
1.22799 0.92737 0.85621 0.97785 0.87255 1.20762 0.95091 0.94566
0.99247 1.19807 0.95212 0.99919 0.95258 1.21401 1.00425 1.00123
0.91771 1.21480 0.93961 0.99021 1.00341 1.21483 0.98334 0.98377
0.96604 1.21407 1.00030 1.00201 0.93819 1.21280 0.94362 0.98063
1.00011 1.21082 0.83262 0.81030 0.86045 1.43489 1.35528 1.28863
1.30863 1.90798 1.72366 1.50396 1.32513 1.20710 0.92290 0.98046
0.92733 1.20933 1.05309 0.92292 1.08283 0.88982 0.87023 0.88457
0.89111 0.84139 0.83080 0.83686 0.84463 0.85449 0.86523 0.74533
0.75389 0.85825 0.86406
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 N -0.80 -39.62 10.95 21.88 0.24 -39.38 16
2 C 0.03 1.53 5.14 85.36 0.44 1.97 16
3 Si 0.99 34.84 29.60 68.60 2.03 36.87 16
4 H -0.26 -8.85 7.11 99.48 0.71 -8.15 16
5 H -0.27 -8.91 7.11 99.48 0.71 -8.20 16
6 H -0.25 -8.37 7.11 99.48 0.71 -7.66 16
7 C -0.46 -23.03 9.04 23.46 0.21 -22.81 16
8 H 0.10 4.55 7.91 -2.91 -0.02 4.52 16
9 C 0.11 5.62 5.57 -21.28 -0.12 5.50 16
10 C -0.20 -10.87 8.63 22.47 0.19 -10.67 16
11 C -0.04 -2.26 9.52 22.26 0.21 -2.05 16
12 C -0.29 -14.71 5.89 -19.95 -0.12 -14.83 16
13 C 0.52 24.79 7.82 70.27 0.55 25.34 16
14 O -0.57 -28.60 15.58 19.81 0.31 -28.30 16
15 O -0.33 -12.94 8.15 -50.51 -0.41 -13.36 16
16 C 0.07 1.99 2.35 29.85 0.07 2.06 16
17 H 0.11 3.13 7.16 -2.39 -0.02 3.11 16
18 C -0.06 -1.12 5.01 29.85 0.15 -0.97 16
19 C -0.10 -2.23 4.97 -19.87 -0.10 -2.33 16
20 C -0.12 -2.17 9.70 22.27 0.22 -1.96 16
21 C -0.13 -2.39 10.05 22.27 0.22 -2.17 16
22 C -0.13 -2.68 10.05 22.27 0.22 -2.46 16
23 C -0.14 -3.26 10.05 22.27 0.22 -3.04 16
24 C -0.12 -3.04 9.40 22.27 0.21 -2.83 16
25 C 0.50 14.67 7.48 87.66 0.66 15.32 16
26 N -0.82 -12.74 8.74 -173.54 -1.52 -14.25 16
27 O -0.58 -24.34 17.31 15.74 0.27 -24.06 16
28 C -0.02 -0.91 9.55 22.26 0.21 -0.70 16
29 C -0.25 -12.15 9.73 22.47 0.22 -11.94 16
30 H 0.30 13.25 8.29 -92.71 -0.77 12.48 16
31 H 0.11 6.16 6.16 -2.91 -0.02 6.14 16
32 H 0.10 5.06 7.63 -2.91 -0.02 5.04 16
33 H 0.09 1.75 8.09 -2.38 -0.02 1.73 16
34 H 0.14 1.23 7.37 -2.39 -0.02 1.21 16
35 H 0.15 1.69 8.06 -2.91 -0.02 1.67 16
36 H 0.15 1.85 8.06 -2.91 -0.02 1.83 16
37 H 0.14 2.20 8.06 -2.91 -0.02 2.18 16
38 H 0.13 2.74 8.06 -2.91 -0.02 2.72 16
39 H 0.12 3.08 8.06 -2.91 -0.02 3.05 16
40 H 0.42 2.79 8.19 -92.71 -0.76 2.03 16
41 H 0.41 5.49 8.93 -92.71 -0.83 4.66 16
42 H 0.12 5.17 7.59 -2.91 -0.02 5.15 16
43 H 0.12 5.17 8.06 -2.91 -0.02 5.15 16
Total: -1.00 -76.46 377.26 4.08 -72.38
By element:
Atomic # 1 Polarization: 39.18 SS G_CDS: -0.51 Total: 38.67 kcal
Atomic # 6 Polarization: -32.24 SS G_CDS: 3.67 Total: -28.56 kcal
Atomic # 7 Polarization: -52.36 SS G_CDS: -1.28 Total: -53.64 kcal
Atomic # 8 Polarization: -65.89 SS G_CDS: 0.17 Total: -65.72 kcal
Atomic # 14 Polarization: 34.84 SS G_CDS: 2.03 Total: 36.87 kcal
Total: -76.46 4.08 -72.38 kcal
The number of atoms in the molecule is 43
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.
ZINC000754863715.mol2 43
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 -39.099 kcal
(2) G-P(sol) polarization free energy of solvation -76.457 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -115.557 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.082 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.375 kcal
(6) G-S(sol) free energy of system = (1) + (5) -111.474 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 0.87 seconds