Wall clock time and date at job start Wed Apr 1 2020 05:45:08
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 1.53002 * 1
3 3 H 1.08996 * 109.47250 * 2 1
4 4 C 1.52999 * 109.47286 * 239.99373 * 2 1 3
5 5 N 1.46897 * 109.47351 * 185.00210 * 4 2 1
6 6 C 1.46957 * 110.99980 * 293.80410 * 5 4 2
7 7 C 1.53049 * 109.36151 * 176.81206 * 6 5 4
8 8 N 1.46954 * 109.36943 * 58.39905 * 7 6 5
9 9 C 1.46897 * 111.00299 * 176.80920 * 8 7 6
10 10 C 1.46961 * 110.87785 * 300.68108 * 8 7 6
11 11 C 1.46953 * 110.99972 * 169.99686 * 5 4 2
12 12 N 1.46507 * 109.46804 * 119.99469 * 2 1 3
13 13 C 1.34770 * 119.99902 * 274.99927 * 12 2 1
14 14 O 1.21575 * 120.00210 * 0.02562 * 13 12 2
15 15 N 1.34778 * 119.99647 * 179.72507 * 13 12 2
16 16 C 1.39245 * 119.99917 * 175.13220 * 15 13 12
17 17 C 1.39481 * 119.83248 * 325.32202 * 16 15 13
18 18 C 1.36372 * 120.16945 * 179.75897 * 17 16 15
19 19 C 1.40875 * 119.82761 * 0.51738 * 18 17 16
20 20 C 1.41154 * 120.16555 * 179.71804 * 19 18 17
21 21 H 1.07994 * 119.99998 * 205.37187 * 20 19 18
22 22 C 1.39893 * 120.00094 * 25.37244 * 20 19 18
23 23 N 1.30886 * 120.00097 * 16.81531 * 22 20 19
24 24 Si 1.86794 * 120.00294 * 196.82141 * 22 20 19
25 25 H 1.48503 * 109.47634 * 89.99456 * 24 22 20
26 26 H 1.48502 * 109.47482 * 209.99960 * 24 22 20
27 27 H 1.48507 * 109.46953 * 329.99674 * 24 22 20
28 28 C 1.40865 * 119.66911 * 359.73840 * 19 18 17
29 29 C 1.36372 * 119.83372 * 0.02562 * 28 19 18
30 30 H 1.09003 * 109.47113 * 300.00518 * 1 2 3
31 31 H 1.09005 * 109.46919 * 60.00375 * 1 2 3
32 32 H 1.08994 * 109.47033 * 180.02562 * 1 2 3
33 33 H 1.09003 * 109.47058 * 305.00612 * 4 2 1
34 34 H 1.08995 * 109.47072 * 64.99846 * 4 2 1
35 35 H 1.09003 * 109.48253 * 296.77336 * 6 5 4
36 36 H 1.08989 * 109.49201 * 56.83885 * 6 5 4
37 37 H 1.09000 * 109.49079 * 298.42437 * 7 6 5
38 38 H 1.09003 * 109.50501 * 178.37494 * 7 6 5
39 39 H 1.08998 * 109.47078 * 183.79906 * 9 8 7
40 40 H 1.09001 * 109.47054 * 303.79754 * 9 8 7
41 41 H 1.08998 * 109.47090 * 63.80253 * 9 8 7
42 42 H 1.09006 * 109.48542 * 299.34548 * 10 8 7
43 43 H 1.09004 * 109.50521 * 179.30117 * 10 8 7
44 44 H 1.09000 * 109.49352 * 303.15960 * 11 5 4
45 45 H 1.09000 * 109.48757 * 63.20653 * 11 5 4
46 46 H 0.97002 * 119.99576 * 94.99602 * 12 2 1
47 47 H 0.96992 * 120.00114 * 355.13203 * 15 13 12
48 48 H 1.08006 * 119.91668 * 0.02820 * 17 16 15
49 49 H 1.08003 * 120.09263 * 180.26287 * 18 17 16
50 50 H 0.96992 * 120.00216 * 179.97438 * 23 22 20
51 51 H 1.08004 * 120.08664 * 179.97438 * 28 19 18
52 52 H 1.08001 * 119.91963 * 179.97438 * 29 28 19
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 1.5300 0.0000 0.0000
3 1 1.8934 1.0276 0.0000
4 6 2.0401 -0.7214 -1.2491
5 7 3.5041 -0.8268 -1.1903
6 6 4.1314 0.4993 -1.2756
7 6 5.6481 0.3534 -1.1311
8 7 6.1550 -0.5347 -2.1864
9 6 7.6190 -0.6402 -2.1276
10 6 5.5276 -1.8609 -2.1011
11 6 4.0109 -1.7151 -2.2456
12 7 2.0183 -0.6905 1.1963
13 6 2.1470 -0.0181 2.3572
14 8 1.8574 1.1614 2.4118
15 7 2.5909 -0.6548 3.4590
16 6 2.8205 0.0606 4.6314
17 6 3.3012 1.3682 4.5636
18 6 3.5238 2.0767 5.7073
19 6 3.2774 1.4810 6.9598
20 6 3.5110 2.2058 8.1483
21 1 3.7248 1.6810 9.0677
22 6 3.4656 3.6039 8.1353
23 7 2.8963 4.2310 7.1375
24 14 4.2177 4.5760 9.5420
25 1 5.6416 4.8670 9.2371
26 1 3.4774 5.8519 9.7135
27 1 4.1319 3.7819 10.7939
28 6 2.7971 0.1581 7.0203
29 6 2.5746 -0.5363 5.8679
30 1 -0.3633 0.5139 0.8900
31 1 -0.3633 0.5138 -0.8901
32 1 -0.3633 -1.0276 0.0005
33 1 1.6053 -1.7199 -1.2950
34 1 1.7517 -0.1586 -2.1369
35 1 3.8998 0.9497 -2.2408
36 1 3.7494 1.1345 -0.4765
37 1 5.8811 -0.0718 -0.1548
38 1 6.1183 1.3325 -1.2228
39 1 7.9732 -1.2486 -2.9597
40 1 8.0579 0.3554 -2.1928
41 1 7.9122 -1.1057 -1.1866
42 1 5.7593 -2.3114 -1.1359
43 1 5.9096 -2.4964 -2.9000
44 1 3.5410 -2.6942 -2.1536
45 1 3.7776 -1.2899 -3.2218
46 1 2.2489 -1.6317 1.1528
47 1 2.7505 -1.6112 3.4353
48 1 3.4935 1.8222 3.6026
49 1 3.8920 3.0906 5.6532
50 1 2.8645 5.2003 7.1286
51 1 2.6062 -0.3054 7.9770
52 1 2.2067 -1.5507 5.9127
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
ZINC000106583667.mol2 52
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 05:45:08
Heat of formation + Delta-G solvation = -13.494717 kcal
Electronic energy + Delta-G solvation = -30727.034421 eV
Core-core repulsion = 26725.321128 eV
Total energy + Delta-G solvation = -4001.713293 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 346.211 amu
Computer time = 1.38 seconds
Orbital eigenvalues (eV)
-41.40979 -40.33020 -39.24349 -37.55367 -36.11657 -35.31859 -34.68261 -32.15179
-31.90851 -31.35099 -30.42717 -29.51168 -26.79014 -26.27997 -24.78576 -24.12300
-23.41680 -23.00813 -21.73514 -21.41595 -20.72162 -19.38768 -19.16283 -18.12784
-17.29644 -17.16756 -16.70439 -16.17069 -16.04411 -15.89372 -15.81745 -15.72185
-15.57417 -15.18017 -15.12197 -14.69712 -14.49463 -14.10187 -13.90987 -13.75885
-13.54077 -13.45254 -13.30768 -13.18149 -12.97312 -12.80039 -12.72125 -12.64209
-12.56501 -12.29900 -12.25995 -12.16024 -11.74289 -11.69952 -11.66857 -11.44469
-11.22477 -10.99117 -10.47356 -9.94128 -9.45943 -9.41869 -9.26543 -8.78357
-8.56572 -6.23127 0.90525 1.17025 1.38332 1.49671 1.52815 1.89758
2.22174 2.32979 2.80218 2.84621 2.94995 3.51190 3.73825 3.77842
3.86416 4.05614 4.17110 4.18951 4.30964 4.33761 4.45403 4.46411
4.49479 4.50443 4.57791 4.62434 4.65073 4.76486 4.79482 4.83038
4.87387 4.96675 4.98795 5.00202 5.05455 5.06291 5.13540 5.22721
5.30109 5.33741 5.49168 5.67283 5.70742 5.84298 5.91743 5.93728
6.11856 6.12394 6.15518 6.17779 6.30988 6.41087 6.71998 6.96195
7.05694 7.30545 7.81497 8.37534
Molecular weight = 346.21amu
Principal moments of inertia in cm(-1)
A = 0.013005 B = 0.002396 C = 0.002210
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2152.571151 B =11685.535429 C =12663.888946
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.157 4.157
2 C 0.165 3.835
3 H 0.053 0.947
4 C 0.058 3.942
5 N -0.543 5.543
6 C 0.063 3.937
7 C 0.060 3.940
8 N -0.552 5.552
9 C 0.025 3.975
10 C 0.055 3.945
11 C 0.061 3.939
12 N -0.707 5.707
13 C 0.693 3.307
14 O -0.631 6.631
15 N -0.661 5.661
16 C 0.036 3.964
17 C -0.099 4.099
18 C -0.177 4.177
19 C 0.070 3.930
20 C -0.496 4.496
21 H 0.081 0.919
22 C 0.028 3.972
23 N -0.832 5.832
24 Si 0.985 3.015
25 H -0.263 1.263
26 H -0.271 1.271
27 H -0.253 1.253
28 C -0.221 4.221
29 C -0.104 4.104
30 H 0.029 0.971
31 H 0.081 0.919
32 H 0.077 0.923
33 H 0.107 0.893
34 H 0.061 0.939
35 H 0.043 0.957
36 H 0.059 0.941
37 H 0.023 0.977
38 H 0.077 0.923
39 H 0.083 0.917
40 H 0.068 0.932
41 H 0.021 0.979
42 H 0.032 0.968
43 H 0.096 0.904
44 H 0.101 0.899
45 H 0.042 0.958
46 H 0.410 0.590
47 H 0.412 0.588
48 H 0.087 0.913
49 H 0.095 0.905
50 H 0.285 0.715
51 H 0.110 0.890
52 H 0.133 0.867
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges 2.508 -14.185 -21.145 25.585
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 -0.216 4.216
2 C 0.059 3.941
3 H 0.072 0.928
4 C -0.070 4.070
5 N -0.268 5.268
6 C -0.065 4.065
7 C -0.068 4.068
8 N -0.277 5.277
9 C -0.123 4.123
10 C -0.073 4.073
11 C -0.067 4.067
12 N -0.363 5.363
13 C 0.394 3.606
14 O -0.511 6.511
15 N -0.309 5.309
16 C -0.059 4.059
17 C -0.120 4.120
18 C -0.197 4.197
19 C 0.068 3.932
20 C -0.526 4.526
21 H 0.099 0.901
22 C -0.185 4.185
23 N -0.459 5.459
24 Si 0.806 3.194
25 H -0.188 1.188
26 H -0.196 1.196
27 H -0.177 1.177
28 C -0.241 4.241
29 C -0.125 4.125
30 H 0.048 0.952
31 H 0.100 0.900
32 H 0.096 0.904
33 H 0.126 0.874
34 H 0.080 0.920
35 H 0.061 0.939
36 H 0.077 0.923
37 H 0.041 0.959
38 H 0.095 0.905
39 H 0.102 0.898
40 H 0.087 0.913
41 H 0.040 0.960
42 H 0.050 0.950
43 H 0.114 0.886
44 H 0.120 0.880
45 H 0.061 0.939
46 H 0.246 0.754
47 H 0.249 0.751
48 H 0.105 0.895
49 H 0.113 0.887
50 H 0.096 0.904
51 H 0.128 0.872
52 H 0.151 0.849
Dipole moment (debyes) X Y Z Total
from point charges 2.185 -12.925 -21.263 24.979
hybrid contribution 0.452 0.340 0.765 0.951
sum 2.638 -12.585 -20.498 24.198
Atomic orbital electron populations
1.22113 0.94493 1.03077 1.01883 1.20816 0.93872 0.96047 0.83392
0.92837 1.22389 0.87083 1.02361 0.95156 1.62081 1.05574 1.11225
1.47904 1.22025 0.93640 0.90884 0.99988 1.22066 0.94939 0.97382
0.92420 1.62235 1.06728 1.12165 1.46526 1.22386 0.86641 1.02562
1.00746 1.22245 0.94380 0.89747 1.00914 1.22207 0.94292 0.97760
0.92443 1.44715 1.70716 1.13945 1.06947 1.16207 0.78142 0.84859
0.81402 1.90912 1.58262 1.16900 1.85068 1.41879 1.69036 1.11327
1.08685 1.17012 1.10359 0.93383 0.85120 1.20424 1.00013 0.94725
0.96837 1.20862 1.06645 0.99814 0.92374 1.17986 0.89452 0.92468
0.93341 1.19795 1.44455 0.92049 0.96254 0.90078 1.26857 0.92677
0.99214 0.99785 1.69958 1.32410 1.10871 1.32638 0.85160 0.78826
0.77325 0.78096 1.18799 1.19579 1.17678 1.20819 1.09515 0.96449
0.97341 1.20372 1.01532 0.99958 0.90591 0.95160 0.90026 0.90393
0.87435 0.92045 0.93852 0.92269 0.95864 0.90503 0.89804 0.91279
0.96037 0.94976 0.88609 0.88033 0.93942 0.75383 0.75138 0.89455
0.88736 0.90433 0.87172 0.84935
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 -0.16 -3.14 9.48 71.98 0.68 -2.46 16
2 C 0.16 3.59 2.36 44.99 0.11 3.70 16
3 H 0.05 1.56 6.17 -2.39 -0.01 1.54 16
4 C 0.06 0.83 4.51 86.30 0.39 1.22 16
5 N -0.54 -9.19 4.43 -895.76 -3.97 -13.16 16
6 C 0.06 1.34 5.41 86.31 0.47 1.81 16
7 C 0.06 1.30 5.62 86.31 0.49 1.78 16
8 N -0.55 -9.88 4.97 -921.94 -4.58 -14.46 16
9 C 0.02 0.37 9.60 127.69 1.23 1.60 16
10 C 0.06 0.80 5.62 86.31 0.49 1.29 16
11 C 0.06 0.78 5.61 86.31 0.48 1.26 16
12 N -0.71 -17.38 4.81 -457.82 -2.20 -19.58 16
13 C 0.69 25.31 8.25 179.06 1.48 26.78 16
14 O -0.63 -30.18 13.74 -3.95 -0.05 -30.24 16
15 N -0.66 -23.37 5.31 -316.79 -1.68 -25.05 16
16 C 0.04 1.62 6.27 38.56 0.24 1.86 16
17 C -0.10 -5.32 8.57 22.13 0.19 -5.13 16
18 C -0.18 -10.26 8.63 22.48 0.19 -10.06 16
19 C 0.07 3.97 5.57 -21.27 -0.12 3.86 16
20 C -0.50 -27.75 9.04 23.39 0.21 -27.53 16
21 H 0.08 4.29 7.90 -2.91 -0.02 4.26 16
22 C 0.03 1.52 5.15 85.23 0.44 1.95 16
23 N -0.83 -47.12 10.94 21.82 0.24 -46.89 16
24 Si 0.99 40.08 29.59 68.60 2.03 42.11 16
25 H -0.26 -10.39 7.11 99.48 0.71 -9.68 16
26 H -0.27 -10.57 7.11 99.48 0.71 -9.86 16
27 H -0.25 -9.80 7.11 99.48 0.71 -9.10 16
28 C -0.22 -10.97 9.74 22.48 0.22 -10.75 16
29 C -0.10 -4.54 9.90 22.13 0.22 -4.32 16
30 H 0.03 0.84 8.14 -2.39 -0.02 0.82 16
31 H 0.08 1.30 8.14 -2.38 -0.02 1.28 16
32 H 0.08 1.21 8.14 -2.39 -0.02 1.19 16
33 H 0.11 1.01 8.03 -2.39 -0.02 0.99 16
34 H 0.06 0.78 8.12 -2.39 -0.02 0.76 16
35 H 0.04 0.89 8.14 -2.39 -0.02 0.87 16
36 H 0.06 1.58 6.45 -2.39 -0.02 1.56 16
37 H 0.02 0.59 8.14 -2.39 -0.02 0.57 16
38 H 0.08 1.63 8.13 -2.39 -0.02 1.61 16
39 H 0.08 0.98 8.14 -2.39 -0.02 0.96 16
40 H 0.07 1.02 8.13 -2.39 -0.02 1.00 16
41 H 0.02 0.34 8.14 -2.39 -0.02 0.32 16
42 H 0.03 0.54 8.14 -2.38 -0.02 0.52 16
43 H 0.10 1.04 8.14 -2.38 -0.02 1.02 16
44 H 0.10 0.88 8.07 -2.39 -0.02 0.86 16
45 H 0.04 0.56 8.14 -2.39 -0.02 0.54 16
46 H 0.41 7.47 8.62 -92.71 -0.80 6.67 16
47 H 0.41 10.73 8.83 -92.71 -0.82 9.92 16
48 H 0.09 4.82 6.48 -2.91 -0.02 4.80 16
49 H 0.09 5.81 6.18 -2.91 -0.02 5.80 16
50 H 0.29 14.71 8.30 -92.71 -0.77 13.94 16
51 H 0.11 5.00 8.06 -2.91 -0.02 4.98 16
52 H 0.13 4.58 8.06 -2.91 -0.02 4.55 16
Total: -1.00 -74.19 411.38 -3.52 -77.71
By element:
Atomic # 1 Polarization: 43.40 SS G_CDS: -0.69 Total: 42.70 kcal
Atomic # 6 Polarization: -20.55 SS G_CDS: 7.40 Total: -13.15 kcal
Atomic # 7 Polarization: -106.93 SS G_CDS: -12.19 Total: -119.13 kcal
Atomic # 8 Polarization: -30.18 SS G_CDS: -0.05 Total: -30.24 kcal
Atomic # 14 Polarization: 40.08 SS G_CDS: 2.03 Total: 42.11 kcal
Total: -74.19 -3.52 -77.71 kcal
The number of atoms in the molecule is 52
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.
ZINC000106583667.mol2 52
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 64.211 kcal
(2) G-P(sol) polarization free energy of solvation -74.191 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -9.979 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.516 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.706 kcal
(6) G-S(sol) free energy of system = (1) + (5) -13.495 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.38 seconds