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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: M06-2X/6-311G**

19 10 17 12 22

States and conformations

State Conformation minimum conformation conformer description state description
1 1 yes C1 1A
Energy calculated at M06-2X/6-311G**
 hartrees
Energy at 0K-398.920062
Energy at 298.15K-398.930270
HF Energy-398.920062
Nuclear repulsion energy326.874059
The energy at 298.15K was derived from the energy at 0K and an integrated heat capacity that used the calculated vibrational frequencies.
Vibrational Frequencies calculated at M06-2X/6-311G**
Mode Number Symmetry Frequency
(cm-1)
Scaled Frequency
(cm-1)
IR Intensities
(km mol-1)
Raman Act
(Å4/u)
Dep P Dep U
1 A 3872 3872 80.53      
2 A 3832 3832 100.03      
3 A 3620 3620 8.75      
4 A 3533 3533 2.96      
5 A 3154 3154 15.09      
6 A 3082 3082 10.57      
7 A 3028 3028 42.62      
8 A 1859 1859 289.73      
9 A 1669 1669 40.63      
10 A 1517 1517 4.01      
11 A 1450 1450 33.58      
12 A 1415 1415 27.43      
13 A 1404 1404 62.83      
14 A 1387 1387 11.95      
15 A 1332 1332 9.89      
16 A 1258 1258 19.59      
17 A 1212 1212 78.12      
18 A 1197 1197 152.77      
19 A 1161 1161 21.85      
20 A 1136 1136 114.20      
21 A 1048 1048 32.87      
22 A 1012 1012 0.46      
23 A 891 891 173.87      
24 A 831 831 38.87      
25 A 760 760 30.28      
26 A 643 643 102.88      
27 A 589 589 8.92      
28 A 567 567 212.02      
29 A 530 530 16.79      
30 A 447 447 7.01      
31 A 315 315 11.19      
32 A 303 303 15.78      
33 A 271 271 23.96      
34 A 232 232 2.91      
35 A 177 177 2.70      
36 A 48 48 0.70      

Unscaled Zero Point Vibrational Energy (zpe) 25390.8 cm-1
Scaled (by 1) Zero Point Vibrational Energy (zpe) 25390.8 cm-1
See section III.C.1 List or set vibrational scaling factors to change the scale factors used here.
See section III.C.2 Calculate a vibrational scaling factor for a given set of molecules to determine the least squares best scaling factor.
Rotational Constants (cm-1) from geometry optimized at M06-2X/6-311G**
ABC
0.12053 0.07893 0.05165

See section I.F.4 to change rotational constant units
Geometric Data calculated at M06-2X/6-311G**

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.765 -0.549 -0.005
O2 2.048 -0.361 -0.344
O3 0.373 -1.552 0.532
C4 -0.084 0.676 -0.318
C5 -1.504 0.457 0.195
O6 -2.100 -0.679 -0.375
N7 0.462 1.912 0.221
H8 2.534 -1.161 -0.106
H9 -0.125 0.759 -1.409
H10 -1.479 0.398 1.292
H11 -2.095 1.329 -0.083
H12 -1.645 -1.445 -0.015
H13 1.366 2.119 -0.186
H14 0.583 1.845 1.226

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34071.20331.52352.48992.89222.49061.87452.11532.75933.42272.57122.74082.6982
O21.34072.23492.37183.68464.16112.82930.96602.66673.96164.48253.86332.57703.0787
O31.20332.23492.42812.76952.77493.47962.28723.05852.79423.84312.09293.87013.4737
C41.52352.37182.42811.52472.42961.45543.20581.09452.14792.12692.65082.04982.0484
C52.48993.68462.76951.52471.40402.44574.36022.13601.09891.08991.91913.33742.7100
O62.89224.16112.77492.42961.40403.69274.66732.65312.07922.02930.96144.45824.0168
N72.49062.82933.47961.45542.44573.69273.72132.08122.68472.64013.97101.01251.0141
H81.87450.96602.28723.20584.36024.66733.72133.52934.52635.25654.18963.48293.8231
H92.11532.66673.05851.09452.13602.65312.08123.52933.04242.44183.01862.35912.9363
H102.75933.96162.79422.14791.09892.07922.68474.52633.04241.77152.26523.63842.5203
H113.42274.48253.84312.12691.08992.02932.64015.25652.44181.77152.81173.55093.0254
H122.57123.86332.09292.65081.91910.96143.97104.18963.01862.26522.81174.66854.1630
H132.74082.57703.87012.04983.33744.45821.01253.48292.35913.63843.55094.66851.6372
H142.69823.07873.47372.04842.71004.01681.01413.82312.93632.52033.02544.16301.6372

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.601 C1 C4 C5 109.538
C1 C4 N7 113.437 C1 C4 H9 106.644
O2 C1 O3 122.834 O2 C1 C4 111.642
O3 C1 C4 125.453 C4 C5 O6 112.048
C4 C5 H10 108.827 C4 C5 H11 107.719
C4 N7 H13 111.049 C4 N7 H14 110.826
C5 C4 N7 110.289 C5 C4 H9 108.154
C5 O6 H12 106.956 O6 C5 H10 111.762
O6 C5 H11 108.258 N7 C4 H9 108.585
H10 C5 H11 108.067 H13 N7 H14 107.773
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at M06-2X/6-311G** Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.446      
2 O -0.367      
3 O -0.385      
4 C -0.224      
5 C -0.033      
6 O -0.419      
7 N -0.479      
8 H 0.278      
9 H 0.197      
10 H 0.120      
11 H 0.156      
12 H 0.266      
13 H 0.231      
14 H 0.212      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.224 0.336 0.743 3.325
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.539 -2.202 -1.250
y -2.202 -44.264 1.633
z -1.250 1.633 -40.045
Traceless
 xyz
x 0.616 -2.202 -1.250
y -2.202 -3.472 1.633
z -1.250 1.633 2.857
Polar
3z2-r25.713
x2-y22.725
xy-2.202
xz-1.250
yz1.633


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.874 0.181 -0.201
y 0.181 7.725 -0.149
z -0.201 -0.149 5.885


<r2> (average value of r2) Å2
<r2> 214.565
(<r2>)1/2 14.648