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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: M06-2X/cc-pVDZ

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/cc-pVDZ
 hartrees
Energy at 0K-398.838456
Energy at 298.15K-398.848747
HF Energy-398.838456
Nuclear repulsion energy326.643334
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/cc-pVDZ
Mode Number Symmetry Frequency
(cm-1)
Scaled Frequency
(cm-1)
IR Intensities
(km mol-1)
Raman Act
4/u)
Dep P Dep U
1 A 3803 3803 100.28      
2 A 3774 3774 111.47      
3 A 3589 3589 6.99      
4 A 3503 3503 1.68      
5 A 3144 3144 20.94      
6 A 3067 3067 13.54      
7 A 3018 3018 59.30      
8 A 1862 1862 270.55      
9 A 1648 1648 34.86      
10 A 1490 1490 3.12      
11 A 1456 1456 36.36      
12 A 1407 1407 111.23      
13 A 1398 1398 16.58      
14 A 1382 1382 4.17      
15 A 1325 1325 12.96      
16 A 1246 1246 19.24      
17 A 1223 1223 47.07      
18 A 1209 1209 135.44      
19 A 1176 1176 53.52      
20 A 1147 1147 87.94      
21 A 1047 1047 41.83      
22 A 1015 1015 1.80      
23 A 932 932 161.12      
24 A 829 829 26.09      
25 A 759 759 37.49      
26 A 669 669 85.93      
27 A 596 596 165.34      
28 A 579 579 16.27      
29 A 547 547 34.38      
30 A 433 433 8.16      
31 A 336 336 16.70      
32 A 322 322 7.23      
33 A 263 263 18.22      
34 A 248 248 4.37      
35 A 179 179 1.79      
36 A 43 43 0.45      

Unscaled Zero Point Vibrational Energy (zpe) 25331.0 cm-1
Scaled (by 1) Zero Point Vibrational Energy (zpe) 25331.0 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/cc-pVDZ
ABC
0.12130 0.07961 0.05074

See section I.F.4 to change rotational constant units
Geometric Data calculated at M06-2X/cc-pVDZ

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.761 -0.550 -0.005
O2 2.047 -0.363 -0.339
O3 0.360 -1.559 0.524
C4 -0.083 0.680 -0.317
C5 -1.502 0.461 0.197
O6 -2.097 -0.673 -0.375
N7 0.468 1.913 0.219
H8 2.524 -1.173 -0.098
H9 -0.123 0.764 -1.415
H10 -1.472 0.402 1.302
H11 -2.099 1.339 -0.079
H12 -1.623 -1.436 -0.017
H13 1.382 2.099 -0.188
H14 0.600 1.830 1.227

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34221.20771.52372.48612.88452.48991.87272.12052.75673.42852.54362.72672.6840
O21.34222.24122.37213.68244.15612.82540.97092.67173.95794.48983.83772.55443.0584
O31.20772.24122.43192.76592.76203.48662.28493.06382.79383.84832.05943.86413.4691
C41.52372.37212.43191.52432.42651.45353.20651.10192.15132.13432.63362.04442.0429
C52.48613.68242.76591.52431.40242.44734.35492.14251.10701.09791.91243.33912.7115
O62.88454.15612.76202.42651.40243.69054.65672.65352.08732.03390.96654.45254.0130
N72.48992.82543.48661.45352.44733.69053.72162.08372.68732.64763.95511.01791.0194
H81.87270.97092.28493.20654.35494.65673.72163.53514.51815.26224.15683.46683.8045
H92.12052.67173.06381.10192.14252.65352.08373.53513.05502.45363.00672.35722.9393
H102.75673.95792.79382.15131.10702.08732.68734.51813.05501.78322.26713.64012.5181
H113.42854.48983.84832.13431.09792.03392.64765.26222.45361.78322.81633.56513.0384
H122.54363.83772.05942.63361.91240.96653.95514.15683.00672.26712.81634.64304.1420
H132.72672.55443.86412.04443.33914.45251.01793.46682.35723.64013.56514.64301.6387
H142.68403.05843.46912.04292.71154.01301.01943.80452.93932.51813.03844.14201.6387

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.022 C1 C4 C5 109.299
C1 C4 N7 113.483 C1 C4 H9 106.617
O2 C1 O3 122.943 O2 C1 C4 111.563
O3 C1 C4 125.438 C4 C5 O6 111.937
C4 C5 H10 108.645 C4 C5 H11 107.860
C4 N7 H13 110.391 C4 N7 H14 110.170
C5 C4 N7 110.518 C5 C4 H9 108.253
C5 O6 H12 106.207 O6 C5 H10 112.033
O6 C5 H11 108.258 N7 C4 H9 108.471
H10 C5 H11 107.947 H13 N7 H14 107.097
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at M06-2X/cc-pVDZ Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.236      
2 O -0.199      
3 O -0.281      
4 C -0.133      
5 C 0.173      
6 O -0.297      
7 N -0.174      
8 H 0.177      
9 H 0.075      
10 H 0.014      
11 H 0.050      
12 H 0.161      
13 H 0.104      
14 H 0.093      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.380 0.303 0.673 3.460
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.357 -2.265 -0.666
y -2.265 -44.215 1.021
z -0.666 1.021 -39.090
Traceless
 xyz
x 0.296 -2.265 -0.666
y -2.265 -3.992 1.021
z -0.666 1.021 3.696
Polar
3z2-r27.392
x2-y22.858
xy-2.265
xz-0.666
yz1.021


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.774 0.197 -0.015
y 0.197 7.436 -0.013
z -0.015 -0.013 5.611


<r2> (average value of r2) Å2
<r2> 214.896
(<r2>)1/2 14.659