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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: HSEh1PBE/aug-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 HSEh1PBE/aug-cc-pVDZ
 hartrees
Energy at 0K-398.627415
Energy at 298.15K-398.637403
HF Energy-398.627415
Nuclear repulsion energy326.259504
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 HSEh1PBE/aug-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 3795 3652 64.10      
2 A 3783 3640 97.08      
3 A 3622 3485 7.54      
4 A 3527 3394 2.18      
5 A 3139 3020 17.05      
6 A 3071 2955 13.61      
7 A 3008 2895 49.35      
8 A 1810 1741 282.25      
9 A 1646 1584 34.07      
10 A 1479 1423 5.61      
11 A 1431 1377 34.80      
12 A 1398 1345 49.98      
13 A 1383 1331 32.46      
14 A 1366 1315 5.75      
15 A 1310 1260 5.81      
16 A 1239 1193 19.53      
17 A 1193 1148 22.69      
18 A 1176 1132 195.30      
19 A 1146 1103 14.36      
20 A 1118 1075 113.59      
21 A 1036 997 35.38      
22 A 996 959 2.62      
23 A 860 827 129.98      
24 A 816 785 45.32      
25 A 748 720 20.26      
26 A 627 603 88.82      
27 A 585 563 10.13      
28 A 543 522 178.79      
29 A 515 496 9.15      
30 A 448 431 8.06      
31 A 297 286 5.46      
32 A 285 274 9.05      
33 A 261 251 28.39      
34 A 211 203 4.27      
35 A 154 148 4.26      
36 A 31 29 1.18      

Unscaled Zero Point Vibrational Energy (zpe) 25025.1 cm-1
Scaled (by 0.9622) Zero Point Vibrational Energy (zpe) 24079.1 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 HSEh1PBE/aug-cc-pVDZ
ABC
0.11879 0.07868 0.05203

See section I.F.4 to change rotational constant units
Geometric Data calculated at HSEh1PBE/aug-cc-pVDZ

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.788 -0.531 0.014
O2 2.059 -0.337 -0.377
O3 0.420 -1.544 0.565
C4 -0.092 0.672 -0.308
C5 -1.516 0.427 0.187
O6 -2.100 -0.713 -0.391
N7 0.412 1.927 0.229
H8 2.560 -1.132 -0.147
H9 -0.123 0.754 -1.405
H10 -1.509 0.366 1.289
H11 -2.123 1.295 -0.098
H12 -1.637 -1.481 -0.037
H13 1.312 2.168 -0.172
H14 0.525 1.878 1.237

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34401.21041.52512.50102.92222.49561.87762.11992.77643.43802.60562.75542.7143
O21.34402.24302.37733.69884.17622.86450.96732.64714.00064.49783.88452.62203.1407
O31.21042.24302.43612.78852.82083.48682.29203.07502.80963.86842.14523.88773.4887
C41.52512.37732.43611.52652.44071.45473.21141.10062.15682.13422.66402.05602.0547
C52.50103.69882.78851.52651.40562.44274.37602.13981.10461.09661.92513.33972.7159
O62.92224.17622.82082.44071.40563.69654.68482.66242.08302.02930.96374.47094.0324
N72.49562.86453.48681.45472.44273.69653.75622.08082.69302.63293.98561.01401.0159
H81.87760.96732.29203.21144.37604.68483.75623.51224.56745.27424.21303.52793.8874
H92.11992.64713.07501.10062.13982.66242.08083.51223.05462.44943.02632.36162.9433
H102.77644.00062.80962.15681.10462.08302.69304.56743.05461.77882.27803.65242.5357
H113.43804.49783.86842.13421.09662.02932.63295.27422.44941.77882.81853.54473.0229
H122.60563.88452.14522.66401.92510.96373.98564.21303.02632.27802.81854.69374.1938
H132.75542.62203.88772.05603.33974.47091.01403.52792.36163.65243.54474.69371.6392
H142.71433.14073.48872.05472.71594.03241.01593.88742.94332.53573.02294.19381.6392

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.533 C1 C4 C5 110.085
C1 C4 N7 113.735 C1 C4 H9 106.562
O2 C1 O3 122.740 O2 C1 C4 111.758
O3 C1 C4 125.499 C4 C5 O6 112.631
C4 C5 H10 109.061 C4 C5 H11 107.778
C4 N7 H13 111.530 C4 N7 H14 111.303
C5 C4 N7 110.019 C5 C4 H9 107.977
C5 O6 H12 107.215 O6 C5 H10 111.598
O6 C5 H11 107.754 N7 C4 H9 108.237
H10 C5 H11 107.828 H13 N7 H14 107.709
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at HSEh1PBE/aug-cc-pVDZ Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.849      
2 O -0.508      
3 O -0.579      
4 C 0.114      
5 C 1.223      
6 O -0.498      
7 N -0.152      
8 H 0.171      
9 H -0.248      
10 H -0.258      
11 H -0.191      
12 H 0.116      
13 H -0.012      
14 H -0.026      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.112 0.682 0.548 3.233
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.841 -2.175 -1.330
y -2.175 -44.670 1.680
z -1.330 1.680 -40.898
Traceless
 xyz
x 0.943 -2.175 -1.330
y -2.175 -3.301 1.680
z -1.330 1.680 2.358
Polar
3z2-r24.715
x2-y22.829
xy-2.175
xz-1.330
yz1.680


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 9.584 0.017 -0.206
y 0.017 9.514 -0.144
z -0.206 -0.144 7.355


<r2> (average value of r2) Å2
<r2> 215.087
(<r2>)1/2 14.666