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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: PBEPBE/Def2TZVPP

19 10 17 12 22

States and conformations

State Conformation minimum conformation conformer description state description
1 1 yes C1 1A
Energy calculated at PBEPBE/Def2TZVPP
 hartrees
Energy at 0K-398.687872
Energy at 298.15K-398.697615
HF Energy-398.687872
Nuclear repulsion energy324.261511
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 PBEPBE/Def2TZVPP
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 3654 3610 49.64      
2 A 3623 3579 52.72      
3 A 3498 3456 3.59      
4 A 3411 3369 1.29      
5 A 3036 3000 17.05      
6 A 2984 2948 12.61      
7 A 2912 2877 47.98      
8 A 1726 1705 249.05      
9 A 1603 1583 29.11      
10 A 1441 1423 4.53      
11 A 1381 1364 40.89      
12 A 1347 1331 1.38      
13 A 1337 1321 29.51      
14 A 1329 1313 18.50      
15 A 1266 1250 7.07      
16 A 1203 1188 14.67      
17 A 1146 1132 1.44      
18 A 1107 1094 156.58      
19 A 1087 1074 88.11      
20 A 1053 1040 105.03      
21 A 992 980 31.86      
22 A 959 948 2.16      
23 A 830 820 146.10      
24 A 787 778 30.98      
25 A 721 712 19.44      
26 A 610 603 79.05      
27 A 574 567 11.46      
28 A 518 512 169.07      
29 A 490 484 10.41      
30 A 439 433 10.37      
31 A 275 272 3.35      
32 A 271 268 28.61      
33 A 260 257 7.64      
34 A 197 195 2.41      
35 A 146 144 4.08      
36 A 37 37 1.48      

Unscaled Zero Point Vibrational Energy (zpe) 24124.6 cm-1
Scaled (by 0.9879) Zero Point Vibrational Energy (zpe) 23832.7 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 PBEPBE/Def2TZVPP
ABC
0.11548 0.07713 0.05266

See section I.F.4 to change rotational constant units
Geometric Data calculated at PBEPBE/Def2TZVPP

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.798 -0.536 0.010
O2 2.075 -0.328 -0.387
O3 0.440 -1.552 0.575
C4 -0.096 0.673 -0.306
C5 -1.527 0.421 0.189
O6 -2.124 -0.718 -0.396
N7 0.407 1.937 0.232
H8 2.588 -1.122 -0.150
H9 -0.133 0.759 -1.404
H10 -1.517 0.358 1.294
H11 -2.133 1.293 -0.088
H12 -1.662 -1.493 -0.040
H13 1.307 2.186 -0.172
H14 0.523 1.888 1.244

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.35301.21601.53602.52062.95582.51361.89032.13112.79383.45582.64052.77482.7331
O21.35302.25662.39143.72374.21662.88090.97462.66244.02444.51883.92952.63773.1590
O31.21602.25662.45192.81272.86613.50602.30683.09532.82773.89252.19163.90893.5048
C41.53602.39142.45191.53562.46091.46313.23231.10172.16302.14052.68632.06752.0641
C52.52063.72372.81271.53561.41282.45764.40802.14371.10621.09711.93243.35822.7323
O62.95584.21662.86612.46091.41283.72124.73562.67552.09332.03430.97004.50034.0600
N72.51362.88093.50601.46312.45763.72123.77702.08732.70572.63914.01511.01801.0197
H81.89030.97462.30683.23234.40804.73563.77703.53734.59635.30294.26783.54753.9073
H92.13112.66243.09531.10172.14372.67552.08733.53733.05812.45293.04432.37222.9521
H102.79384.02442.82772.16301.10622.09332.70574.59633.05811.77792.28623.66952.5500
H113.45584.51883.89252.14051.09712.03432.63915.30292.45291.77792.82573.55473.0296
H122.64053.92952.19162.68631.93240.97004.01514.26783.04432.28622.82574.72964.2252
H132.77482.63773.90892.06753.35824.50031.01803.54752.37223.66953.55474.72961.6461
H142.73313.15903.50482.06412.73234.06001.01973.90732.95212.55003.02964.22521.6461

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.501 C1 C4 C5 110.296
C1 C4 N7 113.863 C1 C4 H9 106.630
O2 C1 O3 122.808 O2 C1 C4 111.585
O3 C1 C4 125.585 C4 C5 O6 113.095
C4 C5 H10 108.837 C4 C5 H11 107.626
C4 N7 H13 111.624 C4 N7 H14 111.223
C5 C4 N7 110.059 C5 C4 H9 107.615
C5 O6 H12 106.910 O6 C5 H10 111.832
O6 C5 H11 107.622 N7 C4 H9 108.114
H10 C5 H11 107.594 H13 N7 H14 107.769
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at PBEPBE/Def2TZVPP Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.168      
2 O -0.235      
3 O -0.302      
4 C 0.118      
5 C -0.021      
6 O -0.327      
7 N -0.336      
8 H 0.210      
9 H 0.086      
10 H 0.062      
11 H 0.092      
12 H 0.200      
13 H 0.150      
14 H 0.136      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  2.865 0.696 0.511 2.992
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.202 -1.737 -1.315
y -1.737 -43.789 1.761
z -1.315 1.761 -41.666
Traceless
 xyz
x 1.525 -1.737 -1.315
y -1.737 -2.355 1.761
z -1.315 1.761 0.830
Polar
3z2-r21.659
x2-y22.587
xy-1.737
xz-1.315
yz1.761


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 9.551 -0.101 -0.315
y -0.101 9.398 -0.186
z -0.315 -0.186 7.287


<r2> (average value of r2) Å2
<r2> 216.221
(<r2>)1/2 14.704