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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B3LYP/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 B3LYP/Def2TZVPP
 hartrees
Energy at 0K-399.139997
Energy at 298.15K-399.149897
HF Energy-399.139997
Nuclear repulsion energy325.349983
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 B3LYP/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 3791 3649 53.64      
2 A 3745 3605 71.01      
3 A 3588 3454 5.90      
4 A 3503 3372 2.00      
5 A 3106 2990 18.26      
6 A 3055 2941 13.83      
7 A 2996 2884 43.14      
8 A 1787 1721 277.79      
9 A 1658 1596 30.34      
10 A 1501 1445 4.15      
11 A 1424 1371 29.36      
12 A 1399 1347 4.18      
13 A 1386 1334 34.61      
14 A 1378 1326 17.26      
15 A 1313 1264 11.22      
16 A 1245 1198 18.78      
17 A 1184 1139 6.03      
18 A 1150 1107 227.54      
19 A 1116 1074 40.07      
20 A 1079 1039 109.96      
21 A 1023 984 30.39      
22 A 990 953 1.46      
23 A 847 816 134.65      
24 A 810 780 56.63      
25 A 745 717 21.41      
26 A 622 599 80.39      
27 A 590 568 22.41      
28 A 516 497 137.50      
29 A 494 476 53.50      
30 A 452 435 8.93      
31 A 289 278 4.82      
32 A 280 270 23.91      
33 A 270 259 13.64      
34 A 203 195 1.85      
35 A 147 142 4.64      
36 A 40 38 1.46      

Unscaled Zero Point Vibrational Energy (zpe) 24860.3 cm-1
Scaled (by 0.9626) Zero Point Vibrational Energy (zpe) 23930.5 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 B3LYP/Def2TZVPP
ABC
0.11644 0.07721 0.05281

See section I.F.4 to change rotational constant units
Geometric Data calculated at B3LYP/Def2TZVPP

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.805 -0.526 0.017
O2 2.070 -0.321 -0.396
O3 0.465 -1.535 0.585
C4 -0.101 0.667 -0.302
C5 -1.530 0.408 0.188
O6 -2.118 -0.731 -0.398
N7 0.388 1.936 0.230
H8 2.593 -1.101 -0.167
H9 -0.134 0.748 -1.392
H10 -1.528 0.344 1.283
H11 -2.135 1.269 -0.090
H12 -1.668 -1.507 -0.050
H13 1.279 2.194 -0.171
H14 0.497 1.902 1.236

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34591.20681.53212.52092.95972.50561.88682.11902.79303.44702.66222.76722.7340
O21.34592.23842.38713.71884.20752.88320.96692.64394.02524.50623.93702.64603.1748
O31.20682.23842.44082.81312.87813.48972.29793.07842.82663.88352.22603.89103.4986
C41.53212.38712.44081.53242.45581.46013.22541.09322.15682.13202.69232.06262.0615
C52.52093.71882.81311.53241.40942.45244.40462.13511.09721.08861.93513.34812.7278
O62.95974.20752.87812.45581.40943.71294.73082.66642.08092.02380.96214.48874.0550
N72.50562.88323.48971.46012.45243.71293.77372.07742.70402.62974.02021.01071.0125
H81.88680.96692.29793.22544.40464.73083.77373.51494.60095.28974.28213.54733.9216
H92.11902.64393.07841.09322.13512.66642.07743.51493.04302.44383.03962.36262.9392
H102.79304.02522.82662.15681.09722.08092.70404.60093.04301.76382.28573.66242.5553
H113.44704.50623.88352.13201.08862.02382.62975.28972.44381.76382.81583.53873.0152
H122.66223.93702.22602.69231.93510.96214.02024.28213.03962.28572.81584.73324.2390
H132.76722.64603.89102.06263.34814.48871.01073.54732.36263.66243.53874.73321.6357
H142.73403.17483.49862.06152.72784.05501.01253.92162.93922.55533.01524.23901.6357

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 108.221 C1 C4 C5 110.693
C1 C4 N7 113.712 C1 C4 H9 106.437
O2 C1 O3 122.450 O2 C1 C4 111.921
O3 C1 C4 125.623 C4 C5 O6 113.124
C4 C5 H10 109.084 C4 C5 H11 107.656
C4 N7 H13 111.900 C4 N7 H14 111.691
C5 C4 N7 110.044 C5 C4 H9 107.640
C5 O6 H12 107.879 O6 C5 H10 111.626
O6 C5 H11 107.531 N7 C4 H9 108.042
H10 C5 H11 107.586 H13 N7 H14 107.893
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B3LYP/Def2TZVPP Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.247      
2 O -0.275      
3 O -0.334      
4 C 0.122      
5 C 0.014      
6 O -0.361      
7 N -0.342      
8 H 0.208      
9 H 0.092      
10 H 0.068      
11 H 0.101      
12 H 0.197      
13 H 0.139      
14 H 0.124      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  2.836 0.718 0.534 2.974
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.218 -1.639 -1.562
y -1.639 -43.774 1.878
z -1.562 1.878 -41.610
Traceless
 xyz
x 1.474 -1.639 -1.562
y -1.639 -2.360 1.878
z -1.562 1.878 0.886
Polar
3z2-r21.773
x2-y22.556
xy-1.639
xz-1.562
yz1.878


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 8.947 -0.025 -0.296
y -0.025 8.862 -0.212
z -0.296 -0.212 6.998


<r2> (average value of r2) Å2
<r2> 215.647
(<r2>)1/2 14.685