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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B3LYP/CEP-121G

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/CEP-121G
 hartrees
Energy at 0K-78.888338
Energy at 298.15K-78.898058
HF Energy-78.888338
Nuclear repulsion energy178.550049
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/CEP-121G
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 3640 3547 3.40      
2 A 3633 3540 21.05      
3 A 3614 3522 31.47      
4 A 3508 3418 2.28      
5 A 3125 3045 23.39      
6 A 3058 2980 14.98      
7 A 2988 2912 56.58      
8 A 1694 1651 53.34      
9 A 1654 1612 214.47      
10 A 1510 1471 5.38      
11 A 1412 1376 13.59      
12 A 1389 1354 4.76      
13 A 1375 1340 16.38      
14 A 1355 1320 28.44      
15 A 1293 1260 22.64      
16 A 1234 1202 18.46      
17 A 1160 1130 17.04      
18 A 1128 1099 16.62      
19 A 1094 1066 238.16      
20 A 1038 1011 54.86      
21 A 998 972 99.15      
22 A 974 949 7.52      
23 A 791 771 23.34      
24 A 701 683 22.23      
25 A 630 614 257.08      
26 A 597 582 188.91      
27 A 571 556 13.97      
28 A 522 509 264.31      
29 A 480 468 20.37      
30 A 437 426 9.83      
31 A 282 275 9.37      
32 A 276 269 40.03      
33 A 261 254 1.12      
34 A 199 193 1.96      
35 A 144 140 6.29      
36 A 42 41 1.91      

Unscaled Zero Point Vibrational Energy (zpe) 24400.6 cm-1
Scaled (by 0.9745) Zero Point Vibrational Energy (zpe) 23778.4 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/CEP-121G
ABC
0.11163 0.07544 0.05076

See section I.F.4 to change rotational constant units
Geometric Data calculated at B3LYP/CEP-121G

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.790 -0.553 0.013
O2 2.106 -0.381 -0.370
O3 0.389 -1.590 0.568
C4 -0.082 0.687 -0.311
C5 -1.534 0.467 0.191
O6 -2.166 -0.695 -0.393
N7 0.468 1.956 0.226
H8 2.673 -1.158 -0.170
H9 -0.117 0.766 -1.405
H10 -1.532 0.415 1.293
H11 -2.114 1.345 -0.099
H12 -1.779 -1.524 -0.047
H13 1.355 2.229 -0.196
H14 0.560 1.967 1.243

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.38201.24271.55002.54382.98702.53911.98642.13832.82233.47102.74672.84702.8141
O21.38202.30002.43623.77974.28432.91630.98202.70814.07884.56814.06292.72243.2417
O31.24272.30002.48582.84102.87313.56372.43853.11472.86943.91492.25524.01293.6246
C41.55002.43622.48581.55162.50211.48453.31881.09742.17922.14642.79912.11152.1138
C52.54383.77972.84101.55161.44612.49584.52412.15451.10381.09182.01943.40612.7831
O62.98704.28432.87312.50211.44613.78904.86632.71252.11612.06230.97724.58184.1475
N72.53912.91633.56371.48452.49583.78903.83652.10272.74142.67364.15161.01921.0212
H81.98640.98202.43853.31884.52414.86633.83653.60754.72165.40254.46873.63524.0285
H92.13832.70813.11471.09742.15452.71252.10273.60753.06662.45523.13792.40272.9860
H102.82234.07882.86942.17921.10382.11612.74144.72163.06661.77292.36963.72062.6057
H113.47104.56813.91492.14641.09182.06232.67365.40252.45521.77292.88863.58133.0564
H122.74674.06292.25522.79912.01940.97724.15164.46873.13792.36962.88864.89184.3960
H132.84702.72244.01292.11153.40614.58181.01923.63522.40273.72063.58134.89181.6644
H142.81413.24173.62462.11382.78314.14751.02124.02852.98602.60573.05644.39601.6644

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 113.254 C1 C4 C5 110.201
C1 C4 N7 113.580 C1 C4 H9 106.493
O2 C1 O3 122.314 O2 C1 C4 112.258
O3 C1 C4 125.420 C4 C5 O6 113.118
C4 C5 H10 109.135 C4 C5 H11 107.297
C4 N7 H13 113.696 C4 N7 H14 113.766
C5 C4 N7 110.560 C5 C4 H9 107.607
C5 O6 H12 111.418 O6 C5 H10 111.472
O6 C5 H11 107.889 N7 C4 H9 108.125
H10 C5 H11 107.695 H13 N7 H14 109.318
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B3LYP/CEP-121G Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C -0.003      
2 O -0.359      
3 O -0.176      
4 C 0.011      
5 C -0.236      
6 O -0.449      
7 N -0.573      
8 H 0.379      
9 H 0.185      
10 H 0.125      
11 H 0.178      
12 H 0.359      
13 H 0.291      
14 H 0.268      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.171 1.018 0.979 3.471
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -42.637 -2.297 -2.101
y -2.297 -43.294 2.175
z -2.101 2.175 -41.853
Traceless
 xyz
x -0.063 -2.297 -2.101
y -2.297 -1.049 2.175
z -2.101 2.175 1.113
Polar
3z2-r22.225
x2-y20.657
xy-2.297
xz-2.101
yz2.175


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 8.161 0.066 -0.355
y 0.066 8.356 -0.299
z -0.355 -0.299 6.315


<r2> (average value of r2) Å2
<r2> 180.734
(<r2>)1/2 13.444