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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B2PLYP/6-311G*

19 10 17 12 22

States and conformations

State Conformation minimum conformation conformer description state description
1 1 yes C1 1A
Energy calculated at B2PLYP/6-311G*
 hartrees
Energy at 0K-398.683939
Energy at 298.15K-398.694030
HF Energy-398.299634
Nuclear repulsion energy325.700706
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 B2PLYP/6-311G*
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 3793 3793 44.61      
2 A 3749 3749 51.00      
3 A 3613 3613 1.88      
4 A 3525 3525 0.58      
5 A 3155 3155 23.36      
6 A 3085 3085 15.43      
7 A 3018 3018 58.43      
8 A 1792 1792 248.64      
9 A 1735 1735 39.05      
10 A 1535 1535 2.40      
11 A 1462 1462 50.97      
12 A 1424 1424 2.55      
13 A 1417 1417 21.48      
14 A 1397 1397 34.13      
15 A 1343 1343 6.46      
16 A 1266 1266 15.45      
17 A 1211 1211 24.83      
18 A 1186 1186 217.32      
19 A 1153 1153 44.22      
20 A 1102 1102 100.75      
21 A 1046 1046 39.48      
22 A 1012 1012 0.27      
23 A 913 913 201.04      
24 A 826 826 22.98      
25 A 750 750 34.53      
26 A 654 654 107.07      
27 A 584 584 6.77      
28 A 561 561 238.12      
29 A 522 522 14.58      
30 A 445 445 7.47      
31 A 306 306 6.16      
32 A 292 292 16.24      
33 A 267 267 30.56      
34 A 221 221 3.72      
35 A 172 172 3.27      
36 A 35 35 0.94      

Unscaled Zero Point Vibrational Energy (zpe) 25283.2 cm-1
Scaled (by 1) Zero Point Vibrational Energy (zpe) 25283.2 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 B2PLYP/6-311G*
ABC
0.11882 0.07848 0.05149

See section I.F.4 to change rotational constant units
Geometric Data calculated at B2PLYP/6-311G*

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.775 -0.547 0.000
O2 2.058 -0.351 -0.357
O3 0.394 -1.560 0.543
C4 -0.086 0.677 -0.310
C5 -1.513 0.450 0.189
O6 -2.108 -0.693 -0.380
N7 0.446 1.926 0.227
H8 2.554 -1.147 -0.124
H9 -0.125 0.765 -1.400
H10 -1.504 0.396 1.286
H11 -2.109 1.314 -0.099
H12 -1.660 -1.459 -0.010
H13 1.344 2.144 -0.183
H14 0.570 1.863 1.230

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34631.21061.52862.50332.91222.50551.88122.11992.78223.43472.60072.75702.7139
O21.34632.24572.37773.70034.18042.85020.96642.66383.99384.49513.89572.60073.1042
O31.21062.24572.44182.79332.80473.50092.29853.07432.82563.86552.13003.89253.4962
C41.52862.37772.44181.52912.44381.45973.21371.09412.15412.13222.67042.05272.0516
C52.50333.70032.79331.52911.40842.45304.38052.13341.09891.08901.92443.34252.7240
O62.91224.18042.80472.44381.40843.70804.69152.66462.08052.02690.96144.47294.0371
N72.50552.85023.50091.45972.45303.70803.74292.07822.69532.64723.99341.01101.0128
H81.88120.96642.29853.21374.38054.69153.74293.52954.56535.27314.22783.50663.8512
H92.11992.66383.07431.09412.13342.66462.07823.52953.04232.43593.03922.35402.9333
H102.78223.99382.82562.15411.09892.08052.69534.56533.04231.76852.26843.65042.5409
H113.43474.49513.86552.13221.08902.02692.64725.27312.43591.76852.81073.55273.0404
H122.60073.89572.13002.67041.92440.96143.99344.22783.03922.26842.81074.69444.1888
H132.75702.60073.89252.05273.34254.47291.01103.50662.35403.65043.55274.69441.6350
H142.71393.10423.49622.05162.72404.03711.01283.85122.93332.54093.04044.18881.6350

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.738 C1 C4 C5 109.908
C1 C4 N7 113.928 C1 C4 H9 106.687
O2 C1 O3 122.792 O2 C1 C4 111.441
O3 C1 C4 125.715 C4 C5 O6 112.529
C4 C5 H10 109.003 C4 C5 H11 107.875
C4 N7 H13 111.056 C4 N7 H14 110.852
C5 C4 N7 110.295 C5 C4 H9 107.683
C5 O6 H12 107.085 O6 C5 H10 111.565
O6 C5 H11 107.825 N7 C4 H9 108.078
H10 C5 H11 107.864 H13 N7 H14 107.777
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B2PLYP/6-311G* Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.438      
2 O -0.514      
3 O -0.352      
4 C -0.207      
5 C -0.176      
6 O -0.569      
7 N -0.734      
8 H 0.404      
9 H 0.249      
10 H 0.180      
11 H 0.230      
12 H 0.400      
13 H 0.335      
14 H 0.317      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.373 0.208 0.798 3.472
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.925 -2.105 -1.289
y -2.105 -44.354 1.514
z -1.289 1.514 -40.438
Traceless
 xyz
x 0.470 -2.105 -1.289
y -2.105 -3.172 1.514
z -1.289 1.514 2.702
Polar
3z2-r25.404
x2-y22.429
xy-2.105
xz-1.289
yz1.514


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.916 0.146 -0.244
y 0.146 7.741 -0.194
z -0.244 -0.194 5.883


<r2> (average value of r2) Å2
<r2> 215.952
(<r2>)1/2 14.695