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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B3LYP/3-21G

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/3-21G
 hartrees
Energy at 0K-396.739781
Energy at 298.15K-396.749812
HF Energy-396.739781
Nuclear repulsion energy323.355318
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/3-21G
Mode Number Symmetry Frequency
(cm-1)
Scaled Frequency
(cm-1)
IR Intensities
(km mol-1)
Raman Act
(Å4/u)
Dep P Dep U
1 A 3509 3386 0.83      
2 A 3467 3345 18.53      
3 A 3416 3296 0.33      
4 A 3374 3256 78.83      
5 A 3140 3030 24.39      
6 A 3074 2966 7.67      
7 A 2967 2863 72.87      
8 A 1732 1672 79.14      
9 A 1721 1661 90.11      
10 A 1575 1519 0.51      
11 A 1480 1428 92.70      
12 A 1409 1360 3.51      
13 A 1397 1348 9.06      
14 A 1377 1329 37.03      
15 A 1347 1300 9.67      
16 A 1257 1213 15.97      
17 A 1200 1157 6.14      
18 A 1153 1113 21.59      
19 A 1116 1077 203.72      
20 A 1040 1004 106.08      
21 A 1031 994 24.33      
22 A 963 929 9.40      
23 A 800 772 37.68      
24 A 737 712 232.21      
25 A 720 694 77.53      
26 A 670 647 138.45      
27 A 650 627 166.07      
28 A 557 538 3.78      
29 A 531 512 56.99      
30 A 406 392 8.90      
31 A 314 303 3.58      
32 A 294 283 9.41      
33 A 250 241 4.92      
34 A 224 216 48.63      
35 A 170 164 1.04      
36 A 53 51 0.78      

Unscaled Zero Point Vibrational Energy (zpe) 24560.9 cm-1
Scaled (by 0.9649) Zero Point Vibrational Energy (zpe) 23698.8 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/3-21G
ABC
0.11720 0.07994 0.05006

See section I.F.4 to change rotational constant units
Geometric Data calculated at B3LYP/3-21G

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.727 -0.580 0.005
O2 2.044 -0.448 -0.335
O3 0.259 -1.585 0.532
C4 -0.051 0.695 -0.322
C5 -1.484 0.525 0.193
O6 -2.118 -0.628 -0.381
N7 0.560 1.922 0.217
H8 2.554 -1.269 -0.113
H9 -0.085 0.776 -1.414
H10 -1.443 0.487 1.295
H11 -2.046 1.415 -0.090
H12 -1.670 -1.430 -0.016
H13 1.469 2.122 -0.208
H14 0.658 1.894 1.236

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.36731.22791.52832.47812.87112.51621.95632.12402.74003.41752.54372.80962.7636
O21.36732.28792.38663.69764.16622.85030.99162.68253.96134.50173.85572.63613.1424
O31.22792.28792.45432.75762.72023.53442.40483.07922.78803.83492.01203.96913.5719
C41.52832.38662.45431.53182.45421.47333.26871.09542.14322.13412.68862.08842.0902
C52.47813.69762.75761.53181.43512.47604.42862.14481.10311.09101.97433.38112.7478
O62.87114.16622.72022.45421.43513.74564.72302.67742.12292.06500.98794.52294.0840
N72.51622.85033.53441.47332.47603.74563.77722.09472.68932.67294.03291.02321.0247
H81.95630.99162.40483.26874.42864.72303.77723.58304.58695.32614.22863.56103.9265
H92.12402.68253.07921.09542.14482.67742.09473.58303.04332.45063.05492.38362.9705
H102.74003.96132.78802.14321.10312.12292.68934.58693.04331.77322.33333.66192.5289
H113.41754.50173.83492.13411.09102.06502.67295.32612.45061.77322.87073.58783.0501
H122.54373.85572.01202.68861.97430.98794.03294.22863.05492.33332.87074.74424.2468
H132.80962.63613.96912.08843.38114.52291.02323.56102.38363.66193.58784.74421.6720
H142.76363.14243.57192.09022.74784.08401.02473.92652.97052.52893.05014.24681.6720

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 111.067 C1 C4 C5 108.155
C1 C4 N7 113.908 C1 C4 H9 106.946
O2 C1 O3 123.578 O2 C1 C4 110.895
O3 C1 C4 125.506 C4 C5 O6 111.582
C4 C5 H10 107.743 C4 C5 H11 107.726
C4 N7 H13 112.301 C4 N7 H14 112.356
C5 C4 N7 110.945 C5 C4 H9 108.305
C5 O6 H12 107.703 O6 C5 H10 112.866
O6 C5 H11 108.900 N7 C4 H9 108.376
H10 C5 H11 107.834 H13 N7 H14 109.462
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B3LYP/3-21G Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.655      
2 O -0.551      
3 O -0.494      
4 C -0.211      
5 C -0.099      
6 O -0.570      
7 N -0.646      
8 H 0.369      
9 H 0.262      
10 H 0.161      
11 H 0.227      
12 H 0.345      
13 H 0.282      
14 H 0.270      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  4.024 0.024 0.756 4.094
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -42.515 -3.197 -0.457
y -3.197 -43.906 0.597
z -0.457 0.597 -38.513
Traceless
 xyz
x -1.306 -3.197 -0.457
y -3.197 -3.391 0.597
z -0.457 0.597 4.697
Polar
3z2-r29.395
x2-y21.390
xy-3.197
xz-0.457
yz0.597


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.351 0.221 0.137
y 0.221 6.829 0.048
z 0.137 0.048 4.721


<r2> (average value of r2) Å2
<r2> 217.506
(<r2>)1/2 14.748