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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: LSDA/cc-pVTZ

19 10 17 12 22

States and conformations

State Conformation minimum conformation conformer description state description
1 1 yes C1 1A
Energy calculated at LSDA/cc-pVTZ
 hartrees
Energy at 0K-397.107764
Energy at 298.15K-397.117760
HF Energy-397.107764
Nuclear repulsion energy330.038394
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 LSDA/cc-pVTZ
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 3605 3565 62.22      
2 A 3513 3475 9.77      
3 A 3453 3416 246.39      
4 A 3426 3389 3.31      
5 A 3011 2978 16.28      
6 A 2939 2907 11.68      
7 A 2834 2803 73.50      
8 A 1759 1740 219.59      
9 A 1583 1566 45.91      
10 A 1436 1421 2.24      
11 A 1426 1411 55.41      
12 A 1359 1345 133.02      
13 A 1319 1305 8.53      
14 A 1312 1298 4.76      
15 A 1263 1250 5.58      
16 A 1196 1183 3.90      
17 A 1187 1174 4.58      
18 A 1155 1142 47.57      
19 A 1139 1127 222.28      
20 A 1110 1098 48.54      
21 A 1006 995 33.60      
22 A 966 955 1.44      
23 A 822 813 77.62      
24 A 783 775 137.31      
25 A 742 734 44.20      
26 A 665 658 69.54      
27 A 646 639 116.57      
28 A 568 562 3.00      
29 A 541 535 59.74      
30 A 413 409 7.94      
31 A 309 306 2.42      
32 A 289 286 4.36      
33 A 260 257 3.15      
34 A 188 186 41.20      
35 A 159 157 2.05      
36 A 41 41 0.19      

Unscaled Zero Point Vibrational Energy (zpe) 24211.4 cm-1
Scaled (by 0.9891) Zero Point Vibrational Energy (zpe) 23947.5 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 LSDA/cc-pVTZ
ABC
0.12019 0.08434 0.05227

See section I.F.4 to change rotational constant units
Geometric Data calculated at LSDA/cc-pVTZ

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.729 -0.549 -0.001
O2 2.016 -0.409 -0.332
O3 0.286 -1.540 0.526
C4 -0.066 0.689 -0.323
C5 -1.471 0.484 0.178
O6 -2.042 -0.663 -0.370
N7 0.493 1.900 0.222
H8 2.467 -1.238 -0.083
H9 -0.099 0.772 -1.422
H10 -1.444 0.439 1.284
H11 -2.070 1.357 -0.113
H12 -1.549 -1.414 0.003
H13 1.409 2.101 -0.180
H14 0.598 1.831 1.235

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.33601.20721.50542.43722.79792.47011.87192.10902.71073.38832.43672.74082.6846
O21.33602.23802.35323.63554.06602.82050.97692.65563.91154.45653.71882.58613.0793
O31.20722.23802.41102.70362.64453.46002.28463.04782.73613.78921.91223.87483.4591
C41.50542.35322.41101.50582.39451.44163.19181.10252.13122.12322.59362.04682.0432
C52.43723.63552.70361.50581.39362.42214.30672.12721.10701.09791.90833.32172.6861
O62.79794.06602.64452.39451.39363.65364.55502.63472.07522.03700.97324.42513.9709
N72.47012.82053.46001.44162.42213.65363.72002.08012.64842.64163.89921.01941.0208
H81.87190.97692.28463.19184.30674.55503.72003.52384.46995.22744.02083.50393.8277
H92.10902.65563.04781.10252.12722.63472.08013.52383.03962.43762.98532.36262.9442
H102.71073.91152.73612.13121.10702.07522.64844.46993.03961.78482.25533.61082.4719
H113.38834.45653.78922.12321.09792.03702.64165.22742.43761.78482.82293.55783.0269
H122.43673.71881.91222.59361.90830.97323.89924.02082.98532.25532.82294.59724.0817
H132.74082.58613.87482.04683.32174.42511.01943.50392.36263.61083.55784.59721.6525
H142.68463.07933.45912.04322.68613.97091.02083.82772.94422.47193.02694.08171.6525

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.037 C1 C4 C5 108.078
C1 C4 N7 113.880 C1 C4 H9 106.921
O2 C1 O3 123.200 O2 C1 C4 111.684
O3 C1 C4 125.085 C4 C5 O6 111.297
C4 C5 H10 108.344 C4 C5 H11 108.242
C4 N7 H13 111.388 C4 N7 H14 110.993
C5 C4 N7 110.507 C5 C4 H9 108.295
C5 O6 H12 106.102 O6 C5 H10 111.660
O6 C5 H11 109.103 N7 C4 H9 108.968
H10 C5 H11 108.083 H13 N7 H14 108.180
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at LSDA/cc-pVTZ Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.225      
2 O -0.199      
3 O -0.279      
4 C -0.146      
5 C -0.032      
6 O -0.315      
7 N -0.297      
8 H 0.220      
9 H 0.157      
10 H 0.057      
11 H 0.113      
12 H 0.208      
13 H 0.148      
14 H 0.139      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.719 0.527 0.646 3.811
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -42.363 -3.040 -0.031
y -3.040 -44.831 0.573
z -0.031 0.573 -39.668
Traceless
 xyz
x -0.114 -3.040 -0.031
y -3.040 -3.815 0.573
z -0.031 0.573 3.929
Polar
3z2-r27.858
x2-y22.467
xy-3.040
xz-0.031
yz0.573


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 9.457 -0.006 0.135
y -0.006 8.840 0.110
z 0.135 0.110 6.714


<r2> (average value of r2) Å2
<r2> 209.903
(<r2>)1/2 14.488