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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B2PLYP/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 B2PLYP/cc-pVTZ
 hartrees
Energy at 0K-398.827732
Energy at 298.15K-398.837726
HF Energy-398.365221
Nuclear repulsion energy326.035032
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/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 3800 3646 59.70      
2 A 3752 3600 77.60      
3 A 3602 3456 5.20      
4 A 3512 3370 1.95      
5 A 3134 3007 18.51      
6 A 3079 2954 12.65      
7 A 3017 2895 44.50      
8 A 1783 1711 244.01      
9 A 1667 1599 30.05      
10 A 1515 1454 3.53      
11 A 1436 1378 32.65      
12 A 1410 1353 5.31      
13 A 1396 1340 44.61      
14 A 1388 1332 13.69      
15 A 1324 1270 11.72      
16 A 1252 1201 13.78      
17 A 1193 1145 4.23      
18 A 1161 1114 211.31      
19 A 1133 1087 45.54      
20 A 1093 1048 99.93      
21 A 1033 991 38.60      
22 A 1002 961 0.59      
23 A 878 842 163.98      
24 A 820 786 25.01      
25 A 746 716 21.38      
26 A 625 600 85.46      
27 A 587 564 15.08      
28 A 529 508 181.35      
29 A 509 488 12.05      
30 A 451 433 8.15      
31 A 294 282 4.95      
32 A 285 273 16.55      
33 A 266 255 21.58      
34 A 209 201 2.73      
35 A 156 150 4.27      
36 A 37 35 1.22      

Unscaled Zero Point Vibrational Energy (zpe) 25037.1 cm-1
Scaled (by 0.9594) Zero Point Vibrational Energy (zpe) 24020.6 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/cc-pVTZ
ABC
0.11788 0.07801 0.05251

See section I.F.4 to change rotational constant units
Geometric Data calculated at B2PLYP/cc-pVTZ

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.789 -0.533 0.012
O2 2.060 -0.333 -0.384
O3 0.429 -1.543 0.572
C4 -0.094 0.670 -0.307
C5 -1.516 0.425 0.190
O6 -2.108 -0.711 -0.395
N7 0.411 1.928 0.230
H8 2.563 -1.124 -0.149
H9 -0.129 0.753 -1.395
H10 -1.504 0.360 1.284
H11 -2.116 1.288 -0.084
H12 -1.647 -1.479 -0.045
H13 1.309 2.161 -0.168
H14 0.526 1.873 1.233

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.34591.20931.52662.50332.93132.49931.87612.11602.76993.43102.61442.75012.7114
O21.34592.24462.37733.70054.18512.86460.96642.64403.99514.48993.89492.61363.1363
O31.20932.24462.43792.79312.83953.48722.29113.07412.80383.86342.16703.87833.4807
C41.52662.37732.43791.52652.44371.45793.20971.09142.14802.12642.66462.05232.0508
C52.50333.70052.79311.52651.40802.44454.37652.13171.09561.08691.92313.33572.7127
O62.93134.18512.83952.44371.40803.70134.69552.65712.08072.02380.96144.46984.0335
N72.49932.86463.48721.45792.44453.70133.75302.07652.68962.62583.98991.00961.0114
H81.87610.96642.29113.20974.37654.69553.75303.50994.55975.26484.22623.51623.8784
H92.11602.64403.07411.09142.13172.65712.07653.50993.03622.44013.01792.35732.9312
H102.76993.99512.80382.14801.09562.08072.68964.55973.03621.76322.27383.64192.5324
H113.43104.48993.86342.12641.08692.02382.62585.26482.44011.76322.80773.53583.0101
H122.61443.89492.16702.66461.92310.96143.98994.22623.01792.27382.80774.69124.1951
H132.75012.61363.87832.05233.33574.46981.00963.51622.35733.64193.53584.69121.6307
H142.71143.13633.48072.05082.71274.03351.01143.87842.93122.53243.01014.19511.6307

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.321 C1 C4 C5 110.147
C1 C4 N7 113.722 C1 C4 H9 106.668
O2 C1 O3 122.825 O2 C1 C4 111.549
O3 C1 C4 125.612 C4 C5 O6 112.699
C4 C5 H10 108.893 C4 C5 H11 107.719
C4 N7 H13 111.258 C4 N7 H14 111.016
C5 C4 N7 109.966 C5 C4 H9 107.879
C5 O6 H12 106.998 O6 C5 H10 111.818
O6 C5 H11 107.730 N7 C4 H9 108.231
H10 C5 H11 107.778 H13 N7 H14 107.589
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B2PLYP/cc-pVTZ Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.260      
2 O -0.261      
3 O -0.315      
4 C -0.034      
5 C 0.000      
6 O -0.366      
7 N -0.340      
8 H 0.223      
9 H 0.134      
10 H 0.067      
11 H 0.118      
12 H 0.222      
13 H 0.152      
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
  2.943 0.554 0.594 3.053
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.355 -1.922 -1.326
y -1.922 -43.934 1.792
z -1.326 1.792 -41.041
Traceless
 xyz
x 1.132 -1.922 -1.326
y -1.922 -2.736 1.792
z -1.326 1.792 1.603
Polar
3z2-r23.207
x2-y22.579
xy-1.922
xz-1.326
yz1.792


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 8.647 0.043 -0.272
y 0.043 8.458 -0.200
z -0.272 -0.200 6.629


<r2> (average value of r2) Å2
<r2> 214.810
(<r2>)1/2 14.656