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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B3LYP/STO-3G

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/STO-3G
 hartrees
Energy at 0K-393.621939
Energy at 298.15K-393.631600
HF Energy-393.621939
Nuclear repulsion energy317.955829
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/STO-3G
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 3693 3296 9.53      
2 A 3655 3261 9.49      
3 A 3476 3102 212.74      
4 A 3470 3097 16.72      
5 A 3375 3011 9.80      
6 A 3341 2981 1.65      
7 A 3205 2860 33.06      
8 A 1849 1650 8.89      
9 A 1813 1618 32.58      
10 A 1716 1531 127.99      
11 A 1665 1486 1.09      
12 A 1497 1336 0.93      
13 A 1475 1316 23.43      
14 A 1465 1308 1.83      
15 A 1399 1249 10.47      
16 A 1323 1181 2.30      
17 A 1276 1139 3.91      
18 A 1235 1102 62.46      
19 A 1204 1074 63.68      
20 A 1120 999 20.33      
21 A 1068 954 16.42      
22 A 1014 905 7.10      
23 A 956 853 77.63      
24 A 830 740 124.86      
25 A 789 704 19.64      
26 A 670 597 13.92      
27 A 633 565 70.09      
28 A 560 500 13.41      
29 A 503 449 47.10      
30 A 414 369 8.12      
31 A 330 294 1.22      
32 A 316 282 2.79      
33 A 245 219 23.21      
34 A 226 201 32.97      
35 A 173 154 0.02      
36 A 65 58 0.26      

Unscaled Zero Point Vibrational Energy (zpe) 26020.3 cm-1
Scaled (by 0.8924) Zero Point Vibrational Energy (zpe) 23220.5 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 B3LYP/STO-3G
ABC
0.11177 0.07872 0.04855

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

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.788 -0.562 0.014
O2 2.104 -0.362 -0.365
O3 0.376 -1.603 0.549
C4 -0.080 0.701 -0.315
C5 -1.542 0.456 0.192
O6 -2.145 -0.700 -0.399
N7 0.456 1.972 0.230
H8 2.593 -1.205 -0.126
H9 -0.103 0.795 -1.414
H10 -1.522 0.397 1.301
H11 -2.150 1.332 -0.086
H12 -1.634 -1.458 0.013
H13 1.382 2.182 -0.183
H14 0.574 1.907 1.259

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.38331.24081.56782.54872.96592.56471.92062.16242.81343.49692.58232.81492.7734
O21.38332.31522.42983.77724.26262.91871.00342.70394.06194.58693.91282.65133.1824
O31.24082.31522.50212.83522.84053.58942.35143.13572.85753.92302.08453.98453.5861
C41.56782.42982.50211.56592.49691.48303.28861.10372.18652.17542.67962.08602.0874
C52.54873.77722.83521.56591.43162.50794.46672.18281.11031.10221.92393.41642.7781
O62.96594.26262.84052.49691.43163.78164.77282.72722.11692.05561.00284.56074.1155
N72.56472.91873.58941.48302.50793.78163.84542.09772.74542.70164.02171.03641.0370
H81.92061.00342.35143.28864.46674.77283.84543.59584.64065.37854.23613.59783.9597
H92.16242.70393.13571.10372.18282.72722.09773.59583.08922.49813.07482.37602.9727
H102.81344.06192.85752.18651.11032.11692.74544.64063.08921.78602.26113.71842.5834
H113.49694.58693.92302.17541.10222.05562.70165.37852.49811.78602.83843.63453.0912
H122.58233.91282.08452.67961.92391.00284.02174.23613.07482.26112.83844.73134.2126
H132.81492.65133.98452.08603.41644.56071.03643.59782.37603.71843.63454.73131.6761
H142.77343.18243.58612.08742.77814.11551.03703.95972.97272.58343.09124.21261.6761

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 106.077 C1 C4 C5 108.841
C1 C4 N7 114.395 C1 C4 H9 106.793
O2 C1 O3 123.747 O2 C1 C4 110.688
O3 C1 C4 125.562 C4 C5 O6 112.741
C4 C5 H10 108.370 C4 C5 H11 107.982
C4 N7 H13 110.529 C4 N7 H14 110.608
C5 C4 N7 110.656 C5 C4 H9 108.455
C5 O6 H12 103.010 O6 C5 H10 112.158
O6 C5 H11 107.737 N7 C4 H9 107.477
H10 C5 H11 107.650 H13 N7 H14 107.871
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B3LYP/STO-3G Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.202      
2 O -0.215      
3 O -0.215      
4 C -0.015      
5 C -0.052      
6 O -0.279      
7 N -0.359      
8 H 0.214      
9 H 0.094      
10 H 0.051      
11 H 0.081      
12 H 0.178      
13 H 0.161      
14 H 0.153      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.560 -0.949 0.812 3.772
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -39.556 -3.945 0.252
y -3.945 -42.036 0.808
z 0.252 0.808 -35.776
Traceless
 xyz
x -0.650 -3.945 0.252
y -3.945 -4.370 0.808
z 0.252 0.808 5.020
Polar
3z2-r210.040
x2-y22.480
xy-3.945
xz0.252
yz0.808


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 5.489 0.018 0.113
y 0.018 4.911 -0.027
z 0.113 -0.027 2.827


<r2> (average value of r2) Å2
<r2> 220.997
(<r2>)1/2 14.866