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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B3LYP/CEP-31G*

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/CEP-31G*
 hartrees
Energy at 0K-78.999917
Energy at 298.15K-79.009743
HF Energy-78.999917
Nuclear repulsion energy180.015940
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/CEP-31G*
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 3769 3640 40.63      
2 A 3729 3601 56.64      
3 A 3578 3455 1.93      
4 A 3483 3364 0.43      
5 A 3133 3026 30.87      
6 A 3089 2983 20.38      
7 A 3017 2914 62.19      
8 A 1788 1726 282.19      
9 A 1677 1620 32.84      
10 A 1497 1445 3.40      
11 A 1429 1380 43.16      
12 A 1397 1349 12.43      
13 A 1382 1335 35.12      
14 A 1369 1322 16.39      
15 A 1304 1260 7.87      
16 A 1236 1193 28.34      
17 A 1174 1133 45.52      
18 A 1154 1114 193.98      
19 A 1116 1078 31.83      
20 A 1080 1043 106.97      
21 A 1018 983 28.90      
22 A 986 952 1.47      
23 A 880 849 186.60      
24 A 804 776 14.31      
25 A 730 705 22.76      
26 A 618 596 105.05      
27 A 578 558 19.03      
28 A 523 505 227.66      
29 A 495 478 8.96      
30 A 441 426 8.82      
31 A 292 282 45.79      
32 A 279 270 7.01      
33 A 265 256 3.26      
34 A 202 195 1.47      
35 A 149 144 4.16      
36 A 38 37 1.32      

Unscaled Zero Point Vibrational Energy (zpe) 24848.3 cm-1
Scaled (by 0.9657) Zero Point Vibrational Energy (zpe) 23996.0 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/CEP-31G*
ABC
0.11400 0.07584 0.05145

See section I.F.4 to change rotational constant units
Geometric Data calculated at B3LYP/CEP-31G*

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.810 -0.539 0.010
O2 2.096 -0.324 -0.382
O3 0.455 -1.573 0.566
C4 -0.099 0.678 -0.309
C5 -1.545 0.425 0.192
O6 -2.148 -0.724 -0.394
N7 0.409 1.954 0.233
H8 2.612 -1.121 -0.151
H9 -0.135 0.762 -1.409
H10 -1.544 0.367 1.301
H11 -2.151 1.297 -0.097
H12 -1.704 -1.505 -0.021
H13 1.313 2.200 -0.177
H14 0.530 1.900 1.248

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.36161.22671.55212.55052.99072.53431.90132.14452.83283.48472.69312.79042.7494
O21.36162.26972.41393.76094.26252.89980.97782.68544.06874.55393.99552.64993.1709
O31.22672.26972.47842.85142.90153.54272.31783.11492.88083.93262.23843.93953.5401
C41.55212.41392.47841.55132.48411.47643.25801.10392.18542.15312.72542.07962.0769
C52.55053.76092.85141.55131.42312.48214.44852.16001.11031.10061.94813.38442.7563
O62.99074.26252.90152.48411.42313.75544.78302.69982.10412.04240.97324.53544.0927
N72.53432.89983.54271.47642.48213.75543.80182.10152.73342.66354.06161.02191.0234
H81.90130.97782.31783.25804.44854.78303.80183.56084.64695.34174.33533.56583.9268
H92.14452.68543.11491.10392.16002.69982.10153.56083.07972.46373.08682.38422.9667
H102.83284.06872.88082.18541.11032.10412.73344.64693.07971.78512.29773.70122.5789
H113.48474.55393.93262.15311.10062.04242.66355.34172.46371.78512.83873.57993.0590
H122.69313.99552.23842.72541.94810.97324.06164.33533.08682.29772.83874.78034.2657
H132.79042.64993.93952.07963.38444.53541.02193.56582.38423.70123.57994.78031.6532
H142.74943.17093.54012.07692.75634.09271.02343.92682.96672.57893.05904.26571.6532

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.592 C1 C4 C5 110.538
C1 C4 N7 113.587 C1 C4 H9 106.463
O2 C1 O3 122.456 O2 C1 C4 111.712
O3 C1 C4 125.821 C4 C5 O6 113.200
C4 C5 H10 109.270 C4 C5 H11 107.348
C4 N7 H13 111.398 C4 N7 H14 111.072
C5 C4 N7 110.104 C5 C4 H9 107.689
C5 O6 H12 107.276 O6 C5 H10 111.718
O6 C5 H11 107.363 N7 C4 H9 108.204
H10 C5 H11 107.685 H13 N7 H14 107.850
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B3LYP/CEP-31G* Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C -0.254      
2 O -0.313      
3 O -0.126      
4 C 0.106      
5 C -0.291      
6 O -0.449      
7 N -0.537      
8 H 0.413      
9 H 0.180      
10 H 0.133      
11 H 0.197      
12 H 0.388      
13 H 0.290      
14 H 0.261      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.140 0.582 0.738 3.278
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -40.951 -1.753 -1.518
y -1.753 -43.849 1.725
z -1.518 1.725 -40.717
Traceless
 xyz
x 1.332 -1.753 -1.518
y -1.753 -3.015 1.725
z -1.518 1.725 1.683
Polar
3z2-r23.366
x2-y22.898
xy-1.753
xz-1.518
yz1.725


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.847 0.088 -0.304
y 0.088 7.943 -0.220
z -0.304 -0.220 5.989


<r2> (average value of r2) Å2
<r2> 177.661
(<r2>)1/2 13.329