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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B2PLYP/6-31G*

19 10 17 12 22

States and conformations

State Conformation minimum conformation conformer description state description
1 1 yes C1 1A
Energy calculated at B2PLYP/6-31G*
 hartrees
Energy at 0K-398.554578
Energy at 298.15K-398.564654
HF Energy-398.196194
Nuclear repulsion energy325.226249
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/6-31G*
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 3730 3540 67.40      
2 A 3693 3505 72.10      
3 A 3597 3414 2.48      
4 A 3503 3325 0.70      
5 A 3168 3007 22.33      
6 A 3094 2937 12.48      
7 A 3025 2871 58.12      
8 A 1805 1713 221.10      
9 A 1719 1632 33.25      
10 A 1555 1476 1.37      
11 A 1473 1398 55.60      
12 A 1427 1354 2.23      
13 A 1419 1346 27.74      
14 A 1403 1332 38.83      
15 A 1350 1281 13.86      
16 A 1266 1201 9.47      
17 A 1217 1155 15.50      
18 A 1193 1132 199.67      
19 A 1161 1102 44.78      
20 A 1112 1056 100.92      
21 A 1049 996 45.02      
22 A 1015 963 0.81      
23 A 919 872 195.28      
24 A 822 780 22.00      
25 A 743 706 37.35      
26 A 654 621 97.84      
27 A 584 554 149.02      
28 A 576 546 72.60      
29 A 526 499 26.27      
30 A 437 415 7.41      
31 A 311 295 6.22      
32 A 299 284 14.58      
33 A 264 251 32.53      
34 A 230 218 5.34      
35 A 172 163 2.32      
36 A 29 27 0.69      

Unscaled Zero Point Vibrational Energy (zpe) 25268.9 cm-1
Scaled (by 0.9492) Zero Point Vibrational Energy (zpe) 23985.3 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/6-31G*
ABC
0.11938 0.07870 0.05079

See section I.F.4 to change rotational constant units
Geometric Data calculated at B2PLYP/6-31G*

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.775 -0.547 0.001
O2 2.061 -0.347 -0.357
O3 0.389 -1.567 0.541
C4 -0.087 0.678 -0.312
C5 -1.514 0.451 0.191
O6 -2.108 -0.692 -0.382
N7 0.446 1.926 0.227
H8 2.552 -1.153 -0.119
H9 -0.124 0.768 -1.403
H10 -1.502 0.399 1.290
H11 -2.112 1.318 -0.095
H12 -1.642 -1.454 -0.008
H13 1.351 2.139 -0.180
H14 0.571 1.858 1.233

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.35001.21701.52982.50472.91212.50481.88182.12302.78233.43842.58182.75282.7102
O21.35002.25602.38043.70444.18382.84880.97332.66713.99564.50103.88112.59143.1001
O31.21702.25602.44812.79642.80263.50762.29923.08112.82943.87102.10723.89603.4995
C41.52982.38042.44811.53042.44291.45973.21791.09552.15522.13532.65662.05392.0523
C52.50473.70442.79641.53041.40952.45354.38282.13831.10051.09101.91973.34622.7235
O62.91214.18382.80262.44291.40953.70774.69082.66652.08652.02990.96854.47444.0362
N72.50482.84883.50761.45972.45353.70773.74652.07862.69352.64943.97991.01481.0163
H81.88180.97332.29923.21794.38284.69083.74653.53594.56435.27884.20703.50483.8497
H92.12302.66713.08111.09552.13832.66652.07863.53593.04692.44233.03122.35582.9358
H102.78233.99562.82942.15521.10052.08652.69354.56433.04691.77032.26693.65042.5357
H113.43844.50103.87102.13531.09102.02992.64945.27882.44231.77032.81263.56053.0428
H122.58183.88112.10722.65661.91970.96853.97994.20703.03122.26692.81264.67954.1726
H132.75282.59143.89602.05393.34624.47441.01483.50482.35583.65043.56054.67951.6381
H142.71023.10013.49952.05232.72354.03621.01633.84972.93582.53573.04284.17261.6381

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.071 C1 C4 C5 109.862
C1 C4 N7 113.806 C1 C4 H9 106.764
O2 C1 O3 122.930 O2 C1 C4 111.350
O3 C1 C4 125.680 C4 C5 O6 112.329
C4 C5 H10 108.912 C4 C5 H11 107.914
C4 N7 H13 110.921 C4 N7 H14 110.687
C5 C4 N7 110.256 C5 C4 H9 107.890
C5 O6 H12 106.172 O6 C5 H10 111.869
O6 C5 H11 107.865 N7 C4 H9 108.025
H10 C5 H11 107.771 H13 N7 H14 107.512
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B2PLYP/6-31G* Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.583      
2 O -0.586      
3 O -0.475      
4 C -0.105      
5 C -0.023      
6 O -0.655      
7 N -0.731      
8 H 0.427      
9 H 0.198      
10 H 0.125      
11 H 0.176      
12 H 0.427      
13 H 0.329      
14 H 0.311      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  3.466 0.209 0.762 3.555
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -41.583 -2.272 -1.066
y -2.272 -44.327 1.354
z -1.066 1.354 -39.543
Traceless
 xyz
x 0.353 -2.272 -1.066
y -2.272 -3.765 1.354
z -1.066 1.354 3.412
Polar
3z2-r26.824
x2-y22.745
xy-2.272
xz-1.066
yz1.354


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 7.608 0.220 -0.111
y 0.220 7.408 -0.141
z -0.111 -0.141 5.454


<r2> (average value of r2) Å2
<r2> 216.406
(<r2>)1/2 14.711