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All results from a given calculation for HO2CCHNH2CH2OH (Serine)

using model chemistry: B97D3/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 B97D3/cc-pVTZ
 hartrees
Energy at 0K-398.886210
Energy at 298.15K-398.895987
HF Energy-398.886210
Nuclear repulsion energy324.247751
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 B97D3/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 3699 3647 39.77      
2 A 3655 3603 43.34      
3 A 3513 3463 1.58      
4 A 3423 3375 0.90      
5 A 3052 3010 24.55      
6 A 3009 2967 16.37      
7 A 2933 2892 52.72      
8 A 1737 1713 249.88      
9 A 1629 1606 26.77      
10 A 1467 1446 3.53      
11 A 1397 1378 42.29      
12 A 1370 1350 1.06      
13 A 1356 1337 15.53      
14 A 1347 1328 22.18      
15 A 1282 1264 7.53      
16 A 1220 1203 15.97      
17 A 1158 1142 2.30      
18 A 1111 1095 172.79      
19 A 1083 1068 102.23      
20 A 1043 1029 98.89      
21 A 995 981 28.48      
22 A 969 955 2.12      
23 A 849 837 162.45      
24 A 796 785 14.34      
25 A 725 715 19.68      
26 A 614 606 76.38      
27 A 580 572 14.34      
28 A 503 496 138.27      
29 A 485 478 38.77      
30 A 444 438 9.87      
31 A 279 275 3.29      
32 A 276 272 25.85      
33 A 262 258 10.11      
34 A 197 194 1.55      
35 A 136 134 4.37      
36 A 35 35 1.43      

Unscaled Zero Point Vibrational Energy (zpe) 24314.1 cm-1
Scaled (by 0.986) Zero Point Vibrational Energy (zpe) 23973.7 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 B97D3/cc-pVTZ
ABC
0.11528 0.07636 0.05300

See section I.F.4 to change rotational constant units
Geometric Data calculated at B97D3/cc-pVTZ

Point Group is C1

Cartesians (Å)
Atom x (Å) y (Å) z (Å)
C1 0.809 -0.487 0.030
O2 2.040 -0.333 -0.534
O3 0.542 -1.426 0.755
C4 -0.120 0.676 -0.318
C5 -1.555 0.374 0.131
O6 -2.064 -0.827 -0.430
N7 0.327 1.940 0.285
H8 2.577 -1.084 -0.228
H9 -0.107 0.796 -1.407
H10 -1.588 0.351 1.232
H11 -2.196 1.191 -0.209
H12 -1.573 -1.546 -0.009
H13 1.251 2.184 -0.058
H14 0.407 1.829 1.294

Atom - Atom Distances (Å)
  C1 O2 O3 C4 C5 O6 N7 H8 H9 H10 H11 H12 H13 H14
C11.36261.21581.52882.51802.92982.48701.88342.13352.80973.45042.60692.70912.6688
O21.36262.25842.39373.72344.13522.96090.97272.57804.09254.51353.84672.68033.2677
O31.21582.25842.45092.83292.92503.40452.28563.16752.81453.90822.25163.76773.3017
C41.52882.39372.45091.53322.45941.47033.22151.09562.15952.14172.67252.05562.0514
C52.51803.72342.83291.53321.41992.45264.39602.15401.10161.09281.92593.34462.7055
O62.92984.13522.92502.45941.41993.72584.65272.72382.09152.03430.96794.49424.0167
N72.48702.96093.40451.47032.45263.72583.80312.08832.66222.67783.98081.01571.0177
H81.88340.97272.28563.22154.39604.65273.80313.48264.64085.28744.18073.53073.9376
H92.13352.57803.16751.09562.15402.72382.08833.48263.05892.44073.09652.36542.9373
H102.80974.09252.81452.15951.10162.09152.66224.64083.05891.77492.26753.61752.4842
H113.45044.51353.90822.14171.09282.03432.67785.28742.44071.77492.81493.59083.0730
H122.60693.84672.25162.67251.92590.96793.98084.18073.09652.26752.81494.67924.1247
H132.70912.68033.76772.05563.34464.49421.01573.53072.36543.61753.59084.67921.6322
H142.66883.26773.30172.05142.70554.01671.01773.93762.93732.48423.07304.12471.6322

picture of Serine state 1 conformation 1
More geometry information
Calculated Bond Angles
atom1 atom2 atom3 angle atom1 atom2 atom3 angle
C1 O2 H8 107.374 C1 C4 C5 110.639
C1 C4 N7 113.660 C1 C4 H9 106.673
O2 C1 O3 122.690 O2 C1 C4 111.476
O3 C1 C4 125.787 C4 C5 O6 113.165
C4 C5 H10 108.718 C4 C5 H11 107.591
C4 N7 H13 111.263 C4 N7 H14 110.755
C5 C4 N7 109.948 C5 C4 H9 107.605
C5 O6 H12 106.716 O6 C5 H10 111.979
O6 C5 H11 107.506 N7 C4 H9 108.056
H10 C5 H11 107.641 H13 N7 H14 107.538
Electronic energy levels
Charges, Dipole, Quadrupole and Polarizability
Charges from optimized geometry at B97D3/cc-pVTZ Charges (e)
Number Element Mulliken CHELPG AIM ESP
1 C 0.248      
2 O -0.244      
3 O -0.313      
4 C 0.013      
5 C 0.049      
6 O -0.347      
7 N -0.295      
8 H 0.210      
9 H 0.090      
10 H 0.040      
11 H 0.087      
12 H 0.210      
13 H 0.132      
14 H 0.123      


Electric dipole moments
Electric dipole components in Debye
(What's a Debye? See section VII.A.3)
  x y z Total
  2.738 0.650 0.479 2.855
CHELPG        
AIM        
ESP        


Electric Quadrupole moment
Quadrupole components in D Å
Primitive
 xyz
x -40.537 -1.518 -1.358
y -1.518 -43.060 1.820
z -1.358 1.820 -41.415
Traceless
 xyz
x 1.701 -1.518 -1.358
y -1.518 -2.084 1.820
z -1.358 1.820 0.383
Polar
3z2-r20.767
x2-y22.523
xy-1.518
xz-1.358
yz1.820


Polarizabilities
Components of the polarizability tensor.
Units are Å3 (Angstrom cubed)
Change units.
  x y z
x 9.118 -0.123 -0.331
y -0.123 8.965 -0.200
z -0.331 -0.200 7.025


<r2> (average value of r2) Å2
<r2> 215.907
(<r2>)1/2 14.694