Part 2.3: Dipole Moments and Optical Activity 1. Nonaxial (no rotation) - C 1, C s, C i Cyclic...

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Part 2.3: Dipole Moments and Optical Activity

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• Nonaxial (no rotation)- C1, Cs, Ci

• Cyclic (rotational)-Cn, Cnv, Cnh, Sn

• Dihedral ( C⊥ 2)

- Dn, Dnd, Dnh

• Polyhedral- T, Th, Td, O, Oh, I, Ih

• Linear- C∞v, D ∞h

Types of Point Groups

http://symmetry.jacobs-university.de/

http://symmetry.jacobs-university.de/

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Outline

• Dipole Moment/Polarity• Dipole and Symmetry• Dipole and Crystals• Chirality• Circular Dichroism• Optical Activity and Symmetry• Dynamic Molecules• Applications of CD

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Polarity/Dipole MomentPolarity- a separation of electric charge leading to a molecule or its chemical groups having an electric dipole moment.

Dipole moment- magnitude of charges and the distance of separation between the charges.

A molecule will have a dipole moment (that is, it will be polar) if the bond dipole moments do not cancel each other out.

O C O C OMolecular Dipole Moment

Polar

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Dipole Moment and SymmetryA molecule will have a dipole moment (that is, it will be polar) if the bond dipole moments do not cancel each other out.

Molecular dipole is dependent on symmetry!

1) Any molecule with an inversion center (i) cannot have a dipole (or be polar).

2) Any molecule with a C2 to C⊥ n cannot have a dipole (or be polar).

3) Any molecule with a sh cannot have a dipole (or be polar).

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Dipole Moment and Symmetry


i


x

z

yCan have a dipole in z or –z unless there is a C⊥ 2 or a sh

Only C1, Cs, Cn, C∞v and Cnv can have a molecular dipole and be polar.

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C CH H C CH

H H

H

NH

HH

H

OH

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Dipole Moment and SymmetryOnly C1, Cs, Cn, and Cnv can have a molecular dipole and be polar.

Symmetry does not tell you the direction or the magnitude of the dipole moment.

x

z

y

x

z

y

Direction-

C1 could be any direction (no axis)

Cs could be direction except to ⊥ sh

Cn and Cnv must be z or -z

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Dipole Moment and SymmetryOnly C1, Cs, Cn, and Cnv can have a molecular dipole and be polar.

Symmetry does not tell you the direction or the magnitude of the dipole moment.

Direction-

Cs could be any direction (no axis)

Cs could be direction except to ⊥ sh

Cn and Cnv must be z or -z

Magnitude-

Depends on the atoms, lone pairs and bond dipoles

NH3

NF3?

Bond Dipole

Lone pair

Molecular Dipole

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Dipole Moment and SymmetryWhy symmetry and dipole moment matter?

1) Solubility

2) Miscibility

3) Boiling/melting points

4) pKa

5) Vibrational Transitions

6) Crystal Structure/Property

NHO

Acetanilide p-chloroacetanilide

NHO

Cl

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Dipole Moment and SymmetryAcetanilide-

Form pairs related by an inversion center.Cancelation of dipoles.

NHONHO

Cl

p-chloroacetanilide- Head to tail alignment.Aligned dipoles.

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Non-polar crystal Polar crystal

Symmetry Through the Eyes of a Chemist

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Non-polar crystal Polar crystal

Symmetry Through the Eyes of a Chemist

1) Solid/gas reactions

2) Melting temp

3) Hardness

4) Conductivity

5) Optical Polarity

6) Pyroelectricity-must have dipole

7) Piezoelectricity

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i


x

z

yCan have a dipole in z or –z unless there is a C⊥ 2 or a sh


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Optical Activity and Symmetry

• Chirality• Circular Dichroism• Optical Activity and

Symmetry• Dynamic Molecules• Applications of CD

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Chiral Molecules

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• DNA is right handed

• Amino acids are L

• Carbohydrates are D

• Alpha Helix is right handed

• Origin/Evolution of life

• Drug delivery/processing

• Olfactory receptors

Why Chirality Matters

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Importance of Chiral Molecules

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(+) –rotates the plane polarized light clockwise (when viewing towards the light source) (-) –rotates the plane polarized light counterclockwise

R / S system- requires no reference molecule (Cahn–Ingold–Prelog priority rules)

D/L system- referenced vs glyceraldehyde.

(+)/(−) system- related to the direction to which it rotates plane polorized light.

Naming Conventions

R / S, D/L and (+)/(−) are not related.

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Optical Activity

hn

Sample

• Transmittance:T = P/P0

• Absorbance: A = -log T = log P0/P

hn

P0

Sample

(power in)

P

(power out)

We don’t measure absorbance. We measure transmittance.

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The Beer-Lambert Law (l specific):

A = absorbance (unitless, A = log10 P0/P)

e = molar absorptivity (L mol-1 cm-1)

l = path length of the sample (cm)

c = concentration (mol/L or M)

Beer’s Law

P0

Concentration Absorbance

A = e c l

Path length Absorbance

Molar Abs. Absorbance

Sample

(power in)

P

(power out)

l in cm

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Sample

Detector

End View

UV-Vis Spectroscopy

Unpolarized Light

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Polarizers

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Polarization of Light

Side View End View

Vertically Polarized

Horizontally Polarized

http://www.enzim.hu/~szia/cddemo/edemo0.htm

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S

S

C6H13

C6H13

Light + MoleculesSource

Strong Absorption

Weak Absorption

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Orientation Dependent Absorption

Ph

Ph

Angew. Chem. Int. Ed. 2005, 44, 6564 –6568

a axis

b axis

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Adding Polarized LightIn phase (peak at the same time) + same amplitude

Vertical + Horizontal = 45° diagonal

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Adding Polarized Light

Green peaks when red baselines.Sum (blue) is always 1.

¼ l (90°) out of phase + same amplitude

Vertical + Horizontal = Circular

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l/4 Wave Plate Polarizer

l/4 Wave Plate Polarizer

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Polarization of Light

Side View End View

left-circularly polarized

right-circularly polarized

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Adding Polarized LightIn phase (peak at the same time) + same amplitude

left circular + right circular = vertical

Green peaks when red peaks.

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Absorption Spectroscopy

Absorbance: A = -log T = log P0/P

P0

(power in)

P

(power out)

P0

P

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Optically Active Molecules

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The Beer-Lambert Law:

A = absorbance (unitless, A = log10 P0/P)

e = molar absorptivity (L mol-1 cm-1)

l = path length of the sample (cm)

c = concentration (mol/L or M)

A = e c l e is the same for D and LIf C are equal:

50:50 D to L100% D100% L

Then A is the same.

Assuming the light is unpolarized!

Absorption Spectroscopy

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P0

(power in)

P

(power out)

left-circularly polarized

right-circularly polarized

Circular Absorption

Absorbs moreSmaller P

Absorbs LessLarger P

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Circular Absorption

Absorbance: A(left) = log P0(left) /P(left)

A(right) = log P0(right)/P(right)

P0

(power in)

P

(power out)

P0(left)

P(left)

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Circular DichroismCD measures the difference between the absorption of left and right handed cirularly-polarized light:

De is typically <100 M-1 cm-1

e is typically > 10,000 cm-1

= 3298 Δε.

CD spectra reported in ellipticity () or De

e in L/mol cm (liters mol-1 centimeters-1) in degrees cm2/dmol-1 (degrees centimeters2 mol-1)

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Polarizer

Prism

Source

Circular Dichroism

Process:1) Unpolarized white light2) Monochrometer3) Plane polarizer4) left-right modulator5) left (then right) through sample6) measure P for right (then left) through sample

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CD Spectrometer

AVIV 202 CD spectrometerInstitute of Molecular Biophysics

170-875 nm

-10oC to 110oC

titrator attachment

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Optical Activity and SymmetryMolecules are optically active if it contains at least one chiral center.

Many molecules have no chiral centers and yet are optically active.

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Optical Activity and SymmetryWhich molecules are expected to be optically active?

Molecules with no improper axis of rotation (Sn) are optically active.Note S1 = σ and S2 = i.

C1, Cn, and Dn

• Nonaxial (no rotation)

- C1, Cs, Ci

• Cyclic (rotational)

-Cn, Cnv, Cnh, Sn

• Dihedral ( C⊥ 2)

- Dn, Dnd, Dnh

• Polyhedral

- T, Th, Td, O, Oh, I, Ih

• Linear

- C∞v, D ∞h

Chiral molecules lack an improper axis of rotation (Sn), a center of symmetry (i) or a mirror plane (σ)!

Also T, O, and I

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Optical Activity and SymmetryChiral molecules lack an improper axis of rotation (Sn), a center of symmetry (i) or a mirror plane (σ)! C1, Cn, and Dn

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Optical Activity and SymmetryChiral molecules lack an improper axis of rotation (Sn), a center of symmetry (i) or a mirror plane (σ)! C1, Cn, and Dn

Also T, O, and I

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Spectra

Absorption Circular Dichroism

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Optical Activity and Dynamic Molecules

10^10 per second

CD spectra-average of both isomers (at room temperature).

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Photoreaction

hn ?

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UV-Vis or CD

source

hn ?


350 400 450 500 550 6000.0

0.5

1.0

1.5

2.0

Ab

sorb

ance

(a.

u.)

Wavelength (nm)

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Absorption CD spectrum

time

hn ?

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PhotoisomerizationDecomposition


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• Determination of secondary structure of proteins• Investigations of protein-protein interactions• Investigation of the effect of drug binding• Protein structure in a membrane• Stereoselective synthesis• Dynamic processes

- protein folding- reaction dynamics• DNA denaturation

Applications

GCN4-p1 coiled–coil

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Side Note

Part 2.3: Dipole Moments and Optical Activity 1. Nonaxial (no rotation) - C 1, C s, C i Cyclic...

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Transcript of Part 2.3: Dipole Moments and Optical Activity 1. Nonaxial (no rotation) - C 1, C s, C i Cyclic...