Pharmaceutical Organic Chemistry 3 - Unit 1


Syllabus

Stereo isomerism

Optical isomerism -

Optical activity, enantiomerism, diastereoisomerism, meso compounds

Elements of symmetry, chiral and achiral molecules

DL system of nomenclature of optical isomers, sequence rules, RS system of nomenclature of optical isomers

Reactions of chiral molecules

Racemic modification and resolution of racemic mixture. Asymmetric synthesis: partial and absolute



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POC-3 UNIT-1

STEREOISOMERISM

Isomers

These are those chemical substanus which has Same molecular formula but different spructural formula, and this phenomena is known as

"Isomerism". (they have also different properties].

CH3CH2OHCH_3-CH_2-OH (ethyl alcohol) and CH3OCH3CH_3-O-CH_3 (Dimethyl ether).

Isomerism

  • Spructural Isomerism (same molecular formula but different in spucture).
    • Chain Isomerism
    • Position Isomerism
    • Metamerism
    • functional Isomerism
    • Tautamerism
  • Stercoisomerism (same moledar and spuctural formula, but different arrangement of atom in space due to rotation).
    • Optical Isomerism
    • Geomerical Isomerism


Stereoisomerism

It is a form of isomerism in which molecules have the same molecular formula and same spructural formula but different in arrangement of atoms/groups in space.

eg : 1,2 dichloroethene

[Image description: Diagram showing Cis-1,2-dichloroethene and Trans-1,2-dichloroethene]



Optical isomerism

It isomerism is a type of stereoisomerism, in which Molecules have Same molecular, structural formula and also have Same physical properties, like melting point, boiling point, density ere-- But they differ in their behaviour towards Light.

  • They also have same specific rotation of light but with opposite sign.

eg : Lactic Acid ($C_3H_6O_3$)

[Image description: Diagram of Dextro rotatory "D" or "+" lactic acid and Levo rotatory "L" or "-" lactic acid structures] (+) D-lactic acid L-lactic acid (-)

  • Optical active compound which has power to rotate the plane polarised Light. (optical activity)


Optical Activity

The power of any substance to rotate the plane polatised light (PPL) from its axis to clockwise or anticlock wise direction is called "optical activity" And the substance is known as Optical active substance".

For Determination,

Screenshot 2026-04-05 161529

  • Polarimeter, which check and measure optical activity.
  • Firstly ordinary Light passes through Nicol prism, make it PPL (plane polarised Light), then pass this Light from polarimeter tube in which we filled a 1% solution which we have to Check optical activity.
  • If the PPL goes unaffected or straight the solution/Compound is "optically inactive" but if the PPL rotate then compound (solution) is "optically active"
  • Rotation is of two types
    • If PPL rotates in clockwise direction, the solution is "Dextro rotatory" denote as "D" or "+".
    • If PPL rotates in anticlockwise direction, the solution is "Levo rotatory" denote as "L" or "-".


Enantiomers

The optical isomers which are non-super imposable mirror image of each other are called "enantiomer"

eg : Lactic acid

[Image description: Mirror images of Lactic acid molecules that are non-superimposable]

  • Enantiomers differ from one another in three dimensional Spatial arrangements.
  • They have same melting point, density, solubility, colour and reactivity towards acids & bases.
  • They have different specific rotation of plane polarised Light towards optical activity. A -> Dexno (+) Levo (-)


Diastereoisomerism

The stereoisomers that are non-mirror images of each other and also non-super imposable of each other, they have all Called "Diastereoisomers".

  • Diastereoisomers have atleast two stereocentres.
  • Diastereoisomers have different properties, such as melting point.

Screenshot 2026-04-05 161745



Elements of Symmery

Those compounds which can be divided into an equal parts from any plan called "symmetrical compounds"

I) Plane of Symmery : A plane which divides an object into two symmetrical halves is called "plane of symmury".

Screenshot 2026-04-05 161845


II) Centre of Symmeby : Also known as "point of symmetry".

  • If all spaight lines that can be drawn through the centre of the molecule meet identical atoms at equal distance pom the centre.

Screenshot 2026-04-05 161926



Meso Compounds

A compound with two or more asymmunic Carbon atoms but also having a plan of Symmeby is called the "Meso compounds".

  • Plane of symmetry, one half of the molecule is mirror image of other half. eg Tartaric acid

Screenshot 2026-04-05 162050

  • These types of compound are optical inactive due to internal Compansation.

Chiral Molecules

Those molecules which cannot superimposable on its mirror image. (non-superimposable). these molecules are Optical active which rotati plane polarised Light.

Chiral means handedness.

Screenshot 2026-04-05 165133

  • Chiral molecules also have a "chiral centre" or "Asymmetric carbon atom".
  • Chiral centre (Chiral carbon atom) - A carbon atom which attached with four differesht atoms/groups.
    eg : Lactic acid

    Chiral Carbon atom also known as asymmetric carban atom.


Achiral Moleuwles

  • Those molecules which are superimposable on its mirror images.
  • But these are Optical inactive molecules which can not rotati plane polarised light.
  • eg : Dichlorofluoromethane

Screenshot 2026-04-05 165255


Representation of structure of Molecules


1) Wedge & Dash (flying wedge projection)

  • These are the "3D representation" of Molecules.
  • These are used for both chiral & achiral molecules.
  • This protection is used for terahedral structure, in which two atoms/group are in plane and other two are in above and below the plane.

Screenshot 2026-04-05 165344


2) fischer Projection

  • It is the "2D Representation" of molecules.
  • In this method molewles are represented by cross line and the centre of lines is assumed as Carbon atom.

Screenshot 2026-04-05 165424



How to convert "Wedge-Dash projection" to "fischen projection"

  • This conversion is important for the (D/L) and (R/S) configuration of molecules.
  • In this, 3D stucture of molecules is convert into 2D structue.

Screenshot 2026-04-05 165526

  • Those atoms/group which are on plane, represent all on vertical line in fischer projection.
  • Then, watch wedge-dash structure from that side on which "above & below the plane" atoms/group attached.
  • Then that atom/group which is in your left side, put it in left side and that atom/group which is in your right side, put in right side in "fischer projection".

Screenshot 2026-04-05 170535



NOMENCLATURE OF OPTICAL ISOMERS

1) D/L System :- (Relative Configuration)

The D/L system was developed by fischer and Rosanoff in around 1900.

  • This method is used for optical active compounds.
    • D(+) Dexborotatory: which has clockwise rotation OR Right hand side (R)
    • L(-) levorotatory: which has anticlockwise rotation OR Left hand side (L) rotation.
  • This D/L configuration is used for amino acid & Carbohydrates.
  • In this Configuration, "Glyceraldehyde" is used as a reference compound.

Screenshot 2026-04-05 170642

Rules

I) Draw proper fischer projection formula of molecules.
II) Highur oxidised group must be on top. (if not then rearrange this).
III) Observe bottom most chiral (asymmubic) carbon, if it contain -OH/-NH2 at right then "D", if at left than "L".

  • Longest chain is always on vertical line.
  • If -OH and -NH2 both are present than D/L decided by -NH2 group.

Examples

Screenshot 2026-04-05 170735


Screenshot 2026-04-05 170830



R/S System of nomenclature of optical isomers

This is "absolute configuration", which is used for optical active Isomers compounds.

R \rightarrow Rectus [Right]
S \rightarrow Sinister [Left]

  • This configuration was given by three scientist (European) R.S. Cahn, C.K. Ingold and V. Prelog. So, it is also known as "CIP system" [Cahn Ingold prelog].

SEQUENCE RULE (for RS configuration, It is necessary to know the sequence rule).

  1. firstly identify all chiral cenbe, then decide priority of all attached atoms/groups according to their "atomic number" i.e. higher atomic number with higher priority.

Eg : I>Br>Cl>S>F>O>N>C>HI > Br > Cl > S > F > O > N > C > H, their atm. number 53>35>17>16>9>8>7>6>153 > 35 > 17 > 16 > 9 > 8 > 7 > 6 > 1.

  1. If the two or more atoms/group attached to the chiral centre are same, then give priority according to then "next atom/group"

  2. The lowest priority atom/group must be on bottom or top of vertical line.


Some funcional group with their priority order

I>Br>Cl>SH>F>OR>OH>NO2>NH2>CCl3>COCl>COOR>COOH>CHO>CH2OH>CC>C=C>C2H5>CH3-I > -Br > -Cl > -SH > -F > -OR > -OH > -NO_2 > -NH_2 > -CCl_3 > -COCl > -COOR > -COOH > -CHO > -CH_2OH > -C \equiv C- > -C=C- > C_2H_5 > -CH_3


Rules for RS configuration

  1. The atom/group attached with a chiral cenbe are assigned a number 1 to 4 according to "sequence rule".

  2. Now, If the lowest priority group is on vertical line, then,

  • Rotation of 1 \rightarrow 2 \rightarrow 3 is clockwise, configuration must be 'R' (Rectus).
  • Rotation of 1 \rightarrow 2 \rightarrow 3 is anticlockwise, configuration must be 'S' (Sinister).
  1. But, If the lowest priority group is on horizontal line, then, (OPPOSITE)
  • Rotation of 1 \rightarrow 2 \rightarrow 3 is clockwise, configuration is 'S'.
  • Rotation of 1 \rightarrow 2 \rightarrow 3 is anticlockwise, configuration is 'R'.

Screenshot 2026-04-05 171011


Screenshot 2026-04-05 171054


Summary of ROTATION

  • lowest priority group (LPG) should be on vertical line.
    • Clockwise \rightarrow R
    • Anticlockwise \rightarrow S
  • But, if LPG (lowest priority group) is on horizontal line. Work Reverse (opposite).
    • Clockwise \rightarrow S (change)
    • Anticlockwise \rightarrow R (change)


Reactions of Chiral Molecules

Chiral Molecules:

  • Those organic compound which has four different atom/group are attached with Carbon.

Racemic Mixture

  • The equimolar mixture of Dextro (D) / Levo (L) substance is called Racemic mixture.

  • Chiral molewles show three types of reactions-

    I) Inversion
    II) Racemisation
    III) Retention


I) Inversion

  • These are those reactions in which chiral molecules change their nature after reaction, it convert

    'R' [D] Dextro compounds \rightarrow 'S' [L] Levo compounds
    'S' [L] Levo compounds \rightarrow 'R' [D] Dextro compounds

    eg : SN2 reaction show the inversion reaction.

Screenshot 2026-04-05 171156


II) Racemisation

  • In this reaction, optical active compound is converted into Optically inactive compound after the reaction.

    Screenshot 2026-04-05 171240

  • It this reaction, 'Cl' replace 'H' and form a meso compound, which is optically inactive.


III) Retention

  • In this reaction chiral molecules/compound remain constant (same configuration) after reaction.

Screenshot 2026-04-05 171321



Racemic Modification and Resolution of racemic mixture

Racemic Modification

  • Also known as Racemic mixture represented as (DL, RS, ±\pm, dl).
  • The equal amount of leavo (-) and dexro (+) forms Optically inactive mixture known as racemic modification. [-Equal amount of both enantiomers].

Screenshot 2026-04-05 171358


Resolution of Racemic mixture

  • It is the process of separation of a racemic modification into its enantiomers constituents.
  • Also in this process optically inactive compound is converted into optical active compounds.

Methods used for resolution

i) Mechanical method [ Crystallization mutnod]
ii) Chromatography
iii) Biological method
iv) Chemical Method


I) Mechanical method (Crystallization method)

  • In this method, firstly crystallized the both enantiomers in racemic mixture.
  • Now both have different shapes from each others. So, they are separated by magnifying lens and forceps.
  • This is a mechanical separation (manual) given by Louis Pasteur in 1848.
  • This method is applicable only to racemic conglomerates (If the molecules of the substance have greater affinity for Same enantiomers than for the opposite one).
  • This method is economic but time consuming.

II) Chromatography

  • Optically active substance can be resolved by chromatography.
  • In this process, the racemic mixture is run through a column, which is filled with a optically active adsorbent (a chiral substance).
  • The enantiomers will interacts differently with the chiral substance and elutes at different routes.
  • In this optically active substance are adsorbed by optically active adsorbent Selectively on the basis of their affinity.

III) Biological method

  • In this method, certain microorganism (bacteria, fungi, enzymes etc...) are allow to grow in Racemic mixture.
  • They destroy one of the enantiomers at faster rati compare to other.
  • Hence, the unchanged (other) enantiomer can be isolated by fractional crystallization or chromatography.
  • It is developed by Pasteur in 1858.
  • Drawback \rightarrow one enantiomer is sacrificed. and if mixture is toxic than they kill the microorganism.
  • Eg. Penicillium used to remove D-ammonium tartarati from racemic mixture of ammonium tartarati.

IV) Chemical Method

  • In this method a racemic mixture of enantiomers is converted into a mixture of diastereomers.
  • The separation of enantiomers is difficult because of Same physical properties.
  • So, enantiomer reacted with optially active compounds to form diastereomers.
  • Then, these diastereoisomers can be separated due to difference in their physical properties and after separation they are reconverted to enantiomers by adding mineral acid ($H^+$).
  • Eg : Acid-Base reaction often used for resolution of racemic alkaloids like quinine, morphine etc-.


Asymmetric Synthesis

In this method, Optically active compound is directly prepare from an Optically inactive compounds under the influence of some other optically active substance.

Screenshot 2026-04-05 171646

We can say that symmetric molecules (inactive) is directly converted into asymmetric molecules (active).

  • It is of two types

    I) Partial Asymmetric Synthesis
    II) Absolute Asymmetric synthesis


I) Partial Asymmetric synthesis

  • In this asymmetric synthesis, Both (+) and (-) enantiomers are formed but one of these in is obtained in large amount.
  • So, Both are not in equal amount and act as a Optically active compound and pass the plane polarised Light.
  • Eg. Glucose etc-

Screenshot 2026-04-05 171734


II) Absolute Asymmetric synthesis

  • In this synthesis, Racemic mixture (symmetric molecules) Is Completely convert into Optically active Compounds (Dextro OR Levo) any one.
  • In this only one enantiomer can be formed completly.
  • In this, any physical agent is used.

Screenshot 2026-04-05 171817


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Unit 1, Pharmaceutical Organic Chemistry 3, B Pharmacy 4th Sem, Carewell Pharma
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