All About Organic Reaction Intermediates

V Manasa
9 min readDec 8, 2021

Reaction intermediates are

  • high energy
  • short-lived and
  • highly reactive molecule.
Types of Reactive intermediates

When a reaction intermediate is formed, it converts to form the product (a stable molecule).

During an organic reaction, the stability of the reactive intermediate decides the major and the minor product formed during the reaction. It all boils down to this fact

Higher is the energy of the intermediate, lower its stability will be.

The reaction mechanism can be understood very well when one understands the intermediate formed. Based on the reactants, there are various types of intermediates:

  1. Carbocations
  2. Carbanions
  3. Free radicals
  4. Carbenes
  5. Nitrenes
  6. Benzyne

But before we get into detail about all the intermediates, let us discuss the two types of fission that take place.

A single covalent bond is made by sharing two electrons between two atoms. Based on the distribution of electrons when bond fission takes place.

Homolytic Fission

In this type of fission, the two electrons are distributed in such a way that each atom gains one electron. The fission is denoted by half headed arrow.

Homolytic Fission

Heterolytic Fission

In this type of fission, the two electrons are distributed in such a way that one atom gains both the electrons making it electron-rich whereas the other atom becomes electron deficient. The fission is denoted by a full-headed arrow. The atom that gains the electrons is more electronegative.

Heterolytic fission

An electronegative atom is the one that pulls the electrons of the covalent bond to itself.

Carbocation

A carbocation is a positively charged ion. When heterolytic fission of a bond between C-X takes place and X is more electronegative than carbon, the shared pair of electrons is taken by the electronegative atom. This leaves the carbon atom with a positive charge. The carbon is trivalent and has an even number of electrons.

Carbocation Formation

The carbon atom is sp² hybridised. The empty p-orbital is perpendicular to the plane of the other bonds. The carbocation has a trigonal coplanar shape with a bond angle of 120°.

Structure of Carbocation

Stability of Carbocations

Primary, secondary and tertiary carbocation

Primary, Secondary and tertiary carbocations

The primary, secondary and tertiary carbocation differ based on the number of alkyl groups the central carbon atom is bound to.

Two effects are affecting the stability of the carbocation:

  1. Inductive effect- Alkyl group is electron releasing in nature. So an alkyl group helps stabilise the positive charge on the carbon atom. The more the number of alkyl groups, more is the stability of the carbocation.
  2. Hyperconjugation- The positive charge of the carbon atom is getting delocalised between the p orbital of the positively charged carbon and the sigma bond between the beta C-H bond. More the number of alkyl groups implies more number of hyperconjugation structures. When the number of hyperconjugation structures increases, the stability increases.

So the order,

Tertiary carbocation> Secondary carbocation> Primary carbocation

Presence of Electron withdrawing groups

Electron withdrawing groups pull the electrons. So, when such groups are attached to a carbocation, they destabilise the carbocation.

The nitro group is electron-withdrawing, which causes the carbocation to destabilise.

Benzylic Carbocation

A benzylic carbocation is a carbocation attached to a benzene ring. The carbon atom of the benzene ring is not the one bearing the positive charge.

Benzylic carbocation

The positive charge of the carbon atom is stabilised by the resonance structures. As we know, more the number of resonance structures, more is the stability. So the benzylic carbocation is stabilised.

Resonance structures showing stability of benzilic carbocation (Since the positive charge cannot move the arrows depict the movement of the delocalised electrons)

Allylic Carbocation

An allylic carbocation consists of a carbon-carbon double bond adjacent to the carbon-containing positive charge.

Allylic carbocation

The allylic carbocation is resonance stabilised too.

Resonance structures of allylic carbocation

Triphenyl methyl carbocation

Remember the benzylic carbocation? It’s the same but only the remaining hydrogen atoms of the positively charged carbon atom are replaced by benzene rings to form a triphenyl methyl carbocation.

Resonance structures of triphenyl methyl carbocation

Due to the high number of resonance structures formed, this carbocation is so stable that its solid salts have been isolated.

Triphenylmethyl perchlorate

Requirements for the stability of a carbocation

  • A planar structure helps for the effective delocalisation of electrons.
  • The presence of conjugated double bond will increase the number of resonance structures formed
  • The presence of heteroatom having an unshared pair of electrons adjacent to the cationic centre will help increase stability by resonance.

Examples of heteroatoms- Oxygen, nitrogen, halogen etc.

Presence of oxygen atom

Carbanion

A carbanion is a negatively charged ion. It is derived by heterolytic fission of the C-X bond where the carbon atom is more electronegative than X. So, the carbon takes the bonding electron pair.

Formation of carbanion

The negatively charged carbon atom has eight electrons so it is not electron deficient.

The carbon atom is trivalent and sp³ hybridised. The carbanion has a pyramidal shape. Unshared electron pair of electrons occupy the apex of the tetrahedron.

Structure of Carbanion

Stability of Carbanion

Since carbanions are electron-rich, they are highly reactive and can be readily attacked by an electrophile.

Primary, secondary tertiary carbanions

Alkyl groups are electron releasing in nature. The more the number of alkyl groups, the nature the stability of the carbanions.

So the order of stability,

Primary carbanion > Secondary carbanion > Tertiary carbanion

Presence of Electron Releasing Groups

Electron releasing groups destabilise the carbanion.

Presence of Electrons Withdrawing Groups

Electron withdrawing groups increase the stability of carbanion.

Benzyl carbanion

Bezyl Carbanion

Like the benzyl carbocation, benzyl carbanion is resonance stabilised too. The negative charge is delocalised in the benzene ring.

Resonance of Benzylic Carbanion

Allylic Carbanion

An allylic carbanion consists of a carbon-carbon double bond adjacent to the carbon-containing negative charge.

Allylic Carbanion

The allylic carbanion is resonance stabilised too.

Resonance of allylic carbanion

Free Radicals

Free radicals are formed by homolytic fission of the bond between the two atoms. Each atom gets one electron from the electrons of the bond. Free radicals have an odd number of electrons.

Formation of free radical

It is a highly reactive neutral intermediate. The high reactivity of free radicals is due to the need for electrons to pair up. Free radicals are paramagnetic and are observed by electron spin resonance (E.S.R).

Two structures have been postulated:

Two types ofstructures postulated for Free radicals

There is no chemical evidence for the planar or the pyramidal structure. According to electron spin resonance, ultraviolet spectroscopy and infrared spectroscopy shows that simple radicals are planar.

Stability of Free Radicals

Primary, Secondary and Tertiary free radicals

The order of stability of free radicals is similar to that of carbocations.

Tertiary free radicals > Secondary free radicals > Primary free radicals

Primary, Secondary and Tertiary free radical

This is due to hyperconjugation. The more the number of hyperconjugation structures, the more is the stability. Tertiary free radicals have more hyperconjugation structures than the other two, and so it is more stable.

Allylic and Benzylic free radicals

Allylic and benzylic free radicals are stabilised by resonance. Benzylicfree radicals are more stable than allylic free radicals because of more number of resonance structures in benzylic free radicals.

Resonance Structures of Allylic and Benzylic Free Radicals

The stability above can also be explained by resonance structures. The more the number of possible resonance structures, the more is the stability.

Like carbocations, more the number of phenyl groups attached to the carbon free radical, more is the stability (Due to resonance).

More number of benzene rings- more stability

Carbenes

Carbenes are formed by homolytic fission of two bonds formed by the carbon atom. These are highly reactive and have a lifetime of less than a second. The carbon atom has two nonbonding electrons.

Formation of carbene

Since carbon atoms have 6 electrons, it is electron-deficient and can act as a strong electrophile.

Carbenes can exist in two states: singlet and triplet state.

Singlet and triplet state of Carbene

Stability of Carbene

Generally, the singlet carbene is more stable than triplet due to resonance.

When the carbon atom of carbene is bound to an atom containing lone pair of electrons, its stability increases.

Presence of atom having a lone pair of electron bound to carbene

Nitrene

Nitrenes are the nitrogen analogues of carbene that contain a monovalent nitrogen atom.

Nitrene

The nitrogen atom has a sextet of electrons. Like carbene, nitrene exists as a singlet and triplet state.

Singlet and Triplet state of nitrene

Stability of Nitrenes

Alkyl nitrenes are more reactive than aryl nitrene. So, alkyl nitrenes have been isolated by trapping in a matrix at 4K but aryl nitrenes can be trapped at 77K.

Alkyl and Aryl nitrene

Like carbenes, nitrenes are also affected by the substituents attached. Pi electron-donating substituents stabilise the nitrene that causes it to show nucleophilic character.

Nitrene reacts with CO to form isocyanate.

Aryl nitrene reacting with Carbon monoxide

Benzyne

This is a highly reactive neutral intermediate that consists of a benzene ring. The aromaticity is not disturbed because the pi-electron system is not disturbed.

Benzyne

Structure and Stability of Benzyne

Benzyne can exist as ortho, meta and para isomers.

Ortho, meta and para benzyne

Hope the post helped you understand reaction intermediates better. The reaction intermediates helps decide the major product in a chemical reaction. Usually, the more stable reactant gives the major product.

References

Ahluwalia, V. K., & Parashar, R. K. (2011). Reaction Intermediates. In Organic reaction mechanisms, Narosa.

Singh, M. S. (2014). Nitrenes. In Reactive intermediates in organic chemistry: Structure, mechanism, and reactions, Wiley-VCH.

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