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Презентация на тему General aspects of chemical structure and reactivity of organic compounds

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General aspects of chemical structure and reactivity of organic compoundsLecture №1
Information  Discipline: Bioorganic chemistry Final assessment: test   Lecturer: PhD, General aspects of chemical structure and reactivity of organic compoundsLecture №1 Chemical bonding and mutual atoms’ influence in organic molecules Electronic configuration of carbon atom in organic moleculesground stateexcited state Atomic orbitalsThe orbital is a region of space where the probability of Hybridization of orbitalsHybridization is the process of atomic orbitals alignment in form and energy. sp3-Hybridizationtetrahedral configuration sp2-Hybridizationplanar configuration sp-Hybridizationlinear configuration Chemical bonds in organic compoundsCovalent bonds      σ ConjugationConjugation is the formation of delocalized electronic cloud in molecule as a π,π-Conjugationbutadiene-1,3 р,π-Conjugationmethyl vinyl ether AromaticitybenzeneA molecule can be aromatic only if it has a planar cyclic Inductive effectInductive effect (I) is the shifting of electrons in a σ-bond Mesomeric effectMesomeric effect (М) is the shifting of electron density caused by Electron donors (D) and electron withdrawers (W) Spatial structure of organic compounds Isomerism of organic compoundsIsomers are the compounds which have the same composition StereoisomerismStereoisomers are the compounds that have the same order of atoms attachment Configuration is the arrangement of atoms and groups in space without regard ChiralityChirality is the property of the object to be nonsuperposable with its EnantiomersEnantiomers are the stereoisomers, the molecules of which relate to each other Fischer projections      Spatial formulas D,L-Nomenclature Glyceraldehyde is the configurational standard. Fischer projection writes in “standard view”. R,S-Nomenclature The least substituent near the chiral center must lie at the DiastereomersDiastereomers are the stereoisomers that are not mirror images of one another. meso CompoundsA meso compound is an optically inactive achiral stereoisomer containing chiral centers.L-tartaricacidD-tartaricacidmeso-tartaricacidplane ofsymmetry Acidity and basicity  of organic compounds Acidity and basicity are the key notions, determining many fundamental physico-chemical and Brønstedt-Lowry conceptJ.-N. BrønstedtТ. М. LowryAn acid is a neutral molecule or an Brønstedt acidsAcidic site is a part of molecule that involves hydrogen together Brønstedt basesBasic site is a heteroatom with a lone-pair of electrons or Comparison the acidityThe more stable is an anion, the stronger is an The influence of atom nature in acidic siteСН The influence of substituents effects inductive effect mesomeric effectAcidity increaseAcidity increase Comparison the basicityThe more stable is an cation and the more available The influence of atom nature in the basic site   S Lewis conceptA Lewis acid is any substance that can accept an electron
Слайды презентации

Слайд 2 General aspects of chemical structure and reactivity of

General aspects of chemical structure and reactivity of organic compoundsLecture №1

organic compounds
Lecture №1


Слайд 3 Chemical bonding and mutual atoms’ influence in organic

Chemical bonding and mutual atoms’ influence in organic molecules

molecules


Слайд 4 Electronic configuration of carbon atom in organic molecules
ground

Electronic configuration of carbon atom in organic moleculesground stateexcited state

state
excited state


Слайд 5 Atomic orbitals
The orbital is a region of space

Atomic orbitalsThe orbital is a region of space where the probability

where the probability of finding an electron is large,

above 95% of its time.

Слайд 6 Hybridization of orbitals

Hybridization is the process of atomic

Hybridization of orbitalsHybridization is the process of atomic orbitals alignment in form and energy.

orbitals alignment in form and energy.


Слайд 7 sp3-Hybridization
tetrahedral configuration

sp3-Hybridizationtetrahedral configuration

Слайд 8 sp2-Hybridization
planar configuration

sp2-Hybridizationplanar configuration

Слайд 9 sp-Hybridization
linear configuration

sp-Hybridizationlinear configuration

Слайд 10 Chemical bonds in organic compounds
Covalent bonds

Chemical bonds in organic compoundsCovalent bonds   σ - bond

σ - bond

π - bond


Слайд 11 Conjugation
Conjugation is the formation of delocalized electronic cloud

ConjugationConjugation is the formation of delocalized electronic cloud in molecule as

in molecule as a result of p-orbitals overlap.

π,π-Conjugation is

the type of orbital interaction when the p-orbitals are delocalized over the entire π system.

p,π-Conjugation is the overlap of a p-orbital on an atom adjacent to a double bond.



Слайд 12 π,π-Conjugation
butadiene-1,3

π,π-Conjugationbutadiene-1,3

Слайд 13 р,π-Conjugation
methyl vinyl ether

р,π-Conjugationmethyl vinyl ether

Слайд 14 Aromaticity
benzene

A molecule can be aromatic only if it

AromaticitybenzeneA molecule can be aromatic only if it has a planar

has a planar cyclic system of conjugation with a

p-orbital on each atom and only if the p-orbital system contains (4n+2) π-electrons, where n is an integer (0, 1, 2, 3, etc.).

Слайд 15 Inductive effect
Inductive effect (I) is the shifting of

Inductive effectInductive effect (I) is the shifting of electrons in a

electrons in a σ-bond in response to electronegativity of

nearby atoms.
present in any polar molecule;
decrease and fade after 2-3 bonds.


СН3→СН2→Сl CH3←CH2←MgCl




-I-effect

+I-effect


Слайд 16 Mesomeric effect
Mesomeric effect (М) is the shifting of

Mesomeric effectMesomeric effect (М) is the shifting of electron density caused

electron density caused by a substituent in conjugation system

through p-orbital overlap.
present only in conjugation systems;
distribute throughout the conjugated system.







+М-effect

-М-effect


Слайд 17 Electron donors (D) and electron withdrawers (W)

Electron donors (D) and electron withdrawers (W)

Слайд 18 Spatial structure of organic compounds

Spatial structure of organic compounds

Слайд 19 Isomerism of organic compounds
Isomers are the compounds which

Isomerism of organic compoundsIsomers are the compounds which have the same

have the same composition but different sequence of atoms

or their location in space, therefore have different properties.

Isomers

Structural

Spatial

Skeleton isomers

Positional isomers

Functional isomers

Geometrical

Optical


Слайд 20 Stereoisomerism
Stereoisomers are the compounds that have the same

StereoisomerismStereoisomers are the compounds that have the same order of atoms

order of atoms attachment but differ only in the

arrangement of their atoms or groups in space.

Stereoisomers



Configurational

Conformational


Слайд 21 Configuration is the arrangement of atoms and groups

Configuration is the arrangement of atoms and groups in space without

in space without regard to arrangements that differ only

due to rotation about one or more single bonds.

Carbon atom configurations

Configuration of molecules

tetrahedral planar linear


Слайд 22 Chirality
Chirality is the property of the object to

ChiralityChirality is the property of the object to be nonsuperposable with

be nonsuperposable with its mirror image.

The simple example of

chirality is presence the chiral center in molecule.
It may be carbon atom with four different atoms or groups - asymmetric carbon atom (*С).
Such molecules have optical activity – they rotate the plane of polarized light.

Types of isomers:

enantiomers

diastereomers


Слайд 23 Enantiomers
Enantiomers are the stereoisomers, the molecules of which

EnantiomersEnantiomers are the stereoisomers, the molecules of which relate to each

relate to each other as an object and its

nonsuperposable mirror image.
enantiomers have the same physical and chemical properties;
enantiomers have optical activity.




Enantiomers of glyceraldehyde

Racemate is a mixture containing equal amounts of both enantiomers. Racemic mixture is optically inactive.


Слайд 24 Fischer projections
Spatial

Fischer projections   Spatial formulas

formulas

Fischer projections

Rules
the carbon chain is disposed vertically (with the principle group at the top);
substituents on the horizontal line lie in front of the plane, on vertical line– behind the plane of the paper;
two interchanges do not alter the initial configuration;
the rotation of projection through 180o in the plane of the paper do not alter the initial configuration.


Слайд 25 D,L-Nomenclature
Glyceraldehyde is the configurational standard.
Fischer projection

D,L-Nomenclature Glyceraldehyde is the configurational standard. Fischer projection writes in “standard

writes in “standard view”. We can do the interchanges

or rotate the projection through 180o to achieve the “standard view”.
If the group lies on the left side we name it as levorotatory enantiomer (L). If the group lies on the right side we name it as dextrorotatory enantiomer (D).

L-alanine D-lactic acid


Слайд 26 R,S-Nomenclature
The least substituent near the chiral center

R,S-Nomenclature The least substituent near the chiral center must lie at

must lie at the bottom of the Fischer projection.



Atoms attached directly to the chiral center are first arranged according to decreased atomic number.

If the remaining three groups are arranged clockwise, the configuration is symbolized by R. If they form a counterclockwise array, the configuration is symbolized by S.


L-lactic acid


(S)-lactic acid




Слайд 27 Diastereomers
Diastereomers are the stereoisomers that are not mirror

DiastereomersDiastereomers are the stereoisomers that are not mirror images of one

images of one another.
they have different physical and

chemical properties.

If a molecule has n chiral centers, the total number of stereoisomers will be N = 2n.




Diastereomers

Enantiomers

Enantiomers


Слайд 28 meso Compounds
A meso compound is an optically inactive

meso CompoundsA meso compound is an optically inactive achiral stereoisomer containing chiral centers.L-tartaricacidD-tartaricacidmeso-tartaricacidplane ofsymmetry

achiral stereoisomer containing chiral centers.

L-tartaric
acid

D-tartaric
acid

meso-tartaric
acid

plane of
symmetry


Слайд 29 Acidity and basicity of organic compounds

Acidity and basicity of organic compounds

Слайд 30 Acidity and basicity are the key notions, determining

Acidity and basicity are the key notions, determining many fundamental physico-chemical

many fundamental physico-chemical and biochemical properties of organic compounds.





Слайд 31 Brønstedt-Lowry concept
J.-N. Brønstedt
Т. М. Lowry
An acid is a

Brønstedt-Lowry conceptJ.-N. BrønstedtТ. М. LowryAn acid is a neutral molecule or

neutral molecule or an ion that can donate a

proton.

A base is a neutral molecule or an ion that can accept a proton.

АН + :В = А- + ВН+
acid base conjugate conjugate
base acid


Слайд 32 Brønstedt acids
Acidic site is a part of molecule

Brønstedt acidsAcidic site is a part of molecule that involves hydrogen

that involves hydrogen together with an atom attached to

it.

Acids

СН-acids

ОН-acids

SН-acids

NН-acids


Слайд 33 Brønstedt bases
Basic site is a heteroatom with a

Brønstedt basesBasic site is a heteroatom with a lone-pair of electrons

lone-pair of electrons or a π-bond which are capable

to accept a proton.

Bases

n-bases

π-bases


Слайд 34 Comparison the acidity
The more stable is an anion,

Comparison the acidityThe more stable is an anion, the stronger is

the stronger is an acid!

The factors which influence the

stability of conjugate bases:

electronegativity and polarizability of the atom in the acidic site;
delocalization of a negative charge due to the effect of substituens in a molecule;
solvation effects.


Слайд 35 The influence of atom nature in acidic site

СН

The influence of atom nature in acidic siteСН   NH

NH

ОН
SH



СН NH ОН SH

The electronegativity increase


At
omi
c

s
i
z
e

i
nc
r
ea
s
e

Acidity increase


Слайд 36 The influence of substituents effects
inductive effect





The influence of substituents effects inductive effect mesomeric effectAcidity increaseAcidity increase

mesomeric effect


Acidity increase
Acidity increase


Слайд 37 Comparison the basicity
The more stable is an cation

Comparison the basicityThe more stable is an cation and the more

and the more available a lone-pair of electrons, the

stronger is an base!


The factors which influence the stability of conjugate acids is the same but they act in the opposite direction:
.


n-bases

π-bases

Basicity increase


Слайд 38 The influence of atom nature in the basic

The influence of atom nature in the basic site  S

site
S

О N




The influence of substituents effects

Basicity increase


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