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Master Intro PDF
Master Intro PDF
2. Substituent modification
3. Nomenclature: I.U.P.A.C., general rules
References:
1. Alan R. Katritzky, A. F. Pozharskii Handbook of Heterocyclic Chemistry 2nd Edition, Pergamon 2000
2. Alan R. Katritzky Short Course in Heterocyclic Chemistry for Ph. D. Students, University of Florida
1996/1997
3. David T. Davis Chimie des Hétérocycles Aromatiques De Boeck Université 1997, Oxford University Press
1992
4. René Milcent Chimie Organique Hétérocyclique EDP Sciences 2003, www.edpsciences.org
5. Jonathan Clayden, Nick Greeves, Stuart Warren, Peter Wothers Organic Chemistry, De Boeck Diffusion
s.a., 2003, Oxford University Press 2001, www.deboeck.com
Synthesis
Ring Combination of
Substituent
Synthesis the Two
Modification
1. Ring Synthesis Strategy : the following three factors increase the importance
of the ring synthesis
a) Fused Ring vs. Mono cyclic
b) Five vs. Six memebered Ring
c) More Hetero atoms
N
pyridine
N
quinoline
N
acridine
)
Ii it is easier to synthesise a
second ring onto a first one
than to synhtesise a
monocyclic compound.
X X X
))
pyrrole X=NH indole carbazole
thiophene X=S benzothiophene dibenzothiophene
furane X=O benzofurane dibenzofurane
The more heteroatoms one
has in the ring, the more
N methods of synthesis they
N N N
are.
N N N N
)))
pyrimidine quinazoline pteridine
N N N N
Substitution reactions tend
N to be easier on the whole
N N N
H H H when one has fewer
imidazole benzimidazole purine heteroatoms in the ring.
Mircea Darabantu, MASTER DIA. I N T R O D-2
(Y) Endo-Trig
(Z=Y)
CH=O
HO
(Z)
Ring Closure
5 Membered ring
!
OH OH
(Z)
HO Exo-Trig 6 HO O (X) (X)HO N O NH
OH OH Z (X) (Y)
OH (X) Ar Y Ar
CH2OH CH2OH
D-glucose Pyranose chain ring
tautomerism
3
4
1 2 2
3 Br
H2N N 1O 5
O
H H O OH
O
aziridine five membered
(three membered)
(tetrahydrofuran-2-one)
G e n e r a l i s a t i o n:
( )k ( )k
lone Y ..
lone Y .. σ∗
X X
pair
pair empty (donor) π∗
(donor) (acceptor) empty
(acceptor)
n-exo-tet cyclisation n-exo-trig cyclisation
k=0-4 k=0–4
FAVOURED FAVOURED
Stereoelectronically Stereoelectronically
+ + +
O lone
O O OEt pair
3 H H H (donor)
N ..
π∗ empty
4
2 OEt OEt O
N .. (acceptor) OEt
1NH
.. 2
5
HN H lone
5-endo-trig cyclisation pair π∗ empty
DISFAVOURED (donor) (acceptor)
(Intramolecular 1,4-addition) Inappropriate Too far...
orientation
This is the real:
3
4
2 5-exo-trig cyclisation
1NH 5 FAVOURED
2 HN
.. O O
EtO
O - MeO2C MeO2C O
MeO2C O O
∗ 1
MeOOC π
Base ..
2 6
O 3 O
O 5 H
4
O
Appropriate
orientation
trans stereochemistry
with respect to
cyclanone ring
H+ / -H2O
i) Nucleophilic addition
R1 ii) Elimination R1
O + H2N-R3 N R3 + H2O c o n d e n s a t io n
R2 R2
Imine
Schiff base
Example 1:
originates
from...
R1 R1
N R3 O + H2N-R3 good o p t i o n !!
R2 R2 precursors
Target
Compound R1
NH + HO-R3 bad o p t i o n !!
R2 precursors
R1
OR3
e.g.
R2 NH2
Example 2:
hydrolytic disconnection
EWG EWG
O + H2C precursors
(EWG) (EWG)
Example 3:
- NH3
R R R ? bad option
N NH OH H2N O
heterocyclic compound
seen as a cyclic amine
Mircea Darabantu, MASTER DIA. I N T R O D-4
Example 4:
Imine or enamine ? It doesn’t matter…
H H
sp2
sp3
R N R OH NH2
H H
(masked)
H
enamine
R O NH2
H H
sp2
sp3 H
R N R N
H
(masked) imine
enamine
Example 5:
Retrosynthesis of pyrroles seen as hydrolytic disconnection:
basic basic
center +H+ +H+ center
4 3
R
%
Rings containing Oxygen
+1 +1 H
+1
best X
Y
H H -1 H
-2 electrophile best
+1 -2 +1 +1 +2 +1 nucleophile
+1 R +1 +1
R O OH OH R O OH
-2 +1 -2 -2 -2
Mircea Darabantu, MASTER DIA. I N T R O D-5
To be kept in mind:
1. If a hydrolytic disconnection appears suitable, the best pair nucleophile-electrophile sould be
considered
2. All cyclisations (or cyclocondensations) involve classic tautomerism: keto-enolic, imino-enamine, etc.
3. During cyclocondensation (or retrosynthetic hydrolytic disconnection) no global redox process,
involving the whole molecule occurs.
h
???
1 3 5 7
H3C CH3
2[H] 2 6
4
O O
H3C CH3
O O
2,6-heptanedione
☺
Z-1,4-diketone
currently nonavailable commercial product
difficult to obtain
is the above disconnection useful for a chemist ? Why ?
a) Because it provides rapidly the type of precursors
b) Because it provides rapidly the most convenient precursors.
c) Because it infers that if, for reason of availability, a redox step is revealed (e.g. reduction) by the
redox disconnection, in the synthesis of the target molecule a redox step must be accomplished: e.g.
oxidation.
Mircea Darabantu, MASTER DIA. I N T R O D-6
The direct synthesis:
+ NH3
-H2O
NH3 H2S H2 O
4
+ 3 4
+ 3 4
+ 3
5 2 5 2 5 2
N1 S O
H 1 1
H2N-NH2 HO-NH2
hydrazine hydroxylamine
4
+ 3
4
+ 3
5 N2 5 N2
N1 O1
H
pyrazole isoxazole
+
4
+
+ +
6 4
+ 4
+
4
5
N3
5
N3 HN 1 5 5 N3 5 N3
6 2 6 2
S 2 NH2 S 2 R 4
1 1 O 2 N3 N1 R N1 NH2
2-substituted thiazoles 2-pyrimidone 2-substituted pyrimidines
Mircea Darabantu, MASTER DIA. I N T R O D-7
Example 4: b r i n g i n g three, four and five atoms in the target compound: benzoderivatives
NH2
NH2
NH2 NH2
+ 4 8
+ +
5 1 5 4
N
6 3 7 2 6 3
7 2 6 3 7 N2
N 5
N
8 1 4 8 1
Quinoline Quinoxaline Isoquinoline
)
δ+ 5
R R
R LG 6
2
NH2 Cl 7aN1
7 H
LG: leaving group as LG:- 2-substituted
e.g. Cl as Cl-; R'O as R'OH etc. benzimidazoles
)
δ+ δ+ R
5
R R R 1X N2
O
δ- O
Oδ
-
O
)
5 4 N3
δ+ δ+ OR NH2
RO OR
O 6 N 1 2 R'
O OR HN R' H
malonic esters
2-substituted-pyrimidin-
-4,6-dione
Mircea Darabantu, MASTER DIA. I N T R O D-8
O
δ- R
R
O 5 4
δ+ 3
)
6
R
2
NH2 7 N
δ+ 8 1
acrylic derivatives 4-substituted-
-quinoline
Example 4: b r i n g i n g four atoms:
4 3
)
δ+ δ+ δ+ δ+
R R R R R R
5 X 2
O O O O
1
δ- δ-
H2X (X = NH, S)
1,4-diketones
Note: electrophilic fragments usually do not bring heteroatoms in the target compound
)
O LG
δ+ R3 O R3 5 O 2 R
1
R LG R1
as E+ O 1
2,4,5-trisubstituted-
LG: leaving group as LG:-
-oxazoles
e.g. Cl as Cl-
O H O
as Nu:- O 5 4
δ- 3 OR
O OR
)
LG 6
LG
δ+ δ+ 2
OH HO OR 7
O LG O O
δ- as E+ HO LG 8 1
3-substituted-
LG: OR, Halo -coumarines
as E+
δ-
R3 O
δ+
R2 NH2 as Nu:-
an α-aminoketone
Mircea Darabantu, MASTER DIA. I N T R O D-8a
Retrosynthetic analysis:
O O O
5
R1 4 hydrolytic disconnection R1 R1
O1 N-3-C-2 and C-2-O-1 O OH OH
3N 2
N NH2 O
R2 R2 R2
poor ability as Leaving Group
weak nucleophile in this environmen
O O
O
R1 O R1 OH
OH R1
O
NH2 Cl R2 HN O
C HN OH
R2 R2
better LG than HO weak
C=O more electrophilic electrophile
Note: obsolete cyclisation of α-aminoacids as double protected N-, COO- form (oxazoline)
Mircea Darabantu, MASTER DIA. I N T R O D-9
2. Substituent modification
- the below three main types of substituent modification are of general interest
i) nucleophilic displacement:
π + Nu:- π + LG:-
X LG X Nu
π + R-Mn
- RH
π + E+
- Mn+
π Mn: LiI, MgII etc
X H X Mn X E
O oxa > S thia > Se selena > N aza > P phospha > As arsa > Si sila > B bora etc.
Note: the final a is however elided before a vowel e.g. azaole → azole
Rings w i t h Nitrogen
Ring Maximum Unsaturation One Double Bond Saturated
Size
3 Eng. 3 2 3 2 - - Eng. 3 2 3 O1
-irine N N1 -iridine N1 N2
Rom. 1 H Rom. H H
-irină 1-azirine 2-azirine -iridină aziridine oxaziridine
4 Eng. 3 2 Eng. 3 2 3 2 Eng. 3 2 3 O2
-ete 4 N
-etine 4 N1 NH -etidine
1 4 4 NH 4 NH
1 1 1
Rom. azete Rom. 1-azetine 2-azetine Rom. azetidine 1,2-oxazetidine
-etă -etină 2 2 -etidină
3 NH 3 N
4 O1 4 O1
2H-1,2-oxazetine
4H-1,2-oxazetine
5 Eng. 3
Eng. 4 N3 4 N3 4 N3 Eng. 4 NH
-ole 5
-oline 5
-olidine
5 2 2 2 5 2
N1 O1 S1 O1
Rom. H Rom. 2
Rom.
-ol 1,3- 1,3- -olină Δ -thiazoline -olidină 1,3-oxazolidine
diazole oxazole
imidazole
6 Eng. 4 - 4 Nomenclature is made by using the
-ine 5 N3 5 N3 prefix perhydro (total hydrogenated)
6 2 6 2 which precedes the name of the
Rom. N N corresponding non saturated structure
1 1 4
-ină 3
1,3-diazine 4,5- 5 NH
pyrimidine dihydropyrimidine
6 1 2
7 Eng. 5
N4 - - N
-epine 6 3 H
perhydro-1,3-diazine
7 2
Rom. O1
-epină
1,4-oxazepine
8 Eng. 5 - -
4 6
-ocine
3 7
Rom.
2 N 8
-ocină
1
azocine
9 Eng. 6 5 - -
-onine 7 4
8 3
Rom. 1
onină 9 N 2
H
1H-azonine
Mircea Darabantu, MASTER DIA. I N T R O D-11
Rings w i t h o u t Nitrogen
Ring Maximum Unsaturation One Double Bond Saturated
Size
3 Eng. 3 2 3 2 - - Eng. 3 2 3 2
-irene O S -irane O S
1 1 1 1
Rom. oxirene thiirene Rom. oxirane
irenă -iran thiirane
4 Eng. Eng. - Eng. 3 4 3 4
3 4 3 S2
-ete -etene -etane 2 O1 2 S O1
Rom. 2 O1 4 O1 Rom. Rom.
-etă oxete 1,2-oxathiete -etenă -etan oxetane
1,2-oxathietane
5 Eng. 4 3 4 3 Eng. 4 3 4 3 Eng. 5 4 4 3
-ole 5 2 5 2 -olene 5 2 5 2 -olane 1O O3 5 2
O1 S1 O1 S1 2 S1
Rom. Rom. 2 3 Rom.
oxole thiole Δ -oxolene Δ -thiolene 1,3-dioxolane
-ol furane thiophene -olen -olan thiolane
6 Eng. 4 - Eng. 5
-in 5 3 -ane 6 4
6 2 1O O3
Rom. S1 Rom. 2
-ină H -an 1,3-dioxane
thiin
7 Eng. 5 4 5 4 - Eng. 5 4
-epin 6 3 6 O3 -epane 6 O
3
Rom. 7 2 7 2 Rom. 7 2
O O S1
epină 1 1 -epan
oxepin 1,3-dioxepin thiepane-3-one
8 Eng. - Eng. 5 4
-ocin 4 -ocane 6 3
5 5 4
6 3 6 3 7 2
Rom. Rom.
8
S1
ocină 7 2 7 2 -ocan
O 8
S1 thiocane
8 1
4H-oxocin 2H-thiocin
9 Eng. 6 5 - Eng. 6 5
-onin 7 4 -onane 7 4
8 3 8 3
Rom. Rom.
onină 9 O 2 -onan 9 O 2
1 1
oxonin oxonane
Mircea Darabantu, MASTER DIA. I N T R O D-12
- indicated hydrogen: H in compounds possessing maximum unsaturation, if the double bonds can be
arranged in more than one way, their positions are defined by indicating the nitrogen or carbon
atoms which are not multiply bonded and consequently carry an “extra” hydrogen atom: 1H, 2H,
etc.
- in partially saturated compounds, the position of the hydrogen atoms can be indicated by the
prefixes dihydro if convenient suffix is not available
- in partially saturated compounds, the position of the double bond can be indicated by the symbol Δa,b
which indicates that the double bond is between the atoms numbered “a” and “b”
Example 1:
4 3 4 3 4 3
5 2 5 2 5 2
N1 N1 N1
H
1H-pyrrole 3H-pyrrole 2H-pyrrole
Example 2:
4 4 4 4 4 4
5 3 5 3 5 3 5 3 5 3 5 3
6 2 6 2 6 2 6 2 6 2 6 2
S S1 S1 S1 S1 S1
1
H
thiane (I.U.P.A.C.) 1H-thiin 2H-thiin 4H-thiin 3,4-dihydro-2H-thiin 5,6-dihydro-2H-thiin
2,3-dihydro-4H-thiin
3,4,5,6-tetrahydro-2H-thiin
Example 3:
4
5S 3
2H,6H-1,2,5-dithiazine → max. unsaturation possible is 1 double bond: suffix i n e
6 NH → order of citation: S, S > N
S 2
1 → supplementary hydrogen at N-2 and C-6: 2H,6H
4
5S 3 4H,6H-1,2,5-dithiazine → max. unsaturation possible is 1 double bond: suffix i n e
→ order of citation: S, S > N
6 N
S 2 → supplementary hydrogen at C-4 and C-6: 4H,6H
1
Example 4:
4
5
N 3 6H-1,2,5-thiadiazine → max. unsaturation possible is 2 double bonds: suffix i n e
6 N → order of citation: S > N, N
S 2 → supplementary hydrogen at C-6: 6H
1
4
5 3 4H-1,2,5-thiadiazine → max. unsaturation possible is 2 double bonds: suffix i n e
N
→ order of citation: S > N, N
6 N → supplementary hydrogen at C-4: 4H
S 2
1