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Applications of Deuterium-Labelled Compounds in Total Synthesis and Drug Development Kai Yu Zakarian Group University of California, Santa Barbara 10/18/2018

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Page 1: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Applications of Deuterium-Labelled Compounds in Total Synthesis and

Drug Development

Kai Yu Zakarian Group

University of California, Santa Barbara 10/18/2018

Page 2: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

From First Approved Deuterated Drug Back to Deuterium

• First deuterated drug from Teva Pharmaceuticals • Approved by FDA in 2017• The treatment of chorea associated with Huntington’s disease• Beneficial deuterium effect: reduce rate of active metabolite demethylation

driven by CYP2D6• Higher efficacy at a lower doses and with a longer duration of action

• One of two stable isotopes of hydrogen• Natural abundance: 0.0115% (earth)• First discovered specterscopically and named by Harold Urey in 1931• Deuterium won Urey the Nobel Prize in Chemistry in 1934.• Famous by heavy water and “hydrogen bomb”

NH

OH

O

O

D3CD3C

deutetrabenazine(Austedo)

H21Deuterium

2.0141u

Page 3: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Application of Deuterated Compounds

Drug development: enhance metabolic stability

Total synthesis: modify reaction selectivity

Clarification of organic reaction mechanisms

Elucidation of biosynthetic routes

Mass spectrometry internal standards

Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.

Page 4: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Application of Deuterated Compounds

Drug development: enhance metabolic stability

Clarification of organic reaction mechanisms

Elucidation of biosynthetic routes

Total synthesis: modify reaction selectivity

Mass spectrometry internal standards

Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.

Page 5: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

The Kinetic Isotope Effect

En = n + 1 hν

ν = 12*+k-

µ = /1 • /2/1 +/2µC-H = 0.92

µC-D = 1.71

• Kinetic isotope effect (KIE) is observed in between the isoptopically labelled molecules showing different

reaction rates.• Primary KIE is attributed to a bond breaking event at the C-H/C-D bond.• Vibrational frequency is relative to reduced mass µ.• For C-D, lower vibrational frequency and lower zero-point energy (ZPE)

Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.

Page 6: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

The Kinetic Isotope Effect

Anslyn, E. V.; Doughery, D. A. Modrn Physical Organic Chemistry; University Science Books, 2006

• Secondary KIE is the effect attributed to a rehybridization or arises from isotopic substitution remote

from the bonds undergoing reaction.• The large difference in force constant for the out-of-plane bend of an sp3 hybrid versus and sp2 hybrid

means that there will be a significant difference in ZPE differences between C-H and C-D bonds.• Similarly, a large difference in the frequency of the in-plane bend exists between sp2 and sp hybrids

pote

ntia

l ene

rgy

reaction cooridnate

larger activation energy for the C-D bond

potential energy well for the out-of-plane bend at an sp3 center

potential energy well of a mix of sp2 and sp3 character at the T.S.

potential energy well for the out-of-plane bend at an sp2 center

• kH/kD > 1• usually at 1.1~1.2• normal KIE

Page 7: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

The Kinetic Isotope Effect

Anslyn, E. V.; Doughery, D. A. Modrn Physical Organic Chemistry; University Science Books, 2006

• Secondary KIE is the effect which is attributed to a rehybridization or arises from isotopic substitution

remote from the bonds undergoing reaction.• The large difference in force constant for the out-of-plane bend of an sp3 hybrid versus and sp2 hybrid

means that there will be a significant difference in ZPE differences between C-H and C-D bonds.• Similarly, a large difference in the frequency of the in-plane bend exists between sp2 and sp hybrids

pote

ntia

l ene

rgy

reaction cooridnate

larger activation energy for the C-H bond

potential energy well for the out-of-plane bend at an sp2 center

potential energy well of a mix of sp2 and sp3 character at the T.S.

potential energy well for the out-of-plane bend at an sp3 center

• kH/kD < 1• usually at 0.8~0.9• inverse KIE

Page 8: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

The Kinetic Isotope Effect

• Secondary KIE is the effect which is attributed to a rehybridization or arises from isotopic substitution

remote from the bonds undergoing reaction.• The large difference in force constant for the out-of-plane bend of an sp3 hybrid versus and sp2 hybrid

means that there will be a significant difference in ZPE differences between C-H and C-D bonds.• Similarly, a large difference in the frequency of the in-plane bend exists between sp2 and sp hybrids

Kurtz, K. A.; Fitzpatrick, P. F. J. Am. Chem. Soc. 1997, 119, 1155.Anslyn, E. V.; Doughery, D. A. Modrn Physical Organic Chemistry; University Science Books, 2006

N

NR

NH

N

O

OFAD

R CO2-

NH3+R CO2-

NH3+

HBase

Path A

Path B

N

NR

NH

N

O

O

R CO2-

NH3+

N

NR

NH

N

O

O

R+H3N CO2-

NH

NR

NH

HN

O

O

+H2N

R

CO2-

FADH

+

• Path A: nucleophilic addition to the flavin

• Path B: single electron transfer to the flavin followed by the coupling between two radicals.

Page 9: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

The Kinetic Isotope Effect

• Secondary KIE is the effect which is attributed to a rehybridization or arises from isotopic substitution

remote from the bonds undergoing reaction.• The large difference in force constant for the out-of-plane bend of an sp3 hybrid versus and sp2 hybrid

means that there will be a significant difference in ZPE differences between C-H and C-D bonds.• Similarly, a large difference in the frequency of the in-plane bend exists between sp2 and sp hybrids

Kurtz, K. A.; Fitzpatrick, P. F. J. Am. Chem. Soc. 1997, 119, 1155.Anslyn, E. V.; Doughery, D. A. Modrn Physical Organic Chemistry; University Science Books, 2006

• Path A rds: sp2 to sp3

• Path B rds: sp2 retained• observed KIE = 0.84• secondary inverse KIE• strongly supported the nucleophilic mechanism

N

NR

NH

N

O

O

X NO

O

X = H or D

Path A

Path BN

NR

NH

N

O

O

X NO

O

N

NR

NH

N

O

O

NO

OX

FAD

slow fast

Page 10: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Applying Deuterium KIE in Total Synthesis

Total synthesis: modify reaction selectivity

HN

OHO

O

O

O OMe

O

HO

OH

fredericamycin A

N

OR

NR’

aziridinomitosenes

N

OO

O O

O

Me

Me

H

H

Me HMe

Me

norzoanthmine

N

Me

O

Me

OMe

Me

Me

O

O

NMe

OO

MeCl

MeMeR1

H

R2

N-methylwelwitndolinone C

Me OSO3-

Cl

Cl

OSO3-

Cl Cl

Cl Cl

danicalipin A

Page 11: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Fredericamycin A

HN

OHO

O

O

O OMe

O

HO

OH

fredericamycin A

• Antitumor antibiotic agent isolated from Steptomyces griseus• Vitro cytotoxic acitivity and efficacious antitumor acitvity• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994.• Key step — 5-exo-digonal radical spirocyclization• Possibly the first application of deuterium KIE in total synthesis

O

O

OH

OH

O

O

OMe

quinone system offredericamycin A

Clive, D. L. J. Tetrahedron 1993, 49, 7917-7930.Clive, D. L. J. J. Am. Chem. Soc. 1994, 116, 11275-11286.

OMe

OMeTMSO

Ph

PhSeCl

91% yield

OMe

OMe

Ph

PhSeO

Ph3SnHAIBN

benzene, reflux

OMe

OMe

Ph

O

Ph

O

OMe

OMe

Ph3SnHPh

O

OMe

OMe

H

95% yield

Model study

Page 12: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Fredericamycin A

Clive, D. L. J. Tetrahedron 1993, 49, 7917-7930.Clive, D. L. J. J. Am. Chem. Soc. 1994, 116, 11275-11286.

HN

OHO

O

O

O OMe

O

HO

OH

fredericamycin A

O

O

OH

OH

O

O

OMe

quinone system offredericamycin A

OMe

OMe

Ph

PhSeO OMe

OMeOMe

Ph3SnH, AIBNbenzene, reflux

OMe

OMe

Ph

O

Ph

O

O

OMe

OMeOMe

OMe

OMeOMe

OMe

HPh

O

O

OMe

OMeOMe

OMe

H

Ph3SnH Ph3SnH

O

O

OMe

OMeOMe

OMe

HPh

HPh

O

OMe

OMe

HOMe

OMe

OMe

48% yield40% yield

Unexpected intramolecular hydrogen abstraction

Page 13: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Fredericamycin A: Deuterium KIE suppress the hydrogen migration

Clive, D. L. J. Tetrahedron 1993, 49, 7917-7930.Clive, D. L. J. J. Am. Chem. Soc. 1994, 116, 11275-11286.

Br

OH

OMe

Ph

OMe

OMeOMe

CD3OTsNaH, DMF

81% yieldBr

O

OMe

Ph

OMe

OMeOMe

D3C

Enhancing the stability of peri-methoxy group

nBuLi,cyclopentane-carboxaldehyde

O

OMe

Ph

OMe

OMeOMe

D3C

OH

88% yield

1. DDQ2. TMSOTf3. PhSeCl

O

OMe

Ph

PhSeO OMe

OMeOMe

D3C

48% yield

O

OMe

Ph

PhSeO OMe

OMeOMe

D3C Ph3SnH, AIBNbenzene, reflux Ph

O

O

OMe

OMeOMe

OMe

DDD Ph

O

OCD3

OMe

HOMe

OMe

OMe

O

O

OMe

OMeOMe

OMe

DPh

H

DD

+

75% yield 4% yield

Page 14: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Fredericamycin A: Deuterium KIE suppress the hydrogen migration

Clive, D. L. J. Tetrahedron 1993, 49, 7917-7930.Clive, D. L. J. J. Am. Chem. Soc. 1994, 116, 11275-11286.

Ph

O

OR

OMe

HOMe

OMe

OMeO

O

OR

OMe

OMe

OMe

OMe1.O32. P(OMe)3

94% yield

CAN

R=CH3, 84%R=CD3, 78%

O

O

OR

OMe

O

O

OMe BBr3

R=CH3, 89%R=CD3, 68%

O

O

OH

OH

O

O

OMe

Later revomal of deuterated unit

OCX3

OMe

Ph

PhSeO OMe

OMeOMe

Ph

O

OCX3

OMe

HOMe

OMe

OMe

O

O

OMe

OMeOMe

OMe

XPh

H

XX

+

Ph3SnH, AIBNbenzene, reflux

X = HX = D

48% yield75% yield

40% yield4% yield

kH/kD = 15.6

Kenetic Isotopic effect

Page 15: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Aziridinomitosenes

Vedejs, E. J. Am. Chem. Soc. 2002, 124, 748-749.

• Metabolic activation of FR66979 and FR900482 generates

intermediate A having an ability to cross-link DNA.• Leucoaziridinomitosenes B are responsible for the antitumor

activity of the mitomycin antibiotics.• Delocalization helps to stabilize carbonyl derivatives C, which

had been synthesized.• Nonstabilized core structure D was synthesized for the first time

by Edwin Vedejs et al.

NO NH

OH

OC(O)NH2OH

R

FR66979 R = CH2OHFR900482 R = CHO

N

OR

NR’

aziridinomitosenes

N

Y

NR’

O

N

OC(O)NH2

NH

OH

RN

OC(O)NH2

NR’

OH

H3C

MeO

OHR’ = H, Me

A B

C D

N

CO2Et

N

SnBu3

CPh3

NH

CO2Et

N

SnBu3

CPh3MsO

+

NaHMDSTHF/DMPU

47% yield

Li-Sn exchange

N

NCPh3

Li

OOEt

N

CO2Et

NCPh3

never higher than 15% yield

Page 16: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Aziridinomitosenes: Deuterium as a removable blocking group

Vedejs, E. J. Am. Chem. Soc. 2002, 124, 748-749.

N

CO2Et

N

SnBu3

CPh3

H

1. MeLi, -65 ºC2. EtOD

N

CO2Et

N

SnBu3

CPh3

DN

CO2Et

N

D

CPh3

D

N

CO2Et

NCPh3

DH+ +

55 : 36 : 9tetracyclic : tricyclic = 1 : 10

1. PhLi, -78 ºC2. EtOD

N

CO2Et

N

SnBu3

CPh3

D(minor)

2-indolyl lithiaiton

MeLi, -65 ºC

(major)Li-Sn

exchange

MeLi-65 ºC

N

CO2Et

N

Li

CPh3

D

N

CO2Et

N

SnBu3

CPh3

LiN

CO2Et

N

SnBu3

CPh3

HN

CO2Et

N

H

CPh3

H+

5% 17%

N

CO2Et

NCPh3

D

LiEtOH

N

CO2Et

NCPh3

HD

78%tetracyclic : tricyclic = 3.5 : 1

Page 17: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Aziridinomitosenes: Deuterium as a removable blocking group

Vedejs, E. J. Am. Chem. Soc. 2002, 124, 748-749.

N

CO2Et

N

SnBu3

CPh3

H

1. PhLi, -78 ºC2. EtOD3. MeLi, -65 ºC4. EtOH

N

CO2Et

N

SnBu3

CPh3

HN

CO2Et

N

H

CPh3

H

N

CO2Et

NCPh3

HD+ +

5 : 17 : 78

Li-Sn exchange2-indolyl lithiation =

4.31

N

CO2Et

N

SnBu3

CPh3

H

1. MeLi, -65 ºC2. EtOD

N

CO2Et

N

SnBu3

CPh3

DN

CO2Et

N

D

CPh3

D

N

CO2Et

NCPh3

DH+ +

55 : 36 : 9Li-Sn exchange

2-indolyl lithiation =0.49

1

kH/kD = 8.8

Page 18: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Aziridinomitosenes: Deuterium as a removable blocking group

Vedejs, E. J. Am. Chem. Soc. 2002, 124, 748-749.

N

CO2Et

NCPh3

D

Li

PhSeCl

N

CO2Et

NCPh3N

CO2Et

NH

1. Et3SiH, MsOH2. iPr2NEt LiAlH4

N NCPh3

OH

80% yield65% yield 72% yield

Removing the deuterium

N

CO2Et

N

SnBu3

CPh3

H

1. PhLi, -78 ºC2. EtOD3. MeLi, -65 ºC4. EtOH

N

CO2Et

N

SnBu3

CPh3

HN

CO2Et

N

H

CPh3

H

N

CO2Et

NCPh3

HD+ +

5 : 17 : 78

Li-Sn exchange2-indolyl lithiation =

4.31

Page 19: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Norzoanthamine

Miyashita, M. Science 2004, 305, 495-499.

N

OO

O O

O

Me

Me

H

H

Me HMe

Me

norzoanthmine

N

Me

O

Me

OMe

Me

Me

O

O

• Isolated by Uemura et al. in 1995 from Zoanthus sp.

• Strong inhibition on the the growth of P-388 murine leukemia cell lines

and human platelet aggregation

• A promising candidate for an antiosteoporotic drug

• Stereoselectively synthesized by Masaaki Miyashita et al. in 41 steps

with an overall yield of 3.5% (an average of 92% yield each step).

N

OO

O O

O

Me

Me

H

H

Me HMe

Me

OH

H HOTBS

OMe

OTBS

Et3Si

Page 20: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Norzoanthamine: Deuterium KIE inhibits the [1,5]-hydrogen shift

Miyashita, M. Science 2004, 305, 495-499.

OH

H HOTBS

OOMe

OTBSTf2O

2,6-di-tBuPythen DBU

OH

H HOTBS

OMe

OTBSO

H

H H

OMe

OTBS

O

Me

Et3Si Et3Si Et3Si

+

66% yield 30% yield

OTBSH H

OTf

[1,5]-H shift

OH

H HOTBS

OOMe

OTBSTf2O

2,6-di-tBuPythen DBU

OH

H HOTBS

OMe

OTBSO

H

H H

OMe

OTBS

O

Me

Et3Si Et3Si Et3Si

+

81% yield 9% yield

OTBSD D

OTf

D D D DD

D[1,5]-D shift

kH/kD = 4.1

Page 21: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Norzoanthamine: Deuterium KIE inhibits the [1,5]-hydrogen shift

Miyashita, M. Science 2004, 305, 495-499.

OH

H HOTBS

OMe

OTBS

Et3Si

D D

OH

H HOH

O

O

D D

BocNO

6 steps 1. TPAP, NMO2. NaClO2

OH

H HCO2H

O

O

BocNO

6 steps

norzoanthamine

50% yieldover 8 steps

78% yield

Removing deuterium

OH

H HOTBS

OOMe

OTBS

Et3Si

D D

OH

H H

OTBS

Et3Si

O

O

1. DIBAL2. Ph3PCD3Br KHMDS, THF3. 9-BBN, THF then H2O2

OH

H H

OTBS

Et3Si

OH

OH

DD

1. (NH4)6Mo7O24 TBAC, K2CO3 H2O2, THF2. (MeO)2C=O tBuOLi, THF, HMPA then MeI

OH

H H

OTBS

Et3Si

OMe

O

DD

O

tBuOLiTHF, DMPUthen MeI

OH

H H

OTBS

Et3Si

OMe

O

DD

O

1. MeLi, Et2O2. TBSCl, DMAP

17 steps from (R)-5-methylcyclohexenone

70% yieldover 5 steps

88% yield83% yield

Introducing deuterium

Page 22: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Welwitindolinones

Garg. N. J. Am. Chem. Soc. 2011, 133, 15797-15799.Garg, N. J. Am. Chem. Soc. 2012, 134, 1396-1399.

NMe

OO

MeCl

MeMeR1

H

R2

N-methylwelwitndolinone C

R1 = -NCS, -NCR2 = H, OH

• Isolated in 1994 and 1999

• [4.3.1]Bicyclic framework

• Promising activity against drug-resistant cancer cells

OPivMe

O

Me

Me

OTBSMe

O

NMe

Br

HMeMe

NaNH2tBuOH

THF, 23 ºC

OTBSMe

O

NMe

HMeMe

NMe

O

MeTBSO

MeMeH

H

NMe

O

MeCl

MeMeH

H

ONMe

O

MeCl

MeMeSCN

H

O

Insertion ofisothiocyanate

NMe

O

H

ClMe

HO

OH2N

HMeMe

NMe

O

H

ClMe

HNO

O

HMeMe

AgOTf, PhI(OAc)2bathophenanthroline

CH3CN, 82 ºC

Nitrene Insertion

H H

33% yield

Page 23: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Welwitindolinones: Deuterium KIE improves nitrene insertion

Garg, N. J. Am. Chem. Soc. 2012, 134, 1396-1399.

NMe

O

H

ClMe

HO

OH2N

HMeMe

D1. LiEt3B-D, THF2. Cl3CC(O)NCO; K2CO3

quantitative yield

NMe

O

MeCl

MeMeH

H

OH

NMe

O

H

ClMe

HO

OH2N

HMeMe

AgOTf, PhI(OAc)2bathophenanthroline

CH3CN, 82 ºC

NMe

O

H

ClMe

HNO

O

HMeMe

R R

NMe

O

MeCl

MeMeH

H

O

+

NMe

O

H

Cl

OHMeMe

HN

O

Me

R = HR = D

33% yield60% yield

25% yield8% yield

H

kH/kD = 5.7

Page 24: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Welwitindolinones: Deuterium KIE improves nitrene insertion

Garg, N. J. Am. Chem. Soc. 2012, 134, 1396-1399.

NMe

O

H

ClMe

HO

OH2N

HMeMe

AgOTf, PhI(OAc)2bathophenanthroline

CH3CN, 82 ºC

NMe

O

H

ClMe

HNO

O

HMeMe

R R

NMe

O

MeCl

MeMeH

H

O

+

NMe

O

H

Cl

OHMeMe

HN

O

Me

R = HR = D

33% yield60% yield

25% yield8% yield

H

kH/kD = 5.7

NMe

O

H

ClMe

HNO

O

HMeMe

D 1. Ba(OH)2•H2O2. DMP

NMe

O

MeCl

MeMeH2N

H

O

di(2-pyridyl)-thionocarbonateDMAP

NMe

O

MeCl

MeMeSCN

H

O

NMe

O

MeCl

MeMeCN

H

O

1. HCO2H, Ac2O2. Burgess reagent

quatitative yield

77% yield

NaH��DLU

LiHMDS, air

H

H

H

NMe

O

MeCl

MeMeSCN

H

O

NMe

O

MeCl

MeMeCN

H

O

48% yield

47% yield OH

OH

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Danicalipin A

Burns, N. J. Am. Chem. Soc. 2016, 138, 5150-5158.

Me OSO3-

Cl

Cl

OSO3-

Cl Cl

Cl Cl

danicalipin A

• Comprise >90% of all polar lipids in the flagellar membrane of freshwater

Ochromonas danica algae

• Two anionic sulfate moieties: one at the terminus; one near the otherwise

hydrophobic center

• Synthesized by Noah Burns et al. in 2% yield in 8 steps, which is the shortest.

Page 26: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Danicalipin A

Burns, N. J. Am. Chem. Soc. 2016, 138, 5150-5158.

PinBB(MIDA)

IOTBS

Cl Cl

+

4 steps15% yield

OTBSCl Cl

BOO

Cy Cy

Cl

MeCl

ClH

O

nBuLi, TFAAMe OTBS

Cl

Cl

OH

Cl

Cl Cl

75% yield

Me OSO3-

Cl

Cl

OSO3-

Cl Cl

Cl Cl

Bromochlorination - radical debrominationsequence

1. CD3OD, 12h; Me4N(Cl2Br)2. Bu3SnH, Et3B, air3. ClSO3H

danicalipin A

20% yield

Page 27: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Danicalipin A

Burns, N. J. Am. Chem. Soc. 2016, 138, 5150-5158.

Cl OR

Cl Cl

Me4N(Cl2Br)CH3CN

Cl OR

Cl Cl Cl

Br+

Cl O

Cl

Br

Cl

R = HR = D

21% yield44% yield

65% yield43% yield

ClH

Cl

H

ClO

H

H H

RCl Br Cl

Cl Br Cl

undesired

desired

ClH

Cl

H

ClO

H

H H

R

BrCl

H

Cl

H

ClO

H

H H

R

Br

Cl- - R-

+

desired undesired

kH/kD = 3.2

• Deuteration renders the hydrogen bonding of secondary alcohol less effective.• Bromium formation is reversible and deprotonation of the alcohol during

bromoetherification is selective determining.

Page 28: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Application of Deuterated Compounds

Drug development: enhance metabolic stability

Clarification of organic reaction mechanisms

Elucidation of biosynthetic routes

Total synthesis: modify reaction selectivity

Mass spectrometry internal standards

Page 29: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Applying Deuterium to Improve Existing Drugs

H

D

deuteration

kH

kD

OH

OH

Cytochrome P450 kH > kD

• The major metabolizing enzymes in humans belong to cytochrome P450

enzyme family.• Significant KIEs have been observed for several P450-catalyzed reactions.• Potential deuterated drug benefits:

• A reduced dosage or dosing regimen• A smaller potential for drug-drug interactions• A lower incidence of side effects

Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.

Page 30: Applications of Deuterium-Labelled Compounds in …...• Procaryotic RNA/protein synthesis are inhibited • Synthesized by Derrick L. J. Clive et al. in 1994. • Key step — 5-exo-digonal

Deuterium clinical drug candidates

F OH

O

D NH2

NH

OH

O

O

D3CD3C

OCD3

ND3C

H

N

N N

N

O

O

D3C

O

D D

Chemical Structure Compound Status Beneficial Deuterium Effect

Fludalnine(MK-0641)

First deuterated drug candidate to enter clinic

(1970s)

Discontinued

Reduce toxic metabolite, 3-fluorolactate

Austedo®

Deutertrabenazine(SD-809)

First deuterated drug approved (2017)

Approved

Reduce rate of active metabolite demethylation driven by CYP2D6

d6-dextromethorphan(AVP-786) Phase 3

Reduce formation of toxic metabolite by CYP2D6

d5-pentoxifylline(CT-499) Phase 2

Reduce metabolism speed; primary metabolite raising up to 3 times than

that of pentoxifylline

Sabounjian, L. A. Clin. Pharmacol. Drug Dev. 2016, 5, 314-425.Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.https://www.concertpharma.com/research/documents/CTP-499ASN2014PosterFINAL14NOV2014.pdfhttps://en.wikipedia.org/wiki/Deuterated_drug#VX-561_(Vertex/Concert)

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Deuterium clinical drug candidates

HN

O

HN

O

OH CD3

CD3CD3

NN

NN

D

D

NHN

NH2O

N O

D

SNH

O

O

O

O

D D

Chemical Structure Compound Status Beneficial Deuterium Effect

d9-ivacaftor(VX-561) Phase 2

Reduce rate of tert-butyl group oxidation and in vivo clearance by CYP3A4

VX-984 Phase 1Reduce aldehyde oxidase(AO)-driven

metabolism

d1-(R)-pioglitazone(DRX-065) Phase 1

Stabilize preferred R-enantiomer to obtain mitochondrial function modulation

without affected by S-isomer

d2-linoleic acid ethyl ester(RT001) Phase 1/2 Limit lipid peroxidation

Atzrodt, J.; Derdau, V.; Kerr, W. J.; Reid M. Angew. Chem. Int. Ed. 2018, 57, 1758-1784.https://www.cancer.gov/publications/dictionaries/cancer-drug/def/dna-dependent-protein-kinase-inhibitor-vx-984https://en.wikipedia.org/wiki/Deuterated_drug#VX-561_(Vertex/Concert)