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Table 1 Sequences of the six HIV-1 PR substrates studied in this work

From: Impact of M36I polymorphism on the interaction of HIV-1 protease with its substrates: insights from molecular dynamics

 

Substrate

P5

P4

P3

P2

P1

 

P1'

P2'

P3'

P4'

P5'

PDB ID

Gag polyprotein

CA-p2

Lys

Ala

Arg

Val

Leu

*

Ala

Glu

Ala

Met

-

1F7A

 

MA-CA

Val

Ser

Gln

Asn

Tyr

*

Pro

Ile

Val

Gln

-

1KJ4

 

p1-p6

Arg

Pro

Gly

Asn

Phe

*

Leu

Gln

Ser

Arg

Pro

1KJF

 

p2-NC

-

Ala

Thr

Ile

Met

*

Met

Gln

Arg

Gly

-

1KJ7

Pol polyprotein

RH-IN

Ile

Arg

Lys

Ile

Leu

*

Phe

Leu

Asp

Gly

Ile

1KJH

 

RT-RH

-

Ala

Glu

Thr

Phe

*

Tyr

Val

Asp

Gly

Ala

1KJG

  1. * substrate cleavage site