Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 22.35 kDa 
• Atom Count: 1570 
• Residue Count: 198 
• Unique protein chains: 1

1HVS

STRUCTURAL BASIS OF DRUG RESISTANCE FOR THE V82A MUTANT OF HIV-1 PROTEASE: BACKBONE FLEXIBILITY AND SUBSITE REPACKING

• DOI: 10.2210/pdb1HVS/pdb

• Classification: HYDROLASE (ACID PROTEASE)
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1994-11-17 Released: 1995-02-14 
• Deposition Author(s): Baldwin, E.T., Bhat, T.N., Liu, B., Pattabiraman, N., Erickson, J.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Work: 0.150 
• R-Value Observed: 0.150 

Literature

Structural basis of drug resistance for the V82A mutant of HIV-1 proteinase.

Baldwin, E.T., Bhat, T.N., Liu, B., Pattabiraman, N., Erickson, J.W.

(1995) Nat Struct Biol 2: 244-249

• PubMed: 7773792 
• DOI: 10.1038/nsb0395-244
• Structures With Same Primary Citation


• PubMed Abstract: 
  

A major problem in the development of antiviral therapies for AIDS has been the emergence of drug resistance. We report an analysis of the structure of a Val 82 to Ala mutant of HIV-1 proteinase complexed to A-77003, a C2 symmetry-based inhibitor. Modelling studies predicted that the V82A mutation would result in decreased van der Waals' interactions with the phenyl rings of A-77003 in both S1 and S1' subsites. Unexpected rearrangements of the protein backbone, however, resulted in favourable re-packing of inhibitor and enzyme atoms in the S1 but not the S1' subsite. This analysis reveals the importance of enzyme flexibility in accommodating alternate packing arrangements, and can be applied to the re-design of inhibitors targeted to drug resistant variants which emerge in the clinic.

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Related Citations: 

• Influence of Stereochemistry on Activity and Binding Modes for C2 Symmetry-Based Diol Inhibitors of HIV-1 Protease
  Hosur, M.V., Bhat, T.N., Kempf, D.J., Baldwin, E.T., Liu, B., Gulnik, S., Wideburg, N.E., Norbeck, D.W., Appelt, K., Erickson, J.W.
  (1994) J Am Chem Soc 116: 847

• Structure-Based Inhibitors of HIV-1 Protease
  Wlodawer, A., Erickson, J.W.
  (1993) Annu Rev Biochem 62: 543

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Organizational Affiliation: 

Frederick Biomedical Supercomputing Center, PRI/DynCorp, National Cancer Institute-Frederick Cancer Research and Development Center, Maryland 21702-1201, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
HIV-1 PROTEASE	A, B	99	Human immunodeficiency virus 1	Mutation(s): 0  EC: 3.4.23.16 (UniProt), 2.7.7.49 (UniProt), 2.7.7.7 (UniProt), 3.1.26.13 (UniProt), 3.1.13.2 (UniProt), 2.7.7 (UniProt), 3.1 (UniProt)
Find proteins for P04587 (Human immunodeficiency virus type 1 group M subtype B (isolate BH5)) Go to UniProtKB:  P04587

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A77	A	N-{1-BENZYL-(2R,3S)-2,3-DIHYDROXY-4-[3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRYLAMINO]-5-PHENYL-PENTYL}-3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRAMIDE C44 H58 N8 O6 QPVWMQXBTCSLCB-BYAJYZPISA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
A77	IC50:  1   nM  BindingDB
A77	Ki :  0.05000000074505806   nM  PDBBind
A77	Ki:  0.05000000074505806   nM  Binding MOAD
A77	Ki:  0.009999999776482582   nM  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Work: 0.150 
• R-Value Observed: 0.150 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.9	α = 90
b = 59.6	β = 90
c = 62.3	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-11-17 
• Released Date: 1995-02-14 
Deposition Author(s): Baldwin, E.T., Bhat, T.N., Liu, B., Pattabiraman, N., Erickson, J.W.

Revision History 

• Version 1.0: 1995-02-14
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance