Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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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: 22524.55 
• Atom Count: 1580 
• Residue Count: 202 
• Unique protein chains: 2

1HTE

X-RAY CRYSTALLOGRAPHIC STUDIES OF A SERIES OF PENICILLIN-DERIVED ASYMMETRIC INHIBITORS OF HIV-1 PROTEASE

• DOI: 10.2210/pdb1HTE/pdb

• Classification: HYDROLASE(ACID PROTEINASE)
• Organism(s): Human immunodeficiency virus type 1 group M subtype B
• Expression System: Escherichia coli


• Deposited: 1994-04-29 Released: 1994-07-31 
• Deposition Author(s): Jhoti, H., Wonacott, A., Murray-Rust, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å

Literature

X-ray crystallographic studies of a series of penicillin-derived asymmetric inhibitors of HIV-1 protease.

Jhoti, H., Singh, O.M., Weir, M.P., Cooke, R., Murray-Rust, P., Wonacott, A.

(1994) Biochemistry 33: 8417-8427

• PubMed: 8031777 
• Primary Citation of Related Structures:  
  1HTG, 1HTF


• PubMed Abstract: 
  

In the development of a treatment for AIDS, the HIV-1 protease has been identified as a good target enzyme for inhibitor design. We previously reported a series of dimeric penicillin-derived C2-symmetric HIV-1 protease inhibitors [Humber, D., et al. (1993) J. Med. Chem. 36, 3120-3128]. In an attempt to reduce the size and optimize the binding of these C2-symmetric inhibitors, molecular modeling studies led to a novel series of monomeric penicillin-derived inhibitors of HIV-1 protease. The binding modes of these monomeric inhibitors have been characterized by X-ray crystallographic and NMR studies. Crystal structures of HIV-1 protease complexed to three inhibitors (GR123976, GR126045, and GR137615) from this series identify the molecular details of the interactions. The binding of GR123976 (IC50 = 2.3 microM) exhibits good hydrophobic contacts but few electrostatic interactions. A strategy of structure-based design and chemical synthesis led to the elaboration of GR123976 to optimize interactions with the protein. Crystallographic analysis of HIV-1 protease complexed to GR126045 and GR137615 identified these interactions with the catalytic aspartates and the protein binding pockets. The crystal structures of the three complexes confirm the presence of the major interactions modeled in order to optimize potency and reveal details of the molecular recognition by HIV-1 protease of this novel series of nonpeptidic inhibitors.

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Related Citations: 

• A Series of Penicillin-Derived C2-Symmetric Inhibitors of HIV-1 Proteinase: Structural and Modeling Studies
  Wonacott, A.,Cooke, R.,Hayes, F.R.,Hayes, M.M.,Jhoti, H.,Mcmeekin, P.,Mistry, A.,Murray-Rust, P.,Singh, O.M.P.,Weir, M.P.
  (1993) J.Med.Chem. 36: 3113




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Organizational Affiliation: 

Department of Biomolecular Structure, Glaxo Research & Development Limited, Greenford, Middlesex, England.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
HIV-1 PROTEASE	A, B	99	Human immunodeficiency virus type 1 group M subtype B	Mutation(s): 0  Gene Names: gag-pol
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B) Go to UniProtKB:  P03366

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
HIV-1 PROTEASE	C	4	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
G23	A	(2R,4S)-2-[(R)-BENZYLCARBAMOYL-PHENYLACETYL-METHYL]-5,5-DIMETHYL-THIAZOLIDINE-4-CARBOXYLIC ACID GR123976 C23 H27 N3 O4 S UDMBRVGTYILYDX-SVFBPWRDSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
G23	IC50: 2265 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 58.300	α = 90.00
b = 87.300	β = 90.00
c = 46.400	γ = 90.00

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-04-29 
• Released Date: 1994-07-31 
• Deposition Author(s): Jhoti, H., Wonacott, A., Murray-Rust, P.

Revision History 

• Version 1.0: 1994-07-31
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-11-29
  Type: Advisory, Derived calculations, Other