Biological Assembly 1  

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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: 22130.31 
• Atom Count: 1752 
• Residue Count: 198 
• Unique protein chains: 1

2IEO

Crystal structure analysis of HIV-1 protease mutant I84V with a potent non-peptide inhibitor (UIC-94017)

• DOI: 10.2210/pdb2IEO/pdb
• Entry 2IEO supersedes 1S6S

• Classification: HYDROLASE
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): 6 


• Deposited: 2006-09-19 Released: 2006-10-03 
• Deposition Author(s): Tie, Y., Boross, P.I., Wang, Y.F., Gaddis, L., Manna, D., Hussain, A.K., Leshchenko, S., Ghosh, A.K., Louis, J.M., Harrison, R.W., Weber, I.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.196 
• R-Value Work: 0.143 

Literature

High Resolution Crystal Structures of HIV-1 Protease with a Potent Non-Peptide Inhibitor (Uic-94017) Active Against Multi-Drug-Resistant Clinical Strains.

Tie, Y., Boross, P.I., Wang, Y.F., Gaddis, L., Hussain, A.K., Leshchenko, S., Ghosh, A.K., Louis, J.M., Harrison, R.W., Weber, I.T.

(2004) J.Mol.Biol. 338: 341-352

• PubMed: 15066436 
• DOI: 10.1016/j.jmb.2004.02.052
• Primary Citation of Related Structures:  
  2IEN, 2IDW, 1S6S, 1S6G, 1S65


• PubMed Abstract: 
  

The compound UIC-94017 (TMC-114) is a second-generation HIV protease inhibitor with improved pharmacokinetics that is chemically related to the clinical inhibitor amprenavir. UIC-94017 is a broad-spectrum potent inhibitor active against HIV-1 clinical isolates with minimal cytotoxicity. We have determined the high-resolution crystal structures of UIC-94017 in complexes with wild-type HIV-1 protease (PR) and mutant proteases PR(V82A) and PR(I84V) that are common in drug-resistant HIV. The structures were refined at resolutions of 1.10-1.53A. The crystal structures of PR and PR(I84V) with UIC-94017 ternary complexes show that the inhibitor binds to the protease in two overlapping positions, while the PR(V82A) complex had one ordered inhibitor. In all three structures, UIC-94017 forms hydrogen bonds with the conserved main-chain atoms of Asp29 and Asp30 of the protease. These interactions are proposed to be critical for the potency of this compound against HIV isolates that are resistant to multiple protease inhibitors. Other small differences were observed in the interactions of the mutants with UIC-94017 as compared to PR. PR(V82A) showed differences in the position of the main-chain atoms of residue 82 compared to PR structure that better accommodated the inhibitor. Finally, the 1.10A resolution structure of PR(V82A) with UIC-94017 showed an unusual distribution of electron density for the catalytic aspartate residues, which is discussed in relation to the reaction mechanism.

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Organizational Affiliation: 

Department of Chemistry, Georgia State University, Atlanta, GA 30303, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Protease	A, B	99	Human immunodeficiency virus 1	Mutation(s): 6  Gene Names: pol
Find proteins for Q7SSI0 (Human immunodeficiency virus 1) Go to UniProtKB:  Q7SSI0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
NA	A	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
CL	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
017	A	(3R,3AS,6AR)-HEXAHYDROFURO[2,3-B]FURAN-3-YL(1S,2R)-3-[[(4-AMINOPHENYL)SULFONYL](ISOBUTYL)AMINO]-1-BENZYL-2-HYDROXYPROPYLCARBAMATE Darunavir, TMC114, UIC-94017 C27 H37 N3 O7 S CJBJHOAVZSMMDJ-HEXNFIEUSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
017	EC50: 0.2 - 1.6 nM (89) BINDINGDB
017	Ki: 0 - 6.6 nM (89) BINDINGDB
017	Kd: 0 nM (89) BINDINGDB
017	IC50: 0.1 nM (89) BINDINGDB
017	Ki: 3.2 nM BINDINGMOAD
17	Ki: 3.2 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.196 
• R-Value Work: 0.143 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 58.318	α = 90.00
b = 86.216	β = 90.00
c = 45.850	γ = 90.00

Software Package:

Software Name	Purpose
SHELXL-97	refinement
AMoRE	phasing
HKL-2000	data scaling
MAR345	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-09-19 
• Released Date: 2006-10-03 
• Deposition Author(s): Tie, Y., Boross, P.I., Wang, Y.F., Gaddis, L., Manna, D., Hussain, A.K., Leshchenko, S., Ghosh, A.K., Louis, J.M., Harrison, R.W., Weber, I.T.
• This entry supersedes: 1S6S

Revision History 

• Version 1.0: 2006-10-03
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance
• Version 1.3: 2017-10-18
  Type: Refinement description