Biological Assembly 1  

 3D View: Structure | Electron Density | Validation Report | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 22.20 kDa 
• Atom Count: 1606 
• Modelled Residue Count: 198 
• Deposited Residue Count: 198 
• Unique protein chains: 1

2BQV

HIV-1 protease in complex with inhibitor AHA455

• DOI: 10.2210/pdb2BQV/pdb

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


• Deposited: 2005-04-28 Released: 2005-12-14 
• Deposition Author(s): Unge, T., Ekegren, J.K., Schenk, H.V., Zreik Safa, M., Wallberg, H., Samuelsson, B., Hallberg, A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.205 
• R-Value Observed: 0.205 

Literature

A New Class of HIV-1 Protease Inhibitors Containing a Tertiary Alcohol in the Transition-State Mimicking Scaffold.

Ekegren, J.K., Unge, T., Safa, M.Z., Wallberg, H., Samuelsson, B., Hallberg, A.

(2005) J Med Chem 48: 8098

• PubMed: 16335934 
• DOI: 10.1021/jm050790t
• Primary Citation of Related Structures:  
  2BQV


• PubMed Abstract: 
  

Novel HIV-1 protease inhibitors encompassing a tertiary alcohol as part of the transition-state mimicking unit have been synthesized. Variation of the P1'-P3' residues and alteration of the tertiary alcohol absolute stereochemistry afforded 10 inhibitors. High potencies for the compounds with (S)-configuration at the carbon carrying the tertiary hydroxyl group were achieved with Ki values down to 2.4 nM. X-ray crystallographic data for a representative compound in complex with HIV-1 protease are presented.

---

Organizational Affiliation: 

Department of Medicinal Chemistry, Organic Pharmaceutical Chemistry, BMC, Uppsala University, Box 574, SE-751 23 Uppsala, Sweden.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HIV-1 PROTEASE	A, B	99	Human immunodeficiency virus 1	Mutation(s): 0  Gene Names: pol EC: 3.4.23.16
UniProt
Find proteins for O92139 (Human immunodeficiency virus 1) Explore O92139  Go to UniProtKB:  O92139

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1A (Subject of Investigation/LOI)	C [auth A]	6-AMINO HEXANOIC ACID C33 H40 N4 O6 KEFISYJDRSSULW-GQPDOWDHSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
A1A	BindingDB:  2BQV	Ki: 9 (nM) from 1 assay(s)
	Binding MOAD:  2BQV	Ki: 9 (nM) from 1 assay(s)
	PDBBind:  2BQV	Ki: 9 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.205 
• R-Value Observed: 0.205 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.082	α = 90
b = 87.452	β = 90
c = 47.124	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Ligand Structure Quality Assessment  

Entry History 

Deposition Data

• Deposited Date: 2005-04-28 
• Released Date: 2005-12-14 
Deposition Author(s): Unge, T., Ekegren, J.K., Schenk, H.V., Zreik Safa, M., Wallberg, H., Samuelsson, B., Hallberg, A.

Revision History  

• Version 1.0: 2005-12-14
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-17
  Changes: Data collection