1ODW

Native HIV-1 Proteinase

• PDB DOI: https://doi.org/10.2210/pdb1ODW/pdb

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


• Deposited: 1996-09-16 Released: 1997-04-01 
• Deposition Author(s): Thanki, N., Kervinen, J., Wlodawer, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 
  0.165 (Depositor), 0.150 (DCC) 

Literature

Structural Analysis of the Native and Drug-Resistant HIV-1 Proteinases Complexed with an Aminodiol Inhibitor

Kervinen, J., Thanki, N., Zdanov, A., Tino, J., Barrish, J., Lin, P.F., Colonno, R., Riccardi, K., Samanta, H., Wlodawer, A.

(1996) Protein Pept Lett 3: 399

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 22.12 kDa 
• Atom Count: 1,618 
• Modelled Residue Count: 198 
• Deposited Residue Count: 198 
• Unique protein chains: 1

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: gag-pol EC: 3.4.23.16
UniProt
Find proteins for P04585 (Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)) Explore P04585  Go to UniProtKB:  P04585

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
0E8	C [auth A]	di-tert-butyl {iminobis[(2S,3S)-3-hydroxy-1-phenylbutane-4,2-diyl]}biscarbamate C30 H45 N3 O6 KKRYDPVDJYCEER-QEGGNFSNSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
0E8	BindingDB:  1ODW	Ki: 100 (nM) from 1 assay(s)
		IC50: 125 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work:  0.165 (Depositor), 0.150 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52	α = 90
b = 59.4	β = 90
c = 62.2	γ = 90

Software Package:

Software Name	Purpose
PROLSQ	refinement
DENZO	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-04-01 
Deposition Author(s): Thanki, N., Kervinen, J., Wlodawer, A.

Revision History  

• Version 1.0: 1997-04-01
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Source and taxonomy, Structure summary, Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations, Other