1HPX

HIV-1 PROTEASE COMPLEXED WITH THE INHIBITOR KNI-272


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Work: 0.170 
  • R-Value Observed: 0.170 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of HIV-1 protease with KNI-272, a tight-binding transition-state analog containing allophenylnorstatine.

Baldwin, E.T.Bhat, T.N.Gulnik, S.Liu, B.Topol, I.A.Kiso, Y.Mimoto, T.Mitsuya, H.Erickson, J.W.

(1995) Structure 3: 581-590

  • DOI: 10.1016/s0969-2126(01)00192-7
  • Primary Citation of Related Structures:  
    1HPX

  • PubMed Abstract: 
  • HIV-1 protease (HIV PR), an aspartic protease, cleaves Phe-Pro bonds in the Gag and Gag-Pol viral polyproteins. Substrate-based peptide mimics constitute a major class of inhibitors of HIV PR presently being developed for AIDS treatment. One such compound, KNI-272, which incorporates allophenylnorstatine (Apns)-thioproline (Thp) in place of Phe-Pro, has potent antiviral activity and is undergoing clinical trials ...

    HIV-1 protease (HIV PR), an aspartic protease, cleaves Phe-Pro bonds in the Gag and Gag-Pol viral polyproteins. Substrate-based peptide mimics constitute a major class of inhibitors of HIV PR presently being developed for AIDS treatment. One such compound, KNI-272, which incorporates allophenylnorstatine (Apns)-thioproline (Thp) in place of Phe-Pro, has potent antiviral activity and is undergoing clinical trials. The structure of the enzyme-inhibitor complex should lead to an understanding of the structural basis for its tight binding properties and provide a framework for interpreting the emerging resistance to this drug.


    Related Citations: 
    • Crystal Structure of a Tethered Dimer of HIV-1 Proteinase Complexed with an Inhibitor
      Bhat, T.N., Baldwin, E.T., Liu, B., Cheng, Y.-S.E., Erickson, J.W.
      (1994) Nat Struct Biol 1: 552
    • Structure-Based Inhibitors of HIV-1 Protease
      Wlodawer, A., Erickson, J.W.
      (1993) Annu Rev Biochem 62: 543

    Organizational Affiliation

    Frederick Biomedical Supercomputing Center, SAIC-Frederick, NCI-Frederick Cancer Research and Development Center, Maryland 21702, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
HIV-1 PROTEASEA, B99Human immunodeficiency virus 1Mutation(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)
UniProt
Find proteins for P03367 (Human immunodeficiency virus type 1 group M subtype B (isolate BRU/LAI))
Explore P03367 
Go to UniProtKB:  P03367
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
KNI (Subject of Investigation/LOI)
Query on KNI

Download Ideal Coordinates CCD File 
C [auth B](4R)-N-tert-butyl-3-[(2S,3S)-2-hydroxy-3-({N-[(isoquinolin-5-yloxy)acetyl]-S-methyl-L-cysteinyl}amino)-4-phenylbutanoyl]-1,3-thiazolidine-4-carboxamide
C33 H41 N5 O6 S2
NJBBLOIWMSYVCQ-VZTVMPNDSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
KNI BindingDB:  1HPX Ki: min: 5.50e-3, max: 1.7 (nM) from 10 assay(s)
-TΔS: min: -8.03e+1, max: -3.09e+1 (kJ/mol) from 22 assay(s)
ΔH: min: -3.14e+1, max: 40.13 (kJ/mol) from 22 assay(s)
ΔG: min: -6.23e+1, max: -3.80e+1 (kJ/mol) from 20 assay(s)
Binding MOAD:  1HPX Ki: 5.50e-3 (nM) from 1 assay(s)
PDBBind:  1HPX Ki: 5.50e-3 (nM) from 1 assay(s)
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000562 (KNI)
Query on PRD_000562
C [auth B]kynostatin 272Peptide-like / Enzyme inhibitor Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Work: 0.170 
  • R-Value Observed: 0.170 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.9α = 90
b = 59.1β = 90
c = 62.3γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
MSIdata reduction
X-PLORphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-03-08
    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, Structure summary, Version format compliance
  • Version 1.3: 2012-12-12
    Changes: Other