1MSM

The HIV protease (mutant Q7K L33I L63I) complexed with KNI-764 (an inhibitor)

Structural Biology Knowledgebase: 1MSM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.209

Literature

Macromolecules
Sequence Display for 1MSM

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 22185.52

Macromolecule Entities
Molecule Chains Length Organism Details
POL polyprotein A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Fragment: HIV protease (residues 69-167)
Mutation: Q7K, L33I, L63I
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
JE2
Query on JE2

B (4R)-3-{(2S,3S)-2-hydroxy-3-[(3-hydroxy-2- methylbenzoyl)amino]-4-phenylbutanoyl}-5,5- dimethyl-N-(2-methylbenzyl)-1,3-thiazolidine- 4-carboxamide
JE-2147, AG1776, KNI-764 (Synonym)
C32 H37 N3 O5 S
CUFQBQOBLVLKRF-RZDMPUFOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
JE2 Ki: <0.021 - 9.4 nM (86 - 96) BindingDB
ΔG: -62.3 - -28.8 kJ/mol (86 - 98) BindingDB
ΔH: -31.8 - 73.2 kJ/mol (86 - 98) BindingDB
-TΔS: -102.1 - -26.4 kJ/mol (86 - 98) BindingDB

Kd: 0.033 nM  BindingMOAD
N/A in PDBbind
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000566
Query on PRD_000566
B KNI-764 Peptide-like /
Enzyme inhibitor
Ligand Explorer

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.209
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 57.67 α = 90.00
b = 85.82 β = 90.00
c = 46.53 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-09-19
  • Released Date: 2003-11-04
  • Deposition author(s): Vega, S., Kang, L.-W., Velazquez-Campoy, A., Kiso, Y., Amzel, L.M., Freire, E.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence