3B7V

HIV-1 protease complexed with gem-diol-amine tetrahedral intermediate NLLTQI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Observed: 0.152

Literature

Macromolecules
Sequence Display for 3B7V

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 22421.64

Macromolecule Entities
Molecule Chains Length Organism Details
Protease A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Fragment: UNP residues 501-599
Mutation: Q7K, L33I, L63I, C67A, C95A
Gene Name(s): gag-pol pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
peptide C 5 Human immunodeficiency virus 1 Fragment: self proteolytic product of HIV-1 protease

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

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000321
Query on PRD_000321
C N-{(2S)-2-[(L-asparaginyl-L-leucyl)amino]-1,1-dihydroxy-4-methylpentyl}-L-threonyl-L-glutaminyl-L-isoleucine Peptide-like /
Inhibitor
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Observed: 0.152
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 58.30 α = 90.00
b = 86.12 β = 90.00
c = 46.31 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-10-31
  • Released Date: 2007-12-18
  • Deposition author(s): Kovalevsky, A.Y., Chumanevich, A.A., Weber, I.T.

Revision History

  • Version 1_0: 2007-12-18

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance

  • Version 1_2: 2012-12-12

    Type: Other

  • Version 1_3: 2017-10-25

    Type: Refinement description