1M0B

HIV-1 protease in complex with an ethyleneamine inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.178

Literature

Macromolecules
Sequence Display for 1M0B

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 22387.43

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEASE RETROPEPSIN A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0ZQ
Query on 0ZQ

B N-{(3S)-3-[(tert-butoxycarbonyl)amino]-4- phenylbutyl}-L-phenylalanyl-L-alpha-glutamyl- L-phenylalaninamide
C38 H49 N5 O7
CBWQRQVEXJTNOT-ZLESDFJESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0ZQ Ki: 1.5 - 4.1 nM (96 - 98) BindingDB

Ki: 1.53 nM  BindingMOAD
N/A in PDBbind
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000383
Query on PRD_000383
B BOC-PHE-PSI[CH2CH2NH]-PHE-GLU-PHE-NH2 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: 2.45 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.178
  • Space Group: P 61

Unit Cell:

Length (Å) Angle (°)
a = 62.70 α = 90.00
b = 62.70 β = 90.00
c = 82.23 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-12
  • Released Date: 2004-01-13
  • Deposition author(s): Petrokova, H., Hasek, J., Dohnalek, J.

Revision History

  • Version 1_0: 2004-01-13

    Type: Initial release

  • Version 1_1: 2007-10-16

    Type: Version format compliance

  • Version 1_2: 2011-07-13

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

  • Version 1_3: 2012-12-12

    Type: Other