1ODY

HIV-1 PROTEASE COMPLEXED WITH AN INHIBITOR LP-130

Structural Biology Knowledgebase: 1ODY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Work: 0.167

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1ODY

Classification: ASPARTIC PROTEASE

Total Structure Weight: 22202.40

Macromolecule Entities
Molecule Chains Length Organism Details
HIV-1 PROTEASE A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Mutation: R41A
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
LP1
Query on LP1

A 4-[2-(2-ACETYLAMINO-3-NAPHTALEN-1-YL-PROPIONYLAMINO)- 4-METHYL-PENTANOYLAMINO]-3-HYDROXY-6-METHYL- HEPTANOIC ACID [1-(1-CARBAMOYL-2-NAPHTHALEN- 1-YL-ETHYLCARBAMOYL)-PROPYL]-AMIDE
C45 H58 N6 O7
ACPDNLLISIAERE-ZYWZKTPASA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
LP1 N/A in BindingDB
Ki: 8 nM  BindingMOAD
Ki: 8 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Observed:
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.90 α = 90.00
b = 62.90 β = 90.00
c = 83.31 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-07-13
  • Released Date: 1999-02-16
  • Deposition author(s): Kervinen, J., Lubkowski, J., Zdanov, A., Wlodawer, A., Gustchina, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4