2QAK

HIV-1 PR mutant in complex with nelfinavir

Structural Biology Knowledgebase: 2QAK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 2QAK

Classification: HYDROLASE

Total Structure Weight: 22093.38

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEASE RETROPEPSIN A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Mutation: D30N, K55A, L90M
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
1UN
Query on 1UN

A 2-[2-HYDROXY-3-(3-HYDROXY-2-METHYL-BENZOYLAMINO)- 4-PHENYL SULFANYL-BUTYL]-DECAHYDRO-ISOQUINOLINE- 3-CARBOXYLIC ACID TERT-BUTYLAMIDE
NELFINAVIR MESYLATE AG1343 (Synonym)
C32 H45 N3 O4 S
QAGYKUNXZHXKMR-HKWSIXNMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1UN Ki: 0.01 - 52 nM (85 - 96) BindingDB
ΔG: -62.3 - -33.4 kJ/mol (85 - 94) BindingDB
ΔH: -31.4 - 43.5 kJ/mol (85 - 93) BindingDB
-TΔS: -80.3 - -27.2 kJ/mol (85 - 93) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.203
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.50 α = 90.00
b = 62.50 β = 90.00
c = 82.06 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-06-16
  • Released Date: 2008-07-01
  • Deposition author(s): Rezacova, P., Kozisek, M., Saskova, K., Brynda, J., Konvalinka, J.

Revision History

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