2AQU

Structure of HIV-1 protease bound to atazanavir

Structural Biology Knowledgebase: 2AQU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.227

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2AQU

Classification: HYDROLASE

Total Structure Weight: 22312.56

Macromolecule Entities
Molecule Chains Length Organism Details
HIV-1 Protease A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Fragment: HIV-1 Protease, residues 69-167
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
DR7
Query on DR7

B (3S,8S,9S,12S)-3,12-BIS(1,1-DIMETHYLETHYL)- 8-HYDROXY-4,11-DIOXO-9-(PHENYLMETHYL)-6-[[4- (2-PYRIDINYL)PHENYL]METHYL]-2,5,6,10,13-PENTAAZATETRADECANEDIOIC ACID DIMETHYL ESTER
9,,4S (Synonym)
C38 H52 N6 O7
AXRYRYVKAWYZBR-GASGPIRDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DR7 Kd: 0.4 nM (98) BindingDB
Ki: 0.009 - 1.1 nM (87 - 98) BindingDB

Ki: 0.48 nM  BindingMOAD
Ki: 0.48 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.227
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.41 α = 90.00
b = 62.41 β = 90.00
c = 82.57 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-08-18
  • Released Date: 2006-08-29
  • Deposition author(s): Clemente, J.C., Coman, R.M., Thiaville, M.M., Janka, L.K., Jeung, J.A., Nukoolkarn, S., Govindasamy, L., Agbandje-McKenna, M., McKenna, R., Leelamanit, W., Goodenow, M.M., Dunn, B.M.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4