2RKG

HIV-1 PR resistant mutant + LPV

Structural Biology Knowledgebase: 2RKG SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2RKG

Classification: HYDROLASE

Total Structure Weight: 22638.80

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEASE RETROPEPSIN A, B 100 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Mutation: I13V, G16A, K20M, N38S, I47V, L55M, P64L, L94I

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AB1
Query on AB1

B N-{1-BENZYL-4-[2-(2,6-DIMETHYL-PHENOXY)-ACETYLAMINO]- 3-HYDROXY-5-PHENYL-PENTYL}-3-METHYL-2-(2- OXO-TETRAHYDRO-PYRIMIDIN-1-YL)-BUTYRAMIDE
ABT-378, LOPINAVIR (Synonym)
C37 H48 N4 O5
KJHKTHWMRKYKJE-SUGCFTRWSA-N
Ligand Explorer
 
JSmol
GOL
Query on GOL

A, B GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AB1 N/A in BindingDB
Ki: 8.2 nM  BindingMOAD
Ki: 8.2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.191
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.01 α = 90.00
b = 62.01 β = 90.00
c = 83.94 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-10-16
  • Released Date: 2008-08-05
  • Deposition author(s): Rezacova, P., Brynda, J., Kozisek, M., Saskova, K., Konvalinka, J.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4