3ZPU

Design and Synthesis of P1-P3 Macrocyclic Tertiary Alcohol Comprising HIV-1 Protease Inhibitors

Structural Biology Knowledgebase: 3ZPU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.181

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3ZPU

Classification: HYDROLASE

Total Structure Weight: 22400.71

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEASE A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Mutation: L63P, V82T, I84V
Gene Name(s): gag-pol

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
M8B
Query on M8B

B methyl N-[(2S)-1-[2-[(4-bromophenyl)methyl]- 2-[3-[(3Z,8S,11R)-8-tert-butyl-11-oxidanyl- 7,10-bis(oxidanylidene)-6,9-diazabicyclo[11.2.2]heptadeca- 1(15),3,13,16-tetraen-11-yl]propyl]hydrazinyl]- 3,3-dimethyl-1-oxidanylidene-butan-2-yl]carbamate
C37 H52 Br N5 O6
SFNMYSUIYNOTIA-HIOXXDBGSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
M8B N/A in BindingDB
Ki: 4.2 nM  BindingMOAD
Ki: 4.2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.181
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.33 α = 90.00
b = 86.12 β = 90.00
c = 46.29 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-01
  • Released Date: 2013-11-06
  • Deposition author(s): Joshi, A., Veron, J.B., Unge, J., Rosenquist, A., Wallberg, H., Samuelsson, B., Hallberg, A., Larhed, M.

Revision History

  • 2013-12-11
    Type: Citation | Details: JRNL