4E91

Crystal Structure of the N-Terminal Domain of HIV-1 Capsid in Complex With Inhibitor BD3

Structural Biology Knowledgebase: 4E91 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.220

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4E91

Classification: STRUCTURAL PROTEIN / INHIBITOR

Total Structure Weight: 34480.54

Macromolecule Entities
Molecule Chains Length Organism Details
Gag protein A, B 146 Human immunodeficiency virus 1 Fragment: N-terminal domain, UNP residues 133-278
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0OE
Query on 0OE

A, B 4-{2-[5-(3-chlorophenyl)-1H-pyrazol-4-yl]- 1-[3-(1H-imidazol-1-yl)propyl]-1H-benzimidazol- 5-yl}benzoic acid
C29 H23 Cl N6 O2
LGXPZODGTPYYBU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
0OF
Query on 0OF

A (3S)-1-ethyl-3-[3-hydroxy-5-(pyridin-3-yl)phenyl]- 5-phenyl-7-(trifluoromethyl)-1H-1,5-benzodiazepine- 2,4(3H,5H)-dione
C29 H22 F3 N3 O3
XKOABKQMKVLVHH-SANMLTNESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0OE IC50: 1200 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.220
  • Space Group: P 32 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 65.78 α = 90.00
b = 65.78 β = 90.00
c = 143.32 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-20
  • Released Date: 2012-04-25
  • Deposition author(s): Lemke, C.T.

Revision History

  • 2013-06-12
    Type: Citation | Details: Citation update
  • 2012-06-06
    Type: Citation | Details: Citation update