3L2W

Crystal structure of the Prototype Foamy Virus (PFV) intasome in complex with manganese and GS9137 (Elvitegravir)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.194

Literature

Macromolecules
Sequence Display for 3L2W

Classification: RECOMBINATION / DNA

Total Structure Weight: 101006.13


Macromolecule Entities
Molecule Chains Length Organism Details
Integrase A, B 395 Simian foamy virus Mutation: G217S, S218G
Gene Name(s): pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*AP*TP*TP*GP*TP*CP*AP*TP*GP*GP*AP*AP*TP*TP*TP*TP*GP*TP*A)-3' C 19 synthetic 19 nucleotide preprocessed PFV donor DNA
5'-D(*TP*AP*CP*AP*AP*AP*AP*TP*TP*CP*CP*AP*TP*GP*AP*CP*A)-3' D 17 synthetic 17 nucleotide preprocessed PFV donor DNA

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ELV
Query on ELV

A 6-(3-chloro-2-fluorobenzyl)-1-[(1S)-1-(hydroxymethyl)- 2-methylpropyl]-7-methoxy-4-oxo-1,4-dihydroquinoline- 3-carboxylic acid
GS9137, (Synonym)
C23 H23 Cl F N O5
JUZYLCPPVHEVSV-LJQANCHMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NH4
Query on NH4

A AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.194
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 157.88 α = 90.00
b = 157.88 β = 90.00
c = 125.09 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-12-15
  • Released Date: 2010-02-09
  • Deposition author(s): Hare, S., Gupta, S.S., Cherepanov, P.

Revision History

  • Version 1_0: 2010-02-09

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance