5UOP

CRYSTAL STRUCTURE OF THE PROTOTYPE FOAMY VIRUS INTASOME WITH A 2- PYRIDINONE AMINAL INHIBITOR (COMPOUND 18)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.183

Literature

Macromolecules
Sequence Display for 5UOP

Classification: TRANSFERASE / DNA / INHIBITOR

Total Structure Weight: 101397.53


Macromolecule Entities
Molecule Chains Length Organism Details
INTEGRASE A, B 395 Simian foamy virus EC#: 2.7.7 IUBMB
Mutation: G217S, S218G
Gene Name(s): pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
NUCLEOTIDE PREPROCESSED PFV DONOR DNA (NON-TRANSFERRED STRAND) C 19 Simian foamy virus
NUCLEOTIDE PREPROCESSED PFV DONOR DNA (TRANSFERRED STRAND) D 17 Simian foamy virus

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
8G4
Query on 8G4

A (1S,2S,5R)-8'-[(3-chloro-4-fluorophenyl)methyl]- 2'-[2-(2,5-dioxo-2,5-dihydro-1H-pyrrol-1- yl)ethyl]-6'-hydroxy-9',10'-dihydro-2'H-spiro[bicyclo[3.1.0]hexane- 2,3'-imidazo[5,1-a][2,6]naphthyridine]-1',5',7'(8'H)- trione
C28 H24 Cl F N4 O6
PTJSQLXTSPVZSQ-AFRUXQHESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C 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)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.183
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 158.82 α = 90.00
b = 158.82 β = 90.00
c = 123.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-02-01
  • Released Date: 2017-03-29
  • Deposition author(s): Klein, D.J.

Revision History

  • Version 1_0: 2017-03-29

    Type: Initial release

  • Version 1_1: 2017-04-19

    Type: Database references