3QIO

Crystal Structure of HIV-1 RNase H with engineered E. coli loop and N-hydroxy quinazolinedione inhibitor

Structural Biology Knowledgebase: 3QIO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3QIO

Classification: TRANSFERASE HYDROLASE / INHIBITOR

Total Structure Weight: 17445.86

Macromolecule Entities
Molecule Chains Length Organism Details
Gag-Pol polyprotein A 150 Human immunodeficiency virus 1 EC#: 3.1.26.4 IUBMB
Fragment: HIV-1 RNase H (UNP REsdieus 1014-1148)
Gene Name(s): rnhA dasF herA rnh sdrA b0214 JW0204 pol

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

A 3-hydroxy-6-(phenylsulfonyl)quinazoline-2,4(1H,3H)- dione
C14 H10 N2 O5 S
OWPKYKLZQGFBAE-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
QID N/A in BindingDB
Kd: 144 nM  BindingMOAD
Kd: 144 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.196
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 42.90 α = 90.00
b = 56.35 β = 90.00
c = 64.04 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-01-27
  • Released Date: 2011-04-20
  • Deposition author(s): Lansdon, E.B., Liu, Q.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4