2QXF

Product bound structure of exonuclease I at 1.5 angstrom resolution

Structural Biology Knowledgebase: 2QXF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.199

Literature

Macromolecules
Sequence Display for 2QXF

Classification: HYDROLASE

Total Structure Weight: 55905.05

Macromolecule Entities
Molecule Chains Length Organism Details
Exodeoxyribonuclease I A 482 Escherichia coli EC#: 3.1.11.1 IUBMB
Mutation: E472D
Gene Name(s): sbcB cpeA xonA b2011 JW1993
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A THYMIDINE-5'-PHOSPHATE
C10 H15 N2 O8 P
GYOZYWVXFNDGLU-XLPZGREQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.199
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 52.63 α = 90.00
b = 91.85 β = 90.00
c = 102.75 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-08-11
  • Released Date: 2008-01-22
  • Deposition author(s): Busam, R.D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name