3V7J

Co-crystal structure of Wild Type Rat polymerase beta: Enzyme-DNA binary complex

Structural Biology Knowledgebase: 3V7J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.211

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3V7J

Classification: Transferase / DNA

Total Structure Weight: 45465.66


Macromolecule Entities
Molecule Chains Length Organism Details
DNA polymerase beta A 340 Rattus norvegicus EC#: 2.7.7.7 IUBMB 4.2.99 IUBMB
Gene Name(s): Polb
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(P*AP*TP*GP*TP*GP*AP*GP*T)-3') P 8 synthetic
DNA (5'-D(P*CP*AP*AP*AP*CP*TP*CP*AP*CP*AP*TP*A)-3') T 12 synthetic

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

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.211
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 56.78 α = 90.00
b = 77.11 β = 90.00
c = 116.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-21
  • Released Date: 2013-01-16
  • Deposition author(s): Rangarajan, S., Jaeger, J.

Revision History

No revisions since initial release