1SKS

Binary 3' complex of T7 DNA polymerase with a DNA primer/template containing a cis-syn thymine dimer on the template


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.235

Literature

Macromolecules
Sequence Display for 1SKS

Classification: TRANSFERASE / ELECTRON TRANSPORT / DNA

Total Structure Weight: 105149.73


Macromolecule Entities
Molecule Chains Length Organism Details
DNA polymerase A 698 Escherichia virus t7 EC#: 2.7.7.7 IUBMB 3.1.11 IUBMB
Mutation: ΔK118, ΔR119, ΔF120, ΔG121, ΔS122, ΔH123
Gene Name(s): 5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Thioredoxin 1 B 108 Escherichia coli Gene Name(s): trxA fipA tsnC b3781 JW5856
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*CP*GP*AP*AP*AP*AP*CP*GP*AP*C*GP*GP*CP*CP*AP*GP*TP*GP*CP*CP*(2DT))-3' P 21 synthetic
5'-D(*CP*CP*CP*(TTD)P*AP*GP*GP*CP*AP*CP*TP*GP*GP*CP*CP*GP*TP*CP*GP*TP*TP*TP*TP*CP*G)-3' T 25 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
2DT
Query on 2DT
P DNA LINKING C10 H15 N2 O7 P DT
TTD
Query on TTD
T DNA LINKING C20 H28 N4 O15 P2 DT

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.235
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 104.77 α = 90.00
b = 214.92 β = 90.00
c = 52.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-03-05
  • Released Date: 2004-07-06
  • Deposition author(s): Li, Y., Dutta, S., Doublie, S., Bdour, H.M., Taylor, J.S., Ellenberger, T.

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance