1TK5

T7 DNA polymerase binary complex with 8 oxo guanosine in the templating strand


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 1TK5

Classification: TRANSFERASE / ELECTRON TRANSPORT / DNA

Total Structure Weight: 106130.59


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*A*GP*CP*CP*AP*GP*TP*GP*CP*CP*AP*(DDG)P*TP*GP*CP*AP*A)-3' P 22 synthetic
5'-D(*CP*CP*CP*(8OG)P*CP*TP*GP*GP*CP*AP*CP*TP*GP*GP*CP*CP*GP*TP*CP*GP*TP*TP*TP*TP*CP*G)-3' T 26 synthetic

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1PE
Query on 1PE

A PENTAETHYLENE GLYCOL
PEG400 (Synonym)
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MES
Query on MES

A 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
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)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
DDG
Query on DDG
P DNA LINKING C10 H14 N5 O6 P DG
8OG
Query on 8OG
T DNA LINKING C10 H14 N5 O8 P DG

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.214
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 105.31 α = 90.00
b = 213.26 β = 90.00
c = 52.18 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-06-08
  • Released Date: 2004-08-31
  • Deposition author(s): Brieba, L.G., Eichman, B.F., Kokoska, R.J., Doublie, S., Kunkel, T.A., Ellenberger, T.

Revision History

  • Version 1_0: 2004-08-31

    Type: Initial release

  • Version 1_1: 2008-04-30

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance