1TK0

T7 DNA polymerase ternary complex with 8 oxo guanosine and ddCTP at the insertion site


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.217

Literature

Macromolecules
Sequence Display for 1TK0

Classification: TRANSFERASE / ELECTRON TRANSPORT / DNA

Total Structure Weight: 106630.35


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*A*CP*GP*GP*CP*CP*AP*GP*TP*GP*CP*CP*AP*(DDG))-3' P 22 synthetic primer strand
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 template strand

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DCT
Query on DCT

A 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE
C9 H16 N3 O12 P3
ARLKCWCREKRROD-POYBYMJQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
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: 2.3 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.217
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 106.23 α = 90.00
b = 215.10 β = 90.00
c = 52.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-06-07
  • 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

  • 2008-04-30
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance