1X9S

T7 DNA polymerase in complex with a primer/template DNA containing a disordered N-2 aminofluorene on the template, crystallized with dideoxy-CTP as the incoming nucleotide.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.226

Literature

Macromolecules
Sequence Display for 1X9S

Classification: TRANSFERASE / ELECTRON TRANSPORT / DNA

Total Structure Weight: 105664.20


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(*GP*GP*AP*GP*AP*GP*TP*GP*AP*TP*T*GP*GP*TP*AP*GP*TP*GP*TP*GP*AP*(2DT))-3' P 22 synthetic DNA primer
5'-D(*CP*CP*CP*(AFG)P*AP*TP*CP*AP*CP*AP*CP*TP*AP*CP*CP*AP*AP*TP*CP*AP*CP*TP*CP*TP*CP*C)-3' T 26 synthetic DNA template

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
AFG
Query on AFG
T DNA LINKING C23 H23 N6 O7 P DG

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.226
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 104.58 α = 90.00
b = 211.10 β = 90.00
c = 51.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-08-24
  • Released Date: 2004-10-26
  • Deposition author(s): Dutta, S., Li, Y., Johnson, D., Dzantiev, L., Richardson, C.C., Romano, L.J., Ellenberger, T.

Revision History

  • Version 1_0: 2004-10-26

    Type: Initial release

  • Version 1_1: 2008-04-30

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance