5VU7

TNA polymerase, open ternary complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 5VU7

Classification: TRANSFERASE / DNA

Total Structure Weight: 99108.75


Macromolecule Entities
Molecule Chains Length Organism Details
DNA polymerase A 774 Thermococcus kodakarensis EC#: 2.7.7.7 IUBMB
Mutation: D141A, E143A, E147H, A485R, E584K, E664I
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA template T 16 Synthetic construct
DNA/TNA hybrid primer P 12 Synthetic construct

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FA2
Query on FA2

A 5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXYTETRAHYDROFURAN- 3-YL DIHYDROGEN PHOSPHATE
C9 H12 N5 O6 P
IJEJRDCFMFEDGL-AFEQZKEHSA-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 1 Unique
ID Chains Type Formula 2D Diagram Parent
9O4
Query on 9O4
P DNA linking C9 H12 N5 O5 P --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.214
  • Space Group: P 2 21 21

Unit Cell:

Length (Å) Angle (°)
a = 66.55 α = 90.00
b = 112.61 β = 90.00
c = 145.46 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-05-18
  • Released Date: 2017-12-06
  • Deposition author(s): Chim, N., Chaput, J.C.

Revision History

  • Version 1_0: 2017-12-06

    Type: Initial release