5ULW

Structure of human DNA polymerase iota bound to template 1-methyl-deoxyadenosine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 5ULW

Classification: Thansferase / DNA

Total Structure Weight: 53015.90


Macromolecule Entities
Molecule Chains Length Organism Details
DNA polymerase iota A 420 Homo sapiens EC#: 2.7.7.7 IUBMB
Gene Name(s): POLI Gene View RAD30B
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3') P 7 Unidentified
DNA (5'-D(*TP*(MA7)P*GP*GP*GP*TP*CP*CP*T)-3') T 11 Unidentified

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

A THYMIDINE-5'-TRIPHOSPHATE
C10 H17 N2 O14 P3
NHVNXKFIZYSCEB-XLPZGREQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
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
DOC
Query on DOC
P DNA LINKING C9 H14 N3 O6 P DC
MA7
Query on MA7
T DNA LINKING C11 H17 N5 O6 P DA

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.204
  • Space Group: P 65 2 2

Unit Cell:

Length (Å) Angle (°)
a = 97.92 α = 90.00
b = 97.92 β = 90.00
c = 202.47 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-01-25
  • Released Date: 2017-04-19
  • Deposition author(s): Jain, R., Aggarwal, A.K.

Revision History

  • Version 1_0: 2017-04-19

    Type: Initial release

  • Version 1_1: 2017-09-20

    Type: Author supporting evidence