4EYI

Human DNA polymerase iota incorporating dATP opposite N-(deoxyguanosin-8-yl)-1-aminopyrene lesion

Structural Biology Knowledgebase: 4EYI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.218

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EYI

Classification: TRANSFERASE / DNA

Total Structure Weight: 52373.20


Macromolecule Entities
Molecule Chains Length Organism Details
DNA polymerase iota B 420 Homo sapiens EC#: 2.7.7.7 IUBMB
Fragment: UNP residues 26-445
Gene Name(s): POLI Gene View RAD30B
Macromolecule Entities
Molecule Chains Length Organism Details
DNA template T 8 synthetic
DNA primer P 7 synthetic

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

B 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE
C10 H16 N5 O12 P3
SUYVUBYJARFZHO-RRKCRQDMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
DG8
Query on DG8
T DNA LINKING C26 H23 N6 O7 P DG

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.218
  • Space Group: P 65 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 98.85 α = 90.00
b = 98.85 β = 90.00
c = 194.20 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-01
  • Released Date: 2013-01-09
  • Deposition author(s): Kirouac, K., Ling, H.

Revision History

  • 2013-02-20
    Type: Citation | Details: Citation update