1M3Q

Crystal Structure of hogg1 D268E Mutant with Base-Excised DNA and 8-aminoguanine

Structural Biology Knowledgebase: 1M3Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.235

Literature

Macromolecules
Sequence Display for 1M3Q

Classification: HYDROLASE / DNA

Total Structure Weight: 44916.78


Macromolecule Entities
Molecule Chains Length Organism Details
8-oxoguanine DNA glycosylase A 317 Homo sapiens EC#: 3.2.2 IUBMB
Fragment: core fragment (residues 12-325)
Mutation: D268E
Gene Name(s): OGG1 Gene View MMH MUTM OGH1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)-3' B 15 synthetic
5'-D(*GP*CP*GP*TP*CP*CP*AP*(DRZ)P*GP*TP*CP*TP*AP*CP*C)-3' C 15 synthetic

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

A 8-AMINOGUANINE
C5 H6 N6 O
WYDKPTZGVLTYPG-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
DRZ
Query on DRZ
C DNA LINKING C5 H11 O7 P --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.235
  • Space Group: P 65 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 92.42 α = 90.00
b = 92.42 β = 90.00
c = 211.43 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-28
  • Released Date: 2004-02-17
  • Deposition author(s): Chung, S.J., Verdine, G.L.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4