6NJU

Mouse endonuclease G mutant H97A bound to A-DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural adaptation of vertebrate endonuclease G for 5-hydroxymethylcytosine recognition and function

Vander Zanden, C.M.Ho, E.N.Czarny, R.S.Robertson, A.B.Ho, P.S.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Endonuclease G, mitochondrial
A, B, C, D
253Mus musculusMutation(s): 1 
Gene Names: Endog
EC: 3.1.30.-
Find proteins for O08600 (Mus musculus)
Go to UniProtKB:  O08600
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(CCGGCGCCGG)-3')E10Mus musculus
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A, C, D
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
TRS
Query on TRS

Download SDF File 
Download CCD File 
E
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.222 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 107.983α = 90.00
b = 107.983β = 90.00
c = 357.419γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
Cootmodel building
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United States1515521

Revision History 

  • Version 1.0: 2020-01-08
    Type: Initial release
  • Version 1.1: 2020-01-15
    Type: Derived calculations