5ITQ

Crystal Structure of Human NEIL1, Free Protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.156 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Tautomerization-dependent recognition and excision of oxidation damage in base-excision DNA repair

Zhu, C.Lu, L.Zhang, J.Yue, Z.Song, J.Zong, S.Liu, M.Stovicek, O.Gao, Y.Q.Yi, C.

(2016) Proc.Natl.Acad.Sci.USA 113: 7792-7797

  • DOI: 10.1073/pnas.1604591113
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • NEIL1 (Nei-like 1) is a DNA repair glycosylase guarding the mammalian genome against oxidized DNA bases. As the first enzymes in the base-excision repair pathway, glycosylases must recognize the cognate substrates and catalyze their excision. Here we ...

    NEIL1 (Nei-like 1) is a DNA repair glycosylase guarding the mammalian genome against oxidized DNA bases. As the first enzymes in the base-excision repair pathway, glycosylases must recognize the cognate substrates and catalyze their excision. Here we present crystal structures of human NEIL1 bound to a range of duplex DNA. Together with computational and biochemical analyses, our results suggest that NEIL1 promotes tautomerization of thymine glycol (Tg)-a preferred substrate-for optimal binding in its active site. Moreover, this tautomerization event also facilitates NEIL1-catalyzed Tg excision. To our knowledge, the present example represents the first documented case of enzyme-promoted tautomerization for efficient substrate recognition and catalysis in an enzyme-catalyzed reaction.


    Organizational Affiliation

    State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing 100871, China;




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Endonuclease 8-like 1
A
290Homo sapiensMutation(s): 2 
Gene Names: NEIL1
EC: 3.2.2.-, 4.2.99.18
Find proteins for Q96FI4 (Homo sapiens)
Go to Gene View: NEIL1
Go to UniProtKB:  Q96FI4
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.156 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 132.454α = 90.00
b = 132.454β = 90.00
c = 50.791γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data reduction
REFMACrefinement
PHASERphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Basic Research Foundation of ChinaChina2014CB964900
National Natural Science Foundation of ChinaChina31270838
National Natural Science Foundation of China21522201

Revision History 

  • Version 1.0: 2016-07-06
    Type: Initial release
  • Version 1.1: 2016-08-03
    Type: Database references