3W5K

Crystal structure of Snail1 and importin beta complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis for the selective nuclear import of the C2H2 zinc-finger protein Snail by importin beta.

Choi, S.Yamashita, E.Yasuhara, N.Song, J.Son, S.Y.Won, Y.H.Hong, H.R.Shin, Y.S.Sekimoto, T.Park, I.Y.Yoneda, Y.Lee, S.J.

(2014) Acta Crystallogr.,Sect.D 70: 1050-1060

  • DOI: 10.1107/S1399004714000972

  • PubMed Abstract: 
  • Snail contributes to the epithelial-mesenchymal transition by suppressing E-cadherin in transcription processes. The Snail C2H2-type zinc-finger (ZF) domain functions both as a nuclear localization signal which binds to importin β directly and as a D ...

    Snail contributes to the epithelial-mesenchymal transition by suppressing E-cadherin in transcription processes. The Snail C2H2-type zinc-finger (ZF) domain functions both as a nuclear localization signal which binds to importin β directly and as a DNA-binding domain. Here, a 2.5 Å resolution structure of four ZF domains of Snail1 complexed with importin β is presented. The X-ray structure reveals that the four ZFs of Snail1 are required for tight binding to importin β in the nuclear import of Snail1. The shape of the ZFs in the X-ray structure is reminiscent of a round snail, where ZF1 represents the head, ZF2-ZF4 the shell, showing a novel interaction mode, and the five C-terminal residues the tail. Although there are many kinds of C2H2-type ZFs which have the same fold as Snail, nuclear import by direct recognition of importin β is observed in a limited number of C2H2-type ZF proteins such as Snail, Wt1, KLF1 and KLF8, which have the common feature of terminating in ZF domains with a short tail of amino acids.


    Organizational Affiliation

    College of Pharmacy, Chungbuk National University, Seungbong 410, Heungduk, Cheongju, Chungbuk 361-763, Republic of Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Importin subunit beta-1
A
876Homo sapiensMutation(s): 0 
Gene Names: KPNB1 (NTF97)
Find proteins for Q14974 (Homo sapiens)
Go to Gene View: KPNB1
Go to UniProtKB:  Q14974
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Zinc finger protein SNAI1
B
264Homo sapiensMutation(s): 0 
Gene Names: SNAI1 (SNAH)
Find proteins for O95863 (Homo sapiens)
Go to Gene View: SNAI1
Go to UniProtKB:  O95863
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.215 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 228.210α = 90.00
b = 77.528β = 100.96
c = 72.019γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXrefinement
PHENIXphasing
PHENIXmodel building
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-03-05
    Type: Initial release
  • Version 1.1: 2014-05-07
    Type: Database references