6JK1

Crystal Structure of YAP1 and Dendrin complex 2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.187 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Decoding WW domain tandem-mediated target recognitions in tissue growth and cell polarity.

Lin, Z.Yang, Z.Xie, R.Ji, Z.Guan, K.Zhang, M.

(2019) Elife 8

  • DOI: https://doi.org/10.7554/eLife.49439
  • Primary Citation of Related Structures:  
    6J68, 6JJW, 6JJX, 6JJY, 6JJZ, 6JK0, 6JK1

  • PubMed Abstract: 

    WW domain tandem-containing proteins such as KIBRA, YAP, and MAGI play critical roles in cell growth and polarity via binding to and positioning target proteins in specific subcellular regions. An immense disparity exists between promiscuity of WW domain-mediated target bindings and specific roles of WW domain proteins in cell growth regulation. Here, we discovered that WW domain tandems of KIBRA and MAGI, but not YAP, bind to specific target proteins with extremely high affinity and exquisite sequence specificity. Via systematic structural biology and biochemistry approaches, we decoded the target binding rules of WW domain tandems from cell growth regulatory proteins and uncovered a list of previously unknown WW tandem binding proteins including β-Dystroglycan, JCAD, and PTPN21. The WW tandem-mediated target recognition mechanisms elucidated here can guide functional studies of WW domain proteins in cell growth and polarity as well as in other cellular processes including neuronal synaptic signaling.


  • Organizational Affiliation

    Department of Pharmacology and Moores Cancer Center, University of California, San Diego, La Jolla, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dendrin,Transcriptional coactivator YAP1
A, B
116Mus musculusMutation(s): 0 
Gene Names: DdnGm748Kiaa0749Yap1YapYap65
UniProt & NIH Common Fund Data Resources
Find proteins for P46938 (Mus musculus)
Explore P46938 
Go to UniProtKB:  P46938
IMPC:  MGI:103262
Find proteins for Q80TS7 (Mus musculus)
Explore Q80TS7 
Go to UniProtKB:  Q80TS7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsQ80TS7P46938
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.187 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.376α = 90
b = 77.376β = 90
c = 116.763γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-25
    Type: Initial release
  • Version 1.1: 2023-11-22
    Changes: Data collection, Database references, Refinement description