A NeW Crystal structure of APC-ARM

Experimental Data Snapshot

  • Resolution: 2.90 Å
  • R-Value Free: 0.313 
  • R-Value Work: 0.269 
  • R-Value Observed: 0.271 

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Crystal structure of the armadillo repeat domain of adenomatous polyposis coli which reveals its inherent flexibility

Zhang, Z.Lin, K.Gao, L.Chen, L.Shi, X.Wu, G.

(2011) Biochem Biophys Res Commun 412: 732-736

  • DOI: https://doi.org/10.1016/j.bbrc.2011.08.044
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The conserved armadillo repeat (ARM) domain of adenomatous polyposis coli (APC) protein plays an important role in the recognition of its binding partners. In this study, we report the crystal structure of APC-ARM (residues 407-775), which was determined to 2.9 Å resolution. Our structure shows that the seven armadillo repeats of APC-ARM fold together into a compact domain, with Arm2 and Arm5 presenting some deviations from canonical armadillo repeats. There is a positively charged groove on the surface of APC-ARM, which might be the recognition site for APC-binding partners. Comparison of this structure with our previously reported structure of APC (407-751), together with normal mode analysis, reveals that the APC-ARM domain possesses a limited intrinsic flexibility. We propose that this intrinsic flexibility might be an inherent property of ARM domains in general.

  • Organizational Affiliation

    State Key Laboratory of Microbial Metabolism, and School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Adenomatous polyposis coli protein
A, B
378Homo sapiensMutation(s): 0 
Gene Names: APCDP2.5
UniProt & NIH Common Fund Data Resources
Find proteins for P25054 (Homo sapiens)
Explore P25054 
Go to UniProtKB:  P25054
PHAROS:  P25054
GTEx:  ENSG00000134982 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25054
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.90 Å
  • R-Value Free: 0.313 
  • R-Value Work: 0.269 
  • R-Value Observed: 0.271 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.496α = 90
b = 72.496β = 90
c = 129.981γ = 120
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-12-14
    Type: Initial release
  • Version 1.1: 2016-12-21
    Changes: Structure summary
  • Version 1.2: 2023-11-01
    Changes: Data collection, Database references, Derived calculations, Refinement description