2XQN

Complex of the 2nd and 3rd LIM domains of TES with the EVH1 DOMAIN of MENA and the N-Terminal domain of actin-like protein Arp7A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.215 
  • R-Value Observed: 0.218 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Molecular recognition of the Tes LIM2-3 domains by the actin-related protein Arp7A.

Boeda, B.Knowles, P.P.Briggs, D.C.Murray-Rust, J.Soriano, E.Garvalov, B.K.McDonald, N.Q.Way, M.

(2011) J Biol Chem 286: 11543-11554

  • DOI: https://doi.org/10.1074/jbc.M110.171264
  • Primary Citation of Related Structures:  
    2XQN

  • PubMed Abstract: 

    Actin-related proteins (Arps) are a highly conserved family of proteins that have extensive sequence and structural similarity to actin. All characterized Arps are components of large multimeric complexes associated with chromatin or the cytoskeleton. In addition, the human genome encodes five conserved but largely uncharacterized "orphan" Arps, which appear to be mostly testis-specific. Here we show that Arp7A, which has 43% sequence identity with β-actin, forms a complex with the cytoskeletal proteins Tes and Mena in the subacrosomal layer of round spermatids. The N-terminal 65-residue extension to the actin-like fold of Arp7A interacts directly with Tes. The crystal structure of the 1-65(Arp7A)·LIM2-3(Tes)·EVH1(Mena) complex reveals that residues 28-49 of Arp7A contact the LIM2-3 domains of Tes. Two alanine residues from Arp7A that occupy equivalent apolar pockets in both LIM domains as well as an intervening GPAK linker that binds the LIM2-3 junction are critical for the Arp7A-Tes interaction. Equivalent occupied apolar pockets are also seen in the tandem LIM domain structures of LMO4 and Lhx3 bound to unrelated ligands. Our results indicate that apolar pocket interactions are a common feature of tandem LIM domain interactions, but ligand specificity is principally determined by the linker sequence.


  • Organizational Affiliation

    Cell Motility Laboratory, Cancer Research UK, London Research Institute, London, United Kingdom.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ACTIN-LIKE PROTEIN 7A65Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y615 (Homo sapiens)
Explore Q9Y615 
Go to UniProtKB:  Q9Y615
PHAROS:  Q9Y615
GTEx:  ENSG00000187003 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y615
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ENABLED HOMOLOGB [auth M]119Homo sapiensMutation(s): 0 
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Find proteins for Q8N8S7 (Homo sapiens)
Explore Q8N8S7 
Go to UniProtKB:  Q8N8S7
GTEx:  ENSG00000154380 
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UniProt GroupQ8N8S7
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
TESTINC [auth T]126Homo sapiensMutation(s): 0 
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Find proteins for Q9UGI8 (Homo sapiens)
Explore Q9UGI8 
Go to UniProtKB:  Q9UGI8
GTEx:  ENSG00000135269 
Entity Groups  
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UniProt GroupQ9UGI8
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.215 
  • R-Value Observed: 0.218 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.829α = 90
b = 86.791β = 90
c = 115.266γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-01-26
    Type: Initial release
  • Version 1.1: 2011-08-24
    Changes: Database references, Other, Structure summary, Version format compliance
  • Version 1.2: 2017-06-28
    Changes: Data collection
  • Version 1.3: 2018-02-28
    Changes: Database references, Structure summary
  • Version 1.4: 2019-05-08
    Changes: Data collection, Experimental preparation
  • Version 1.5: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description