Experimental Data Snapshot

  • Resolution: 3.10 Å
  • R-Value Free: 0.322 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.262 

wwPDB Validation   3D Report Full Report

This is version 2.2 of the entry. See complete history


Crystal structure of a pair of follistatin-like and EF-hand calcium-binding domains in BM-40.

Hohenester, E.Maurer, P.Timpl, R.

(1997) EMBO J 16: 3778-3786

  • DOI: https://doi.org/10.1093/emboj/16.13.3778
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    BM-40 (also known as SPARC or osteonectin) is an anti-adhesive secreted glycoprotein involved in tissue remodelling. Apart from an acidic N-terminal segment, BM-40 consists of a follistatin-like (FS) domain and an EF-hand calcium-binding (EC) domain. Here we report the crystal structure at 3.1 A resolution of the FS-EC domain pair of human BM-40. The two distinct domains interact through a small interface that involves the EF-hand pair of the EC domain. Residues implicated in cell binding, inhibition of cell spreading and disassembly of focal adhesions cluster on one face of BM-40, opposite the binding epitope for collagens and the N-linked carbohydrate. The elongated FS domain is structurally related to serine protease inhibitors of the Kazal family. Notable differences are an insertion into the inhibitory loop in BM-40 and a protruding N-terminal beta-hairpin with striking similarities to epidermal growth factor. This hairpin is likely to act as a rigid spacer in proteins containing tandemly repeated FS domains, such as follistatin and agrin, and forms the heparin-binding site in follistatin.

  • Organizational Affiliation

    Department of Crystallography, Birkbeck College, London, UK.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
233Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P09486 (Homo sapiens)
Explore P09486 
Go to UniProtKB:  P09486
PHAROS:  P09486
GTEx:  ENSG00000113140 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP09486
Sequence Annotations
  • Reference Sequence


Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
C, D
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Experimental Data & Validation

Experimental Data

  • Resolution: 3.10 Å
  • R-Value Free: 0.322 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.262 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.77α = 90
b = 56.35β = 104.38
c = 111.6γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
CCP4data reduction
Agrovatadata reduction
TRUNCATEdata reduction
MAMAmodel building
X-PLORmodel building
CCP4data scaling
TRUNCATEdata scaling
SCALAdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-10-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Refinement description, Structure summary
  • Version 2.1: 2021-03-31
    Changes: Source and taxonomy, Structure summary
  • Version 2.2: 2023-08-09
    Changes: Advisory, Database references, Refinement description