5KF4

Crystal structure of FN3 domain (Residues P368-P466) of Human collagen XX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.259 

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Literature

Crystal structure of the second fibronectin type III (FN3) domain from human collagen alpha 1 type XX

Zhao, J.Ren, J.Wang, N.Cheng, Z.Yang, R.Lin, G.Guo, Y.Cai, D.Xie, Y.Zhao, X.

(2017) Acta Crystallogr F Struct Biol Commun 73: 695-700

  • DOI: 10.1107/S2053230X1701648X
  • Primary Citation of Related Structures:  
    5KF4

  • PubMed Abstract: 
  • Collagen α1 type XX, which contains fibronectin type III (FN3) repeats involving six FN3 domains (referred to as the FN#1-FN#6 domains), is an unusual member of the fibril-associated collagens with interrupted triple helices (FACIT) subfamily of coll ...

    Collagen α1 type XX, which contains fibronectin type III (FN3) repeats involving six FN3 domains (referred to as the FN#1-FN#6 domains), is an unusual member of the fibril-associated collagens with interrupted triple helices (FACIT) subfamily of collagens. The results of standard protein BLAST suggest that the FN3 repeats might contribute to collagen α1 type XX acting as a cytokine receptor. To date, solution NMR structures of the FN#3, FN#4 and FN#6 domains have been determined. To obtain further structural evidence to understand the relationship between the structure and function of the FN3 repeats from collagen α1 type XX, the crystal structure of the FN#2 domain from human collagen α1 type XX (residues Pro386-Pro466; referred to as FN2-HCXX) was solved at 2.5 Å resolution. The crystal structure of FN2-HCXX shows an immunoglobulin-like fold containing a β-sandwich structure, which is formed by a three-stranded β-sheet (β1, β2 and β5) packed onto a four-stranded β-sheet (β3, β4, β6 and β7). Two consensus domains, tencon and fibcon, are structural analogues of FN2-HCXX. Fn8, an FN3 domain from human oncofoetal fibronectin, is the closest structural analogue of FN2-HCXX derived from a naturally occurring sequence. Based solely on the structural similarity of FN2-HCXX to other FN3 domains, the detailed functions of FN2-HCXX and the FN3 repeats in collagen α1 type XX cannot be identified.


    Related Citations: 
    • Design of novel FN3 domains with high stability by a consensus sequence approach
      Jacobs, S.A., Diem, M.D., Luo, J., Teplyakov, A., Obmolova, G., Malia, T., Gilliland, G.L., ONeil, K.T.
      (2012) Protein Eng Des Sel 25: 107

    Organizational Affiliation

    Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Ministry of Education, Chinese Academy of Medical Sciences and Peking Union Medical College, 151 Malianwa North Road, Haidian District, Beijing 100193, People's Republic of China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Collagen alpha-1(XX) chainABCD100Homo sapiensMutation(s): 0 
Gene Names: COL20A1KIAA1510
Find proteins for Q9P218 (Homo sapiens)
Explore Q9P218 
Go to UniProtKB:  Q9P218
NIH Common Fund Data Resources
PHAROS  Q9P218
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.259 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.476α = 90
b = 78.597β = 90
c = 81.989γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina81473114

Revision History 

  • Version 1.0: 2016-07-06
    Type: Initial release
  • Version 1.1: 2017-12-27
    Changes: Database references, Derived calculations