8YQ1 | pdb_00008yq1

Linear form of FGF10 from Homo sapiens


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free: 
    0.278 (Depositor), 0.279 (DCC) 
  • R-Value Work: 
    0.202 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 
    0.205 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

N-terminal helix formation and dimer-monomer transition of FGF10 in specific recognition of FGFR2b.

Park, H.Park, Y.S.Kwak, K.Yun, J.Lee, H.Lee, C.E.Lee, D.Lee, K.W.An, Y.J.Yim, H.S.Lee, J.H.Cha, S.S.Kang, L.W.

(2025) FEBS J 

  • DOI: https://doi.org/10.1111/febs.70218
  • Primary Citation of Related Structures:  
    8YQ1

  • PubMed Abstract: 

    Fibroblast growth factors (FGFs) are crucial for various cellular functions, including proliferation, differentiation, tissue repair, and immune responses. FGF10, part of the FGF7 subfamily, binds to the FGFR2b receptor via heparin sulfate. We determined the crystal structure of human FGF10 alone. In the FGFR2b-bound form, the N-terminal region of FGF10 formed an α1 helix. This α1 helix, however, exists as a flexible loop with dual conformations in the unbound structure. Deleting this conformationally dynamic α1 helix reduces cell proliferation activity in vitro. Receptor-binding-induced formation of the α1 helix in FGF10 creates a distinct protruded knob and concave pocket on the globular core of FGFs, increasing the FGFR2b-binding surface by 37%. Size-exclusion chromatography showed a concentration-dependent dimer-monomer shift in purified FGF10, with the hydrophobic dimer interface aligning with the FGFR2b D2-domain-binding surface. These findings suggest that the conformational change in the N-terminal region and the dimer-monomer shift are critical for FGF10's specific binding to FGFR2b, highlighting the functional significance of these structural adaptations.


  • Organizational Affiliation
    • Department of Biological Sciences, Konkuk University, Seoul, Republic of Korea.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Fibroblast growth factor 10
A, B
142Homo sapiensMutation(s): 0 
Gene Names: FGF10
UniProt & NIH Common Fund Data Resources
Find proteins for O15520 (Homo sapiens)
Explore O15520 
Go to UniProtKB:  O15520
PHAROS:  O15520
GTEx:  ENSG00000070193 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15520
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free:  0.278 (Depositor), 0.279 (DCC) 
  • R-Value Work:  0.202 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 0.205 (Depositor) 
Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.845α = 90
b = 73.845β = 90
c = 227.807γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
HKL-3000phasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentKorea, Republic OfKS171094

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-26
    Type: Initial release
  • Version 1.1: 2025-10-15
    Changes: Database references