3EO1

Structure of the Fab Fragment of GC-1008 in Complex with Transforming Growth Factor-Beta 3

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.255 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

A cytokine-neutralizing antibody as a structural mimetic of 2 receptor interactions

Wilkinson, T., Turner, R., Podichetty, S., Finch, D., McCourt, M., Loning, S., Jermutus, L.

(2008) Proc Natl Acad Sci U S A 105: 20251-20256

  • DOI: 10.1073/pnas.0807200106
  • Structures With Same Primary Citation

  • PubMed Abstract: 

    • TGF-beta isoforms are key modulators of a broad range of biological pathways and increasingly are exploited as therapeutic targets. Here, we describe the crystal structures of a pan-TGF-beta neutralizing antibody, GC-1008, alone and in complex with T ...

    TGF-beta isoforms are key modulators of a broad range of biological pathways and increasingly are exploited as therapeutic targets. Here, we describe the crystal structures of a pan-TGF-beta neutralizing antibody, GC-1008, alone and in complex with TGF-beta3. The antibody is currently in clinical evaluation for idiopathic pulmonary fibrosis, melanoma, and renal cell cancer. GC-1008 recognizes an asymmetric binding interface across the TGF-beta homodimer with high affinity. Whereas both cognate receptors, TGF-beta-receptor types I and II, are required to recognize all 3 TGF-beta isoforms, GC-1008 has been engineered to bind with high affinity to TGF-beta1, 2, and 3 via a single interaction surface. Comparison with existing structures and models of TGF-beta interaction with its receptors suggests that the antibody binds to a similar epitope to the 2 receptors together and is therefore a structurally different but functionally identical mimic of the binding mode of both receptors.

    Organizational Affiliation: 

    Biochemisches Institut, Universität Zürich, Winterthurerstrasse 190, 8057 Zurich, Switzerland.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GC-1008 Fab Light Chain
A, D, G, J
215Mus musculusMutation(s): 0 
Protein Feature View
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
GC-1008 Fab Heavy Chain
B, E, H, K
225Mus musculusMutation(s): 0 
Find proteins for P01861 (Homo sapiens)
Go to UniProtKB:  P01861
NIH Common Fund Data Resources
PHAROS  P01861
GTEx  ENSG00000211892
Protein Feature View
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Transforming growth factor beta-3
C, F, I, L
112Homo sapiensMutation(s): 0 
Gene Names: TGFB3
Find proteins for P10600 (Homo sapiens)
Go to UniProtKB:  P10600
NIH Common Fund Data Resources
PHAROS  P10600
GTEx  ENSG00000119699
Protein Feature View
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.255 
  • R-Value Observed: 0.255 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 149.04α = 90
b = 149.13β = 90
c = 149.66γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
PHASERphasing
CNSrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-12-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance