4MXW

Structure of heterotrimeric lymphotoxin LTa1b2 bound to lymphotoxin beta receptor LTbR and anti-LTa Fab


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.60 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.234 

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This is version 1.2 of the entry. See complete history


Literature

Dimerization of LT beta R by LT alpha 1 beta 2 is necessary and sufficient for signal transduction.

Sudhamsu, J.Yin, J.Chiang, E.Y.Starovasnik, M.A.Grogan, J.L.Hymowitz, S.G.

(2013) Proc Natl Acad Sci U S A 110: 19896-19901

  • DOI: 10.1073/pnas.1310838110
  • Primary Citation of Related Structures:  
    4MXV, 4MXW

  • PubMed Abstract: 
  • Homotrimeric TNF superfamily ligands signal by inducing trimers of their cognate receptors. As a biologically active heterotrimer, Lymphotoxin(LT)α1β2 is unique in the TNF superfamily. How the three unique potential receptor-binding interfaces in LTα1β2 trigger signaling via LTβ Receptor (LTβR) resulting in lymphoid organogenesis and propagation of inflammatory signals is poorly understood ...

    Homotrimeric TNF superfamily ligands signal by inducing trimers of their cognate receptors. As a biologically active heterotrimer, Lymphotoxin(LT)α1β2 is unique in the TNF superfamily. How the three unique potential receptor-binding interfaces in LTα1β2 trigger signaling via LTβ Receptor (LTβR) resulting in lymphoid organogenesis and propagation of inflammatory signals is poorly understood. Here we show that LTα1β2 possesses two binding sites for LTβR with distinct affinities and that dimerization of LTβR by LTα1β2 is necessary and sufficient for signal transduction. The crystal structure of a complex formed by LTα1β2, LTβR, and the fab fragment of an antibody that blocks LTβR activation reveals the lower affinity receptor-binding site. Mutations targeting each potential receptor-binding site in an engineered single-chain variant of LTα1β2 reveal the high-affinity site. NF-κB reporter assays further validate that disruption of receptor interactions at either site is sufficient to prevent signaling via LTβR.


    Organizational Affiliation

    Departments of Structural Biology and Immunology, Genentech, Inc., South San Francisco, CA 94080.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Tumor necrosis factor receptor superfamily member 3H [auth R], A [auth S]193Homo sapiensMutation(s): 0 
Gene Names: LTBRD12S370TNFCRTNFR3TNFRSF3
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Find proteins for P36941 (Homo sapiens)
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PHAROS:  P36941
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Lymphotoxin-alphaE [auth A], B [auth X]157Homo sapiensMutation(s): 0 
Gene Names: LTATNFBTNFSF1
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Find proteins for P01374 (Homo sapiens)
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PHAROS:  P01374
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Lymphotoxin-betaF [auth B], G [auth D], C [auth Y], D [auth Z]210Homo sapiensMutation(s): 0 
Gene Names: LTBTNFCTNFSF3
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Find proteins for Q06643 (Homo sapiens)
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PHAROS:  Q06643
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
anti-Lymphotoxin alpha antibody heavy chainJ [auth H], I [auth W]213Homo sapiensMutation(s): 0 
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
anti-Lymphotoxin alpha antibody light chainL, K [auth V]211Homo sapiensMutation(s): 0 
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.60 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.234 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 211.201α = 90
b = 52.428β = 101.1
c = 253.241γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
PHASERphasing
PHENIXrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-11-13
    Type: Initial release
  • Version 1.1: 2013-12-11
    Changes: Database references
  • Version 1.2: 2013-12-18
    Changes: Database references