7MSG

The crystal structure of LIGHT in complex with HVEM and CD160

  • Classification: IMMUNE SYSTEM
  • Organism(s): Homo sapiens
  • Expression System: Drosophila melanogaster
  • Mutation(s): Yes 

  • Deposited: 2021-05-11 Released: 2021-10-27 
  • Deposition Author(s): Liu, W., Ramagopal, U., Garrett-Thompson, S.C., Fedorov, E., Bonanno, J.B., Almo, S.C.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Department of Energy (DOE, United States), National Institutes of Health/National Center for Research Resources (NIH/NCRR), National Institutes of Health/National Cancer Institute (NIH/NCI), National Institutes of Health/Office of the Director, National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.257 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

HVEM structures and mutants reveal distinct functions of binding to LIGHT and BTLA/CD160.

Liu, W.Chou, T.F.Garrett-Thomson, S.C.Seo, G.Y.Fedorov, E.Ramagopal, U.A.Bonanno, J.B.Wang, Q.Kim, K.Garforth, S.J.Kakugawa, K.Cheroutre, H.Kronenberg, M.Almo, S.C.

(2021) J Exp Med 218

  • DOI: https://doi.org/10.1084/jem.20211112
  • Primary Citation of Related Structures:  
    4RSU, 7MSG, 7MSJ

  • PubMed Abstract: 

    HVEM is a TNF (tumor necrosis factor) receptor contributing to a broad range of immune functions involving diverse cell types. It interacts with a TNF ligand, LIGHT, and immunoglobulin (Ig) superfamily members BTLA and CD160. Assessing the functional impact of HVEM binding to specific ligands in different settings has been complicated by the multiple interactions of HVEM and HVEM binding partners. To dissect the molecular basis for multiple functions, we determined crystal structures that reveal the distinct HVEM surfaces that engage LIGHT or BTLA/CD160, including the human HVEM-LIGHT-CD160 ternary complex, with HVEM interacting simultaneously with both binding partners. Based on these structures, we generated mouse HVEM mutants that selectively recognized either the TNF or Ig ligands in vitro. Knockin mice expressing these muteins maintain expression of all the proteins in the HVEM network, yet they demonstrate selective functions for LIGHT in the clearance of bacteria in the intestine and for the Ig ligands in the amelioration of liver inflammation.


  • Organizational Affiliation

    Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor necrosis factor ligand superfamily member 14, membrane form
A, B, C
165Homo sapiensMutation(s): 1 
Gene Names: TNFSF14HVEMLLIGHTUNQ391/PRO726
UniProt & NIH Common Fund Data Resources
Find proteins for O43557 (Homo sapiens)
Explore O43557 
Go to UniProtKB:  O43557
PHAROS:  O43557
GTEx:  ENSG00000125735 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43557
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CD160 antigen, soluble form,Tumor necrosis factor receptor superfamily member 14
D, E, F
250Homo sapiensMutation(s): 0 
Gene Names: CD160BY55TNFRSF14HVEAHVEMUNQ329/PRO509
UniProt & NIH Common Fund Data Resources
Find proteins for O95971 (Homo sapiens)
Explore O95971 
Go to UniProtKB:  O95971
PHAROS:  O95971
GTEx:  ENSG00000117281 
Find proteins for Q92956 (Homo sapiens)
Explore Q92956 
Go to UniProtKB:  Q92956
PHAROS:  Q92956
GTEx:  ENSG00000157873 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsO95971Q92956
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseG [auth H],
I [auth J],
K [auth L]
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseH [auth I],
J [auth K],
L [auth M]
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.257 
  • Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 214.689α = 90
b = 214.689β = 90
c = 214.689γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALEPACKdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41GM103473
Department of Energy (DOE, United States)United StatesDE-AC02-98CH10886
National Institutes of Health/National Center for Research Resources (NIH/NCRR)United StatesP41RR012408
Department of Energy (DOE, United States)United StatesDE-AC02-06CH11357
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesP30CA013330
National Institutes of Health/Office of the DirectorUnited StatesS10OD020068
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesP30CA023100
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United StatesP30DK120515
National Institutes of Health/National Center for Research Resources (NIH/NCRR)United StatesS10RR027366
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesU01AI125955
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United StatesP01DK46763

Revision History  (Full details and data files)

  • Version 1.0: 2021-10-27
    Type: Initial release
  • Version 1.1: 2021-11-10
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description