Uniprot accession / id : (O95407)
 
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Entry Information
Entry status  (1)
REL
(8)
 
Experimental methods  (1)
X-ray diffraction
(8)
 
Authors  (20)
Almo SC
(8)
Cheng H
(8)
Zhan C
(8)
Nathenson SG
(7)
Bonanno JB
(5)
Liu W
(5)
Ramagopal U
(5)
Atoms-to-Animals: The Immune Function Network (IFN)
(4)
New York Structural Genomics Research Consortium (NYSGRC)
(4)
Ramagopal UA
(4)
Toro R
(4)
Brenowitz M
(3)
Hui X
(3)
Kumar PR
(3)
Li Z
(3)
Patskovsky Y
(3)
Yan Q
(3)
Bhosle R
(2)
Bhosle RC
(2)
Sampathkumar P
(1)
 
Homo / hetero assembly  (2)
hetero
(7)
homo
(1)
 
Assembly composition  (2)
protein/protein complex
(7)
protein structure
(1)
 
Assembly polymer count  (3)
hexamer
(4)
dodecamer
(3)
monomer
(1)
 
Resolution distribution
2.0 - 2.5
(4)
2.5 - 3
(3)
3.0 - 3.5
(1)
 
Release year distribution
2005 - 2010
(1)
2010 - 2015
(7)
2015 - 2020
(1)
 
Journal  (1)
Structure
(8)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(8)
 
Organism name  (1)
Homo sapiens
(8)
 
Molecule name  (35)
DcR3
(8)
Decoy receptor 3
(8)
Decoy receptor for Fas ligand
(8)
M68
(8)
Tumor necrosis factor receptor superfamily member 6B
(8)
HVEM-L
(3)
Herpes virus entry mediator ligand
(3)
Herpesvirus entry mediator ligand
(3)
Tumor necrosis factor ligand superfamily member 14
(3)
Tumor necrosis factor ligand superfamily member 14, membrane form
(3)
Tumor necrosis factor ligand superfamily member 14, soluble form
(3)
ADAM10-processed FasL form
(2)
APL
(2)
APTL
(2)
Apoptosis antigen ligand
(2)
CD95 ligand
(2)
CD95-L
(2)
Fas antigen ligand
(2)
Fas ligand
(2)
FasL
(2)
FasL ICD
(2)
FasL intracellular domain
(2)
Receptor-binding FasL ectodomain
(2)
SPA
(2)
SPPL2A-processed FasL form
(2)
Soluble Fas ligand
(2)
TNF ligand-related molecule 1
(2)
Tumor necrosis factor ligand superfamily member 15
(2)
Tumor necrosis factor ligand superfamily member 15, membrane form
(2)
Tumor necrosis factor ligand superfamily member 15, secreted form
(2)
Tumor necrosis factor ligand superfamily member 6
(2)
Tumor necrosis factor ligand superfamily member 6, membrane form
(2)
Tumor necrosis factor ligand superfamily member 6, soluble form
(2)
Vascular endothelial cell growth inhibitor
(2)
sFasL
(2)
 
Molecule type  (1)
Protein
(8)
 
Gene names  (16)
DCR3
(8)
TNFRSF6B
(8)
TR6
(8)
UNQ186/PRO212
(8)
HVEML
(3)
LIGHT
(3)
TNFSF14
(3)
UNQ391/PRO726
(3)
APT1LG1
(2)
CD95L
(2)
FASL
(2)
FASLG
(2)
TL1
(2)
TNFSF15
(2)
TNFSF6
(2)
VEGI
(2)
 
Interacting Molecules  (4)
Tumor necrosis factor receptor superfamily member 6B
(7)
Tumor necrosis factor ligand superfamily member 14, soluble form
(3)
Tumor necrosis factor ligand superfamily member 15, secreted form
(2)
Tumor necrosis factor ligand superfamily member 6, soluble form
(2)
 
Interacting ligands  (6)
MG : MAGNESIUM ION
(4)
BMA : beta-D-mannopyranose
(3)
MAN : alpha-D-mannopyranose
(3)
NAG : 2-acetamido-2-deoxy-beta-D-glucopyranose
(3)
CL : CHLORIDE ION
(1)
GOL : GLYCEROL
(1)
 
Function and Biology
Biological function  (1)
tumor necrosis factor receptor binding
(7)
 
Biological process  (2)
immune response
(7)
apoptotic process
(2)
 
Biological cell component  (1)
membrane
(7)
 
Sequence and Structure classification
CATH class  (1)
Mainly Beta
(8)
 
CATH topology  (2)
Tumor Necrosis Factor Receptor, subunit A; domain 2
(8)
Jelly Rolls
(7)
 
Pfam accession / name  (2)
PF00020 : TNFR_c6
(8)
PF00229 : TNF
(7)
 
Experimental Information
Diffraction protocol  (1)
Single wavelength
(8)
 
Diffraction radiation source type  (1)
Synchrotron
(8)
 
Diffraction source  (3)
NSLS BEAMLINE X29A
(6)
APS BEAMLINE 24-ID-E
(1)
APS BEAMLINE 31-ID
(1)
 
Synchrotron site  (2)
NSLS
(6)
APS
(2)
 
Diffraction detector type  (1)
CCD
(8)
 
Refinement software  (1)
REFMAC
(8)
 
Representative Structures
Representative Structures
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Entries 1 to 8 of 8
Entries 1 to 8 of 8
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Crystal structure of light mutant2 and dcr3 complex
Liu W, Bonanno JB, Zhan C, Kumar PR, Toro R, Nathenson SG, Almo SC, Atoms-to-Animals: The Immune Function Network (IFN), New York Structural Genomics Research Consortium (NYSGRC)
Structure (2014) [PMID: 25087510  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: MG    MG   
Carbohydrate polymer components:
Molecule 1 - BMA(1), MAN(1), NAG(2)
Molecule 2 - NAG(2)
Assembly name: Tumor necrosis factor ligand superfamily member 14, soluble form and Tumor necrosis factor receptor superfamily member 6B (Preferred)   search this complex
PDBe complex ID: PDB-CPX-128994 (Preferred)   search this ID
PDBe-KB: O43557    O95407   
X-ray diffraction
2.78Å resolution
Released: 7 Aug 2013
Model geometry
Fit model/data
4kgg
4kgg
4kgg
CRYSTAL STRUCTURE OF LIGHT AND DcR3 COMPLEX
Liu W, Zhan C, Bonanno JB, Bhosle RC, Nathenson SG, Almo SC, Atoms-to-Animals: The Immune Function Network (IFN), New York Structural Genomics Research Consortium (NYSGRC)
Structure (2014) [PMID: 25087510  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: MG    NAG    CL    MG    NAG   
Carbohydrate polymer components:
Molecule 1 - BMA(1), MAN(1), NAG(2)
Assembly name: Tumor necrosis factor ligand superfamily member 14, soluble form and Tumor necrosis factor receptor superfamily member 6B (Preferred)   search this complex
PDBe complex ID: PDB-CPX-128994 (Preferred)   search this ID
PDBe-KB: O43557    O95407   
X-ray diffraction
2.4Å resolution
Released: 13 Mar 2013
Model geometry
Fit model/data
4j6g
4j6g
4j6g
Crystal Structure of a human FasL mutant in complex with human DcR3
Liu W, Bonanno JB, Almo SC
Structure (2016) [PMID: 27806260  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: NA    NA   
Assembly name: Tumor necrosis factor receptor superfamily member 6B and Tumor necrosis factor ligand superfamily member 6, soluble form (Preferred)   search this complex
PDBe complex ID: PDB-CPX-131928 (Preferred)   search this ID
PDBe-KB: P48023    O95407   
X-ray diffraction
3.1Å resolution
Released: 7 Sep 2016
Model geometry
Fit model/data
5l36
5l36
5l36
Crystal structure of a human light loop mutant in complex with dcr3
Liu W, Zhan C, Bonanno JB, Sampathkumar P, Toro R, Nathenson SG, Almo SC, New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)
Structure (2014) [PMID: 25087510  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: MG    MG   
Carbohydrate polymer components:
Molecule 1 - BMA(1), MAN(1), NAG(2)
Molecule 2 - NAG(2)
Assembly name: Tumor necrosis factor ligand superfamily member 14, soluble form and Tumor necrosis factor receptor superfamily member 6B (Preferred)   search this complex
PDBe complex ID: PDB-CPX-128994 (Preferred)   search this ID
PDBe-KB: O43557    O95407   
X-ray diffraction
2.27Å resolution
Released: 10 Jul 2013
Model geometry
Fit model/data
4kgq
4kgq
4kgq
Crystal structure of FASL and DcR3 complex
Liu W, Ramagopal UA, Zhan C, Bonanno JB, Bhosle RC, Nathenson SG, Almo SC, Atoms-to-Animals: The Immune Function Network (IFN), New York Structural Genomics Research Consortium (NYSGRC)
Structure (2016) [PMID: 27806260  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: MG    GOL    MG   
Assembly name: Tumor necrosis factor receptor superfamily member 6B and Tumor necrosis factor ligand superfamily member 6, soluble form (Preferred)   search this complex
PDBe complex ID: PDB-CPX-131928 (Preferred)   search this ID
PDBe-KB: P48023    O95407   
X-ray diffraction
2.5Å resolution
Released: 27 Nov 2013
Model geometry
Fit model/data
4msv
4msv
4msv
The structure of TL1A-DCR3 COMPLEX
Zhan C, Patskovsky Y, Yan Q, Li Z, Ramagopal UA, Nathenson SG, Almo SC
Structure (2011) [PMID: 21300286  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Assembly name: Tumor necrosis factor receptor superfamily member 6B and Tumor necrosis factor ligand superfamily member 15, secreted form (Preferred)   search this complex
PDBe complex ID: PDB-CPX-131829 (Preferred)   search this ID
PDBe-KB: O95150    O95407   
X-ray diffraction
2.951Å resolution
Released: 23 Feb 2011
Model geometry
Fit model/data
3mi8
3mi8
3mi8
Crystal Structure of DcR3-TL1A complex
Zhan C, Patskovsky Y, Yan Q, Li Z, Ramagopal UA, Nathenson SG, Almo SC
Structure (2011) [PMID: 21300286  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Assembly name: Tumor necrosis factor receptor superfamily member 6B and Tumor necrosis factor ligand superfamily member 15, secreted form (Preferred)   search this complex
PDBe complex ID: PDB-CPX-131829 (Preferred)   search this ID
PDBe-KB: O95150    O95407   
X-ray diffraction
2.45Å resolution
Released: 13 Oct 2010
Model geometry
Fit model/data
3k51
3k51
3k51
Crystal structure of DCR3
Zhan C, Patskovsky Y, Yan Q, Li Z, Ramagopal UA, Nathenson SG, Almo SC
Structure (2011) [PMID: 21300286  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Tumor necrosis factor receptor superfamily member 6B (Preferred)   search this complex
PDBe complex ID: PDB-CPX-131927 (Preferred)   search this ID
PDBe-KB: O95407   
X-ray diffraction
2.901Å resolution
Released: 23 Feb 2011
Model geometry
Fit model/data
3mhd
3mhd
3mhd
Entries 1 to 8 of 8
Entries 1 to 8 of 8